-- dump date 20140619_001317 -- class Genbank::misc_feature -- table misc_feature_note -- id note 1069642000001 chromosomal replication initiator protein DnaA; Region: DnaA; TIGR00362 1069642000002 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 1069642000003 Walker A motif; other site 1069642000004 ATP binding site [chemical binding]; other site 1069642000005 Walker B motif; other site 1069642000006 arginine finger; other site 1069642000007 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 1069642000008 DnaA box-binding interface [nucleotide binding]; other site 1069642000009 DNA polymerase III subunit beta; Validated; Region: PRK05643 1069642000010 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 1069642000011 putative DNA binding surface [nucleotide binding]; other site 1069642000012 dimer interface [polypeptide binding]; other site 1069642000013 beta-clamp/clamp loader binding surface; other site 1069642000014 beta-clamp/translesion DNA polymerase binding surface; other site 1069642000015 recombination protein F; Reviewed; Region: recF; PRK00064 1069642000016 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1069642000017 Walker A/P-loop; other site 1069642000018 ATP binding site [chemical binding]; other site 1069642000019 Q-loop/lid; other site 1069642000020 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1069642000021 ABC transporter signature motif; other site 1069642000022 Walker B; other site 1069642000023 D-loop; other site 1069642000024 H-loop/switch region; other site 1069642000025 DNA gyrase subunit B; Provisional; Region: gyrB; PRK14939 1069642000026 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 1069642000027 ATP binding site [chemical binding]; other site 1069642000028 Mg2+ binding site [ion binding]; other site 1069642000029 G-X-G motif; other site 1069642000030 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 1069642000031 anchoring element; other site 1069642000032 dimer interface [polypeptide binding]; other site 1069642000033 ATP binding site [chemical binding]; other site 1069642000034 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 1069642000035 active site 1069642000036 putative metal-binding site [ion binding]; other site 1069642000037 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 1069642000038 DNA gyrase subunit A; Validated; Region: PRK05560 1069642000039 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 1069642000040 CAP-like domain; other site 1069642000041 active site 1069642000042 primary dimer interface [polypeptide binding]; other site 1069642000043 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 1069642000044 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 1069642000045 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 1069642000046 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 1069642000047 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 1069642000048 F0F1 ATP synthase subunit A; Validated; Region: PRK05815 1069642000049 ATP synthase subunit C; Region: ATP-synt_C; cl00466 1069642000050 Cu(I)-responsive transcriptional regulator; Region: CueR; TIGR02044 1069642000051 Helix-Turn-Helix DNA binding domain of the BmrR transcription regulator; Region: HTH_BmrR; cd01107 1069642000052 DNA binding residues [nucleotide binding] 1069642000053 drug binding residues [chemical binding]; other site 1069642000054 dimer interface [polypeptide binding]; other site 1069642000055 Phosphomannomutase [Carbohydrate transport and metabolism]; Region: {ManB}; COG1109 1069642000056 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 1069642000057 active site 1069642000058 substrate binding site [chemical binding]; other site 1069642000059 metal binding site [ion binding]; metal-binding site 1069642000060 4-hydroxythreonine-4-phosphate dehydrogenase; Region: pdxA; TIGR00557 1069642000061 SurA N-terminal domain; Region: SurA_N; pfam09312 1069642000062 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 1069642000063 SurA N-terminal domain; Region: SurA_N_3; cl07813 1069642000064 PPIC-type PPIASE domain; Region: Rotamase_2; pfam13145 1069642000065 peptidylprolyl isomerase; Provisional; Region: prsA; PRK00059 1069642000066 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 1069642000067 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: DUF374; Region: LPLAT_DUF374-like; cd07983 1069642000068 putative acyl-acceptor binding pocket; other site 1069642000069 Electron transfer flavoprotein, alpha subunit [Energy production and conversion]; Region: FixB; COG2025 1069642000070 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 1069642000071 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 1069642000072 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 1069642000073 Ligand binding site [chemical binding]; other site 1069642000074 Electron transfer flavoprotein domain; Region: ETF; pfam01012 1069642000075 Succinate:quinone oxidoreductase (SQR)-like Type B subfamily 2, transmembrane subunit; composed of proteins with similarity to the SQRs of Geobacter metallireducens and Corynebacterium glutamicum. SQR catalyzes the oxidation of succinate to fumarate...; Region: SQR_TypeB_2_TM; cd03498 1069642000076 proximal heme binding site [chemical binding]; other site 1069642000077 putative dimer interface [polypeptide binding]; other site 1069642000078 putative Iron-sulfur protein interface [polypeptide binding]; other site 1069642000079 distal heme binding site [chemical binding]; other site 1069642000080 succinate dehydrogenase flavoprotein subunit; Reviewed; Region: sdhA; PRK07573 1069642000081 L-aspartate oxidase; Provisional; Region: PRK06175 1069642000082 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 1069642000083 succinate dehydrogenase/fumarate reductase iron-sulfur subunit; Validated; Region: PRK07570 1069642000084 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_3; pfam13085 1069642000085 Peptidase S8 family domain in Subtilisin-like proteins; Region: Peptidases_S8_Subtilisin_like; cd07473 1069642000086 catalytic triad [active] 1069642000087 putative active site [active] 1069642000088 CUB domain; extracellular domain; present in proteins mostly known to be involved in development; not found in prokaryotes, plants and yeast; Region: CUB; cd00041 1069642000089 heterodimerization interface [polypeptide binding]; other site 1069642000090 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 1069642000091 Forkhead associated domain (FHA); found in eukaryotic and prokaryotic proteins. Putative nuclear signalling domain. FHA domains may bind phosphothreonine, phosphoserine and sometimes phosphotyrosine. In eukaryotes, many FHA domain-containing proteins...; Region: FHA; cd00060 1069642000092 FOG: FHA domain [Signal transduction mechanisms]; Region: COG1716 1069642000093 phosphopeptide binding site; other site 1069642000094 Ribosomal protein S6; Region: Ribosomal_S6; pfam01250 1069642000095 Predicted membrane protein (DUF2232); Region: DUF2232; cl01728 1069642000096 50S ribosomal protein L9; Reviewed; Region: rplI; PRK00137 1069642000097 Ribosomal protein L9, N-terminal domain; Region: Ribosomal_L9_N; pfam01281 1069642000098 Ribosomal protein L9, C-terminal domain; Region: Ribosomal_L9_C; pfam03948 1069642000099 Trypsin-like serine protease; Many of these are synthesized as inactive precursor zymogens that are cleaved during limited proteolysis to generate their active forms. Alignment contains also inactive enzymes that have substitutions of the catalytic triad...; Region: Tryp_SPc; cl00149 1069642000100 active site 1069642000101 substrate binding sites [chemical binding]; other site 1069642000102 Short-chain dehydrogenases of various substrate specificities [General function prediction only]; Region: DltE; COG0300 1069642000103 17beta hydroxysteroid dehydrogenase-like, classical (c) SDRs; Region: 17beta-HSD-like_SDR_c; cd05374 1069642000104 NADP binding site [chemical binding]; other site 1069642000105 active site 1069642000106 steroid binding site; other site 1069642000107 replicative DNA helicase; Region: DnaB; TIGR00665 1069642000108 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 1069642000109 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 1069642000110 Walker A motif; other site 1069642000111 ATP binding site [chemical binding]; other site 1069642000112 Walker B motif; other site 1069642000113 DNA binding loops [nucleotide binding] 1069642000114 Bacterial regulatory protein, Fis family; Region: HTH_8; cl17420 1069642000115 putative 7-cyano-7-deazaguanosine (preQ0) biosynthesis protein QueE, gammaproteobacterial type; Region: rSAM_QueE_gams; TIGR04349 1069642000116 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 1069642000117 FeS/SAM binding site; other site 1069642000118 Domain of unknown function (DUF4117); Region: DUF4117; pfam13491 1069642000119 DNA segregation ATPase FtsK/SpoIIIE and related proteins [Cell division and chromosome partitioning]; Region: FtsK; COG1674 1069642000120 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 1069642000121 Ftsk gamma domain; Region: Ftsk_gamma; pfam09397 1069642000122 Protein of unknown function (DUF3108); Region: DUF3108; pfam11306 1069642000123 diaminopimelate epimerase; Provisional; Region: dapF; PRK00450 1069642000124 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 1069642000125 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 1069642000126 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 1069642000127 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 1069642000128 dimer interface [polypeptide binding]; other site 1069642000129 active site 1069642000130 catalytic residue [active] 1069642000131 dihydrodipicolinate reductase; Provisional; Region: PRK00048 1069642000132 Dihydrodipicolinate reductase, N-terminus; Region: DapB_N; pfam01113 1069642000133 Dihydrodipicolinate reductase, C-terminus; Region: DapB_C; pfam05173 1069642000134 Transaldolase-like fructose-6-phosphate aldolases (FSA) found in bacteria and archaea; Region: Transaldolase_FSA; cd00956 1069642000135 active site 1069642000136 intersubunit interactions; other site 1069642000137 catalytic residue [active] 1069642000138 UDP-N-acetylmuramoylalanine-D-glutamate ligase [Cell envelope biogenesis, outer membrane]; Region: MurD; COG0771 1069642000139 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 1069642000140 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 1069642000141 Escherichia coli YbbF/LpxH and related proteins, metallophosphatase domain; Region: MPP_YbbF-LpxH; cd07398 1069642000142 putative active site [active] 1069642000143 putative metal binding site [ion binding]; other site 1069642000144 Histone 2A; H2A is a subunit of the nucleosome. The nucleosome is an octamer containing two H2A, H2B, H3, and H4 subunits. The H2A subunit performs essential roles in maintaining structural integrity of the nucleosome, chromatin condensation, and binding...; Region: H2A; cl00074 1069642000145 Astacin (Peptidase family M12A); Region: Astacin; pfam01400 1069642000146 Zinc-dependent metalloprotease, astacin_like subfamily or peptidase family M12A, a group of zinc-dependent proteolytic enzymes with a HExxH zinc-binding site/active site. Members of this family may have an amino terminal propeptide, which is cleaved to...; Region: ZnMc_astacin_like; cd04280 1069642000147 active site 1069642000148 NAD-dependent DNA ligase LigA; Validated; Region: ligA; PRK07956 1069642000149 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 1069642000150 nucleotide binding pocket [chemical binding]; other site 1069642000151 K-X-D-G motif; other site 1069642000152 catalytic site [active] 1069642000153 NAD-dependent DNA ligase OB-fold domain; Region: DNA_ligase_OB; pfam03120 1069642000154 NAD-dependent DNA ligase C4 zinc finger domain; Region: DNA_ligase_ZBD; pfam03119 1069642000155 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 1069642000156 Dimer interface [polypeptide binding]; other site 1069642000157 BRCT sequence motif; other site 1069642000158 aspartyl/glutamyl-tRNA amidotransferase subunit C; Reviewed; Region: gatC; PRK00034 1069642000159 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 1069642000160 aspartyl/glutamyl-tRNA amidotransferase subunit A; Reviewed; Region: gatA; PRK00012 1069642000161 aspartyl/glutamyl-tRNA amidotransferase subunit B; Validated; Region: gatB; PRK05477 1069642000162 GatB/GatE catalytic domain; Region: GatB_N; pfam02934 1069642000163 GatB domain; Region: GatB_Yqey; smart00845 1069642000164 exopolyphosphatase; Region: exo_poly_only; TIGR03706 1069642000165 Ppx/GppA phosphatase family; Region: Ppx-GppA; pfam02541 1069642000166 Uncharacterized ACR, COG1430; Region: DUF192; pfam02643 1069642000167 PilZ domain; Region: PilZ; pfam07238 1069642000168 transcription termination factor Rho; Provisional; Region: rho; PRK09376 1069642000169 Rho termination factor, N-terminal domain; Region: Rho_N; pfam07498 1069642000170 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 1069642000171 RNA binding site [nucleotide binding]; other site 1069642000172 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 1069642000173 multimer interface [polypeptide binding]; other site 1069642000174 Walker A motif; other site 1069642000175 ATP binding site [chemical binding]; other site 1069642000176 Walker B motif; other site 1069642000177 50S ribosomal protein L31 type B; Reviewed; Region: rpmE2; PRK01678 1069642000178 peptide chain release factor 1; Validated; Region: prfA; PRK00591 1069642000179 This domain is found in peptide chain release factors; Region: PCRF; smart00937 1069642000180 RF-1 domain; Region: RF-1; pfam00472 1069642000181 N5-glutamine S-adenosyl-L-methionine-dependent methyltransferase; Provisional; Region: PRK09328 1069642000182 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 1069642000183 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Region: murA; TIGR01072 1069642000184 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 1069642000185 active site 1069642000186 hinge; other site 1069642000187 Catalytic NodB homology domain of uncharacterized bacterial polysaccharide deacetylases; Region: CE4_NodB_like_1; cd10960 1069642000188 NodB motif; other site 1069642000189 putative active site [active] 1069642000190 putative catalytic site [active] 1069642000191 putative Zn binding site [ion binding]; other site 1069642000192 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 1069642000193 TPR motif; other site 1069642000194 binding surface 1069642000195 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 1069642000196 binding surface 1069642000197 TPR motif; other site 1069642000198 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 1069642000199 binding surface 1069642000200 TPR motif; other site 1069642000201 Tetratricopeptide repeat; Region: TPR_16; pfam13432 1069642000202 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 1069642000203 binding surface 1069642000204 TPR motif; other site 1069642000205 Tetratricopeptide repeat; Region: TPR_16; pfam13432 1069642000206 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 1069642000207 binding surface 1069642000208 TPR motif; other site 1069642000209 Tetratricopeptide repeat; Region: TPR_12; pfam13424 1069642000210 seryl-tRNA synthetase; Provisional; Region: PRK05431 1069642000211 Seryl-tRNA synthetase N-terminal domain; Region: Seryl_tRNA_N; pfam02403 1069642000212 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 1069642000213 dimer interface [polypeptide binding]; other site 1069642000214 active site 1069642000215 motif 1; other site 1069642000216 motif 2; other site 1069642000217 motif 3; other site 1069642000218 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 1069642000219 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 1069642000220 Adenylate cyclase, family 3 (some proteins contain HAMP domain) [Signal transduction mechanisms]; Region: CyaA; COG2114 1069642000221 cyclase homology domain; Region: CHD; cd07302 1069642000222 metal binding site [ion binding]; metal-binding site 1069642000223 nucleotidyl binding site; other site 1069642000224 dimer interface [polypeptide binding]; other site 1069642000225 Domain of unknown function (DUF333); Region: DUF333; pfam03891 1069642000226 C1 Peptidase family (MEROPS database nomenclature), also referred to as the papain family; composed of two subfamilies of cysteine peptidases (CPs), C1A (papain) and C1B (bleomycin hydrolase). Papain-like enzymes are mostly endopeptidases with some...; Region: Peptidase_C1; cl00298 1069642000227 active site 1069642000228 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 1069642000229 non-specific DNA binding site [nucleotide binding]; other site 1069642000230 salt bridge; other site 1069642000231 sequence-specific DNA binding site [nucleotide binding]; other site 1069642000232 HipA N-terminal domain; Region: Couple_hipA; pfam13657 1069642000233 Toxin module HipA, protein kinase of phosphatidylinositol 3/4-kinase superfamily [General function prediction only]; Region: HipA; COG3550 1069642000234 HipA-like N-terminal domain; Region: HipA_N; pfam07805 1069642000235 HipA-like C-terminal domain; Region: HipA_C; pfam07804 1069642000236 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 1069642000237 nucleoside/Zn binding site; other site 1069642000238 dimer interface [polypeptide binding]; other site 1069642000239 catalytic motif [active] 1069642000240 7-cyano-7-deazaguanine reductase; Provisional; Region: PRK13258 1069642000241 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 1069642000242 mobile loop; other site 1069642000243 oligomerisation interface [polypeptide binding]; other site 1069642000244 roof hairpin; other site 1069642000245 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 1069642000246 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 1069642000247 ring oligomerisation interface [polypeptide binding]; other site 1069642000248 ATP/Mg binding site [chemical binding]; other site 1069642000249 stacking interactions; other site 1069642000250 hinge regions; other site 1069642000251 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; pfam13505 1069642000252 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 1069642000253 Response regulator receiver domain; Region: Response_reg; pfam00072 1069642000254 active site 1069642000255 phosphorylation site [posttranslational modification] 1069642000256 intermolecular recognition site; other site 1069642000257 dimerization interface [polypeptide binding]; other site 1069642000258 Flp pilus assembly protein TadB [Intracellular trafficking and secretion]; Region: TadB; COG4965 1069642000259 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 1069642000260 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 1069642000261 Flp pilus assembly protein, ATPase CpaF [Intracellular trafficking and secretion]; Region: CpaF; COG4962 1069642000262 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 1069642000263 ATP binding site [chemical binding]; other site 1069642000264 Walker A motif; other site 1069642000265 hexamer interface [polypeptide binding]; other site 1069642000266 Walker B motif; other site 1069642000267 Flp pilus assembly protein, secretin CpaC [Intracellular trafficking and secretion]; Region: CpaC; COG4964 1069642000268 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 1069642000269 Flp pilus assembly protein CpaB [Intracellular trafficking and secretion]; Region: CpaB; COG3745 1069642000270 SAF domains of the flagella basal body P-ring formation protein FlgA and the flp pilus assembly CpaB; Region: SAF_CpaB_FlgA_like; cd11614 1069642000271 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 1069642000272 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 1069642000273 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1069642000274 dimer interface [polypeptide binding]; other site 1069642000275 putative CheW interface [polypeptide binding]; other site 1069642000276 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1069642000277 active site 1069642000278 Tetratricopeptide repeat; Region: TPR_16; pfam13432 1069642000279 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 1069642000280 binding surface 1069642000281 TPR motif; other site 1069642000282 TPR repeat; Region: TPR_11; pfam13414 1069642000283 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 1069642000284 binding surface 1069642000285 TPR motif; other site 1069642000286 Tetratricopeptide repeat; Region: TPR_16; pfam13432 1069642000287 outer membrane assembly lipoprotein YfiO; Region: OM_YfiO; TIGR03302 1069642000288 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 1069642000289 binding surface 1069642000290 TPR motif; other site 1069642000291 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 1069642000292 binding surface 1069642000293 TPR repeat; Region: TPR_11; pfam13414 1069642000294 TPR motif; other site 1069642000295 transaminase, acetylornithine/succinylornithine family; Region: argD; TIGR00707 1069642000296 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 1069642000297 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1069642000298 catalytic residue [active] 1069642000299 Acetylornithine deacetylase/Succinyl-diaminopimelate desuccinylase and related deacylases [Amino acid transport and metabolism]; Region: ArgE; COG0624 1069642000300 Peptidase M20 acetylornithine deacetylase/succinyl-diaminopimelate desuccinylase (ArgE/DapE)-like; Region: M20_ArgE_DapE_like; cd08659 1069642000301 metal binding site [ion binding]; metal-binding site 1069642000302 dimer interface [polypeptide binding]; other site 1069642000303 Arginine N-succinyltransferase beta subunit; Region: AstA; pfam04958 1069642000304 Arginine/ornithine N-succinyltransferase beta subunit [Amino acid transport and metabolism]; Region: AstA; COG3138 1069642000305 succinylglutamic semialdehyde dehydrogenase; Reviewed; Region: astD; PRK09457 1069642000306 N-succinylglutamate 5-semialdehyde dehydrogenase, AstD-like; Region: ALDH_SGSD_AstD; cd07095 1069642000307 NAD(P) binding site [chemical binding]; other site 1069642000308 catalytic residues [active] 1069642000309 YceG-like family; Region: YceG; pfam02618 1069642000310 proteins similar to Escherichia coli yceG; Region: yceG_like; cd08010 1069642000311 dimerization interface [polypeptide binding]; other site 1069642000312 aspartate kinase III; Validated; Region: PRK09084 1069642000313 AAK_AKiii-LysC-EC: Amino Acid Kinase Superfamily (AAK), AKiii-LysC-EC: this CD includes the N-terminal catalytic aspartokinase (AK) domain of the lysine-sensitive aspartokinase isoenzyme AKIII. AKIII is a monofunctional class enzyme (LysC) found in some...; Region: AAK_AKiii-LysC-EC; cd04258 1069642000314 nucleotide binding site [chemical binding]; other site 1069642000315 putative catalytic residues [active] 1069642000316 aspartate binding site [chemical binding]; other site 1069642000317 ACT domains located C-terminal to the catalytic domain of the lysine-sensitive aspartokinase isoenzyme AKIII; Region: ACT_AKiii-LysC-EC_1; cd04932 1069642000318 lysine allosteric regulatory site; other site 1069642000319 dimer interface [polypeptide binding]; other site 1069642000320 ACT domains located C-terminal to the catalytic domain of the lysine-sensitive aspartokinase isoenzyme AKIII; Region: ACT_AKiii-LysC-EC_2; cd04917 1069642000321 dimer interface [polypeptide binding]; other site 1069642000322 Proteins of this family catalyze the reduction of flavin or nitrocompounds using NAD(P)H as electron donor in a obligatory two-electron transfer, utilizing FMN or FAD as cofactor. They are often found to be homodimers. Enzymes of this family are...; Region: Nitro_FMN_reductase; cd02062 1069642000323 FMN binding site [chemical binding]; other site 1069642000324 dimer interface [polypeptide binding]; other site 1069642000325 putative TIM-barrel protein, nifR3 family; Region: nifR3_yhdG; TIGR00737 1069642000326 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 1069642000327 FMN binding site [chemical binding]; other site 1069642000328 active site 1069642000329 catalytic residues [active] 1069642000330 substrate binding site [chemical binding]; other site 1069642000331 Predicted membrane GTPase involved in stress response [Signal transduction mechanisms]; Region: TypA; COG1217 1069642000332 Tyrosine phosphorylated protein A (TypA)/BipA family belongs to ribosome-binding GTPases; Region: TypA_BipA; cd01891 1069642000333 G1 box; other site 1069642000334 putative GEF interaction site [polypeptide binding]; other site 1069642000335 GTP/Mg2+ binding site [chemical binding]; other site 1069642000336 Switch I region; other site 1069642000337 G2 box; other site 1069642000338 G3 box; other site 1069642000339 Switch II region; other site 1069642000340 G4 box; other site 1069642000341 G5 box; other site 1069642000342 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 1069642000343 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 1069642000344 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 1069642000345 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1069642000346 Walker A/P-loop; other site 1069642000347 ATP binding site [chemical binding]; other site 1069642000348 Q-loop/lid; other site 1069642000349 ABC transporter signature motif; other site 1069642000350 Walker B; other site 1069642000351 D-loop; other site 1069642000352 H-loop/switch region; other site 1069642000353 ABC-2 type transporter; Region: ABC2_membrane; cl17235 1069642000354 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 1069642000355 Protein of unknown function (DUF523); Region: DUF523; pfam04463 1069642000356 Transglycosylase; Region: Transgly; pfam00912 1069642000357 hopanoid-associated sugar epimerase; Region: HpnA; TIGR03466 1069642000358 uncharacterized subgroup of aldehyde reductase and flavonoid reductase related proteins, extended (e) SDRs; Region: AR_FR_like_1_SDR_e; cd05228 1069642000359 putative NADP binding site [chemical binding]; other site 1069642000360 putative substrate binding site [chemical binding]; other site 1069642000361 active site 1069642000362 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 1069642000363 PAP2_like_4 proteins. PAP2 is a super-family of phosphatases and haloperoxidases. This subgroup, which is specific to bacteria, lacks functional characterization and may act as a membrane-associated lipid phosphatase; Region: PAP2_like_4; cd03395 1069642000364 active site 1069642000365 flagellar motor protein MotA; Validated; Region: PRK08124 1069642000366 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 1069642000367 Flagellar motor protein [Cell motility and secretion]; Region: MotB; COG1360 1069642000368 Membrane MotB of proton-channel complex MotA/MotB; Region: MotB_plug; pfam13677 1069642000369 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 1069642000370 ligand binding site [chemical binding]; other site 1069642000371 Beta-glucosidase-related glycosidases [Carbohydrate transport and metabolism]; Region: BglX; COG1472 1069642000372 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; cl07971 1069642000373 Protein of unknown function (DUF1343); Region: DUF1343; pfam07075 1069642000374 dTDP-glucose pyrophosphorylase [Cell envelope biogenesis, outer membrane]; Region: RfbA; COG1209 1069642000375 NTP_transferase_like_1 is a member of the nucleotidyl transferase family; Region: NTP_transferase_like_1; cd06422 1069642000376 Substrate binding site; other site 1069642000377 metal-binding site 1069642000378 Left-handed parallel beta-Helix (LbetaH or LbH) domain: The alignment contains 5 turns, each containing three imperfect tandem repeats of a hexapeptide repeat motif (X-[STAV]-X-[LIV]-[GAED]-X). Proteins containing hexapeptide repeats are often enzymes...; Region: LbetaH; cl00160 1069642000379 putative CoA binding site [chemical binding]; other site 1069642000380 Phosphotransferase enzyme family; Region: APH; pfam01636 1069642000381 Predicted phosphotransferase related to Ser/Thr protein kinases [General function prediction only]; Region: COG3178 1069642000382 Nif-specific regulatory protein; Region: nifA; TIGR01817 1069642000383 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 1069642000384 Walker A motif; other site 1069642000385 ATP binding site [chemical binding]; other site 1069642000386 Walker B motif; other site 1069642000387 arginine finger; other site 1069642000388 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 1069642000389 Mechanosensitive ion channel; Region: MS_channel; pfam00924 1069642000390 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 1069642000391 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 1069642000392 ATP-binding cassette domain of the bacterial lipid flippase and related proteins, subfamily C; Region: ABCC_MsbA; cd03251 1069642000393 Walker A/P-loop; other site 1069642000394 ATP binding site [chemical binding]; other site 1069642000395 Q-loop/lid; other site 1069642000396 ABC transporter signature motif; other site 1069642000397 Walker B; other site 1069642000398 D-loop; other site 1069642000399 H-loop/switch region; other site 1069642000400 excinuclease ABC subunit A; Reviewed; Region: uvrA; PRK00349 1069642000401 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 1069642000402 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 1069642000403 ATP-binding cassette domain II of the excision repair protein UvrA; Region: ABC_UvrA_II; cd03271 1069642000404 Membrane carboxypeptidase/penicillin-binding protein [Cell envelope biogenesis, outer membrane]; Region: MrcA; COG5009 1069642000405 Transglycosylase; Region: Transgly; pfam00912 1069642000406 S1_like: Ribosomal protein S1-like RNA-binding domain. Found in a wide variety of RNA-associated proteins. Originally identified in S1 ribosomal protein. This superfamily also contains the Cold Shock Domain (CSD), which is a homolog of the S1 domain; Region: S1_like; cl09927 1069642000407 RNA binding site [nucleotide binding]; other site 1069642000408 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 1069642000409 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 1069642000410 large-conductance mechanosensitive channel; Reviewed; Region: mscL; PRK00567 1069642000411 large-conductance mechanosensitive channel; Provisional; Region: mscL; PRK13952 1069642000412 Uncharacterized protein family UPF0547; Region: UPF0547; pfam10571 1069642000413 Protein of unknown function, DUF481; Region: DUF481; pfam04338 1069642000414 cell division ATP-binding protein FtsE; Region: FtsE; TIGR02673 1069642000415 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1069642000416 Walker A/P-loop; other site 1069642000417 ATP binding site [chemical binding]; other site 1069642000418 Q-loop/lid; other site 1069642000419 ABC transporter signature motif; other site 1069642000420 Walker B; other site 1069642000421 D-loop; other site 1069642000422 H-loop/switch region; other site 1069642000423 Cell division protein [Cell division and chromosome partitioning]; Region: FtsX; COG2177 1069642000424 cell division ABC transporter subunit FtsX; Provisional; Region: ftsX; PRK11026 1069642000425 FtsX-like permease family; Region: FtsX; pfam02687 1069642000426 Membrane-bound metallopeptidase [Cell division and chromosome partitioning]; Region: COG4942 1069642000427 Peptidase family M23; Region: Peptidase_M23; pfam01551 1069642000428 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 1069642000429 C-terminal peptidase (prc); Region: prc; TIGR00225 1069642000430 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 1069642000431 protein binding site [polypeptide binding]; other site 1069642000432 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 1069642000433 Catalytic dyad [active] 1069642000434 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 1069642000435 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 1069642000436 catalytic residues [active] 1069642000437 cyclophilin: cyclophilin-type peptidylprolyl cis- trans isomerases. This family contains eukaryotic, bacterial and archeal proteins which exhibit a peptidylprolyl cis- trans isomerases activity (PPIase, Rotamase) and in addition bind the...; Region: cyclophilin; cd00317 1069642000438 active site 1069642000439 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 1069642000440 metal binding triad; other site 1069642000441 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 1069642000442 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 1069642000443 metal binding triad; other site 1069642000444 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 1069642000445 TolB amino-terminal domain; Region: TolB_N; pfam04052 1069642000446 tol-pal system beta propeller repeat protein TolB; Region: propeller_TolB; TIGR02800 1069642000447 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 1069642000448 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 1069642000449 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 1069642000450 TonB C terminal; Region: TonB_2; pfam13103 1069642000451 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 1069642000452 TolR protein; Region: tolR; TIGR02801 1069642000453 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 1069642000454 FeS assembly SUF system regulator, gammaproteobacterial; Region: suf_reg_Xantho; TIGR02944 1069642000455 Transcriptional regulator; Region: Rrf2; pfam02082 1069642000456 Transcriptional regulator; Region: Rrf2; cl17282 1069642000457 cysteine desulfurase activator complex subunit SufB; Provisional; Region: PRK11814 1069642000458 putative ABC transporter; Region: ycf24; CHL00085 1069642000459 sulfate ABC transporter protein; Validated; Region: ycf16; CHL00131 1069642000460 ABC-type transport system involved in Fe-S cluster assembly, ATPase component; Region: ABC_FeS_Assembly; cd03217 1069642000461 Walker A/P-loop; other site 1069642000462 ATP binding site [chemical binding]; other site 1069642000463 Q-loop/lid; other site 1069642000464 ABC transporter signature motif; other site 1069642000465 Walker B; other site 1069642000466 D-loop; other site 1069642000467 H-loop/switch region; other site 1069642000468 FeS assembly protein SufD; Region: sufD; TIGR01981 1069642000469 Uncharacterized protein family (UPF0051); Region: UPF0051; pfam01458 1069642000470 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 1069642000471 Cysteine desulfurase (SufS)-like. This family belongs to the pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD correspond to cysteine desulfurase (SufS) and selenocysteine lyase. SufS...; Region: SufS_like; cd06453 1069642000472 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1069642000473 catalytic residue [active] 1069642000474 Scaffold protein Nfu/NifU N terminal; Region: Nfu_N; pfam08712 1069642000475 NifU-like domain; Region: NifU; cl00484 1069642000476 exodeoxyribonuclease VII large subunit; Reviewed; Region: xseA; PRK00286 1069642000477 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 1069642000478 generic binding surface II; other site 1069642000479 generic binding surface I; other site 1069642000480 exodeoxyribonuclease VII small subunit; Provisional; Region: PRK00977 1069642000481 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 1069642000482 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 1069642000483 substrate binding pocket [chemical binding]; other site 1069642000484 chain length determination region; other site 1069642000485 substrate-Mg2+ binding site; other site 1069642000486 catalytic residues [active] 1069642000487 aspartate-rich region 1; other site 1069642000488 active site lid residues [active] 1069642000489 aspartate-rich region 2; other site 1069642000490 Predicted rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: COG1189 1069642000491 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 1069642000492 RNA binding surface [nucleotide binding]; other site 1069642000493 FtsJ-like methyltransferase; Region: FtsJ; pfam01728 1069642000494 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: RssA; COG1752 1069642000495 Patatins and Phospholipases; Region: Patatin_and_cPLA2; cl11396 1069642000496 active site 1069642000497 nucleophile elbow; other site 1069642000498 Aminopeptidase P, N-terminal domain; Region: AMP_N; pfam05195 1069642000499 proline aminopeptidase P II; Provisional; Region: PRK10879 1069642000500 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 1069642000501 active site 1069642000502 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 1069642000503 PAS domain; Region: PAS_9; pfam13426 1069642000504 putative active site [active] 1069642000505 heme pocket [chemical binding]; other site 1069642000506 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1069642000507 Methyl-accepting chemotaxis protein (MCP) signalling domain; Region: MCPsignal; pfam00015 1069642000508 putative CheW interface [polypeptide binding]; other site 1069642000509 Phosphoserine phosphatase [Amino acid transport and metabolism]; Region: SerB; COG0560 1069642000510 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 1069642000511 Glycerol-3-phosphate dehydrogenase [Energy production and conversion]; Region: GlpA; COG0578 1069642000512 Bacterial Ig-like domain (group 3); Region: Big_3_4; pfam13754 1069642000513 Bacterial Ig-like domain (group 3); Region: Big_3_4; pfam13754 1069642000514 rod shape-determining protein MreB; Provisional; Region: PRK13927 1069642000515 MreB and similar proteins; Region: MreB_like; cd10225 1069642000516 nucleotide binding site [chemical binding]; other site 1069642000517 Mg binding site [ion binding]; other site 1069642000518 putative protofilament interaction site [polypeptide binding]; other site 1069642000519 RodZ interaction site [polypeptide binding]; other site 1069642000520 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or...; Region: Sigma70_r4; cl17257 1069642000521 DNA binding residues [nucleotide binding] 1069642000522 Putative zinc-finger; Region: zf-HC2; pfam13490 1069642000523 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 1069642000524 dimerization interface [polypeptide binding]; other site 1069642000525 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 1069642000526 dimer interface [polypeptide binding]; other site 1069642000527 phosphorylation site [posttranslational modification] 1069642000528 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 1069642000529 ATP binding site [chemical binding]; other site 1069642000530 Mg2+ binding site [ion binding]; other site 1069642000531 G-X-G motif; other site 1069642000532 P pilus assembly protein, chaperone PapD [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimC; COG3121 1069642000533 P pilus assembly protein, porin PapC [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimD; COG3188 1069642000534 Type VII secretion system (T7SS), usher protein; Region: Usher; pfam00577 1069642000535 Carboxypeptidase regulatory-like domain; Region: CarboxypepD_reg; pfam13620 1069642000536 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 1069642000537 MPN+ (JAMM) motif; other site 1069642000538 Zinc-binding site [ion binding]; other site 1069642000539 Protein of unknown function (DUF3897); Region: DUF3897; pfam13036 1069642000540 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3014 1069642000541 polyhydroxyalkanoate synthesis repressor PhaR; Region: PHA_reg_PhaR; TIGR01848 1069642000542 PHB/PHA accumulation regulator DNA-binding domain; Region: PHB_acc_N; pfam07879 1069642000543 TPR repeat; Region: TPR_11; pfam13414 1069642000544 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 1069642000545 binding surface 1069642000546 TPR motif; other site 1069642000547 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 1069642000548 binding surface 1069642000549 TPR motif; other site 1069642000550 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 1069642000551 TPR motif; other site 1069642000552 binding surface 1069642000553 TPR repeat; Region: TPR_11; pfam13414 1069642000554 StaR_like; a well-conserved protein found in bacteria, plants, and animals. A family member from Streptomyces toyocaensis, StaR is part of a gene cluster involved in the biosynthesis of glycopeptide antibiotics (GPAs), specifically A47934. It has been...; Region: StaR_like; cd05804 1069642000555 TPR repeat; Region: TPR_11; pfam13414 1069642000556 PrkA AAA domain; Region: AAA_PrkA; smart00763 1069642000557 AAA ATPase domain; Region: AAA_16; pfam13191 1069642000558 PrkA serine protein kinase C-terminal domain; Region: PrkA; pfam06798 1069642000559 hypothetical protein; Provisional; Region: PRK05325 1069642000560 SpoVR like protein; Region: SpoVR; pfam04293 1069642000561 Uncharacterized conserved protein [Function unknown]; Region: SpoVR; COG2719 1069642000562 Homologs of eIF1/SUI1 including Escherichia coli YciH; Region: YciH_like; cd11567 1069642000563 putative rRNA binding site [nucleotide binding]; other site 1069642000564 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1069642000565 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 1069642000566 active site 1069642000567 phosphorylation site [posttranslational modification] 1069642000568 intermolecular recognition site; other site 1069642000569 dimerization interface [polypeptide binding]; other site 1069642000570 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 1069642000571 DNA binding site [nucleotide binding] 1069642000572 Predicted glutamine amidotransferases [General function prediction only]; Region: COG2071 1069642000573 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_2; cd01745 1069642000574 catalytic triad [active] 1069642000575 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 1069642000576 ATP binding site [chemical binding]; other site 1069642000577 Mg++ binding site [ion binding]; other site 1069642000578 motif III; other site 1069642000579 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 1069642000580 nucleotide binding region [chemical binding]; other site 1069642000581 ATP-binding site [chemical binding]; other site 1069642000582 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 1069642000583 nucleoside/Zn binding site; other site 1069642000584 dimer interface [polypeptide binding]; other site 1069642000585 catalytic motif [active] 1069642000586 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 1069642000587 nudix motif; other site 1069642000588 Membrane protein TerC, possibly involved in tellurium resistance [Inorganic ion transport and metabolism]; Region: TerC; COG0861 1069642000589 Uncharacterized protein conserved in bacteria (DUF2248); Region: DUF2248; pfam10005 1069642000590 30S ribosomal protein S21; Reviewed; Region: rpsU; PRK00270 1069642000591 Yqey-like protein; Region: YqeY; pfam09424 1069642000592 DNA primase; Validated; Region: dnaG; PRK05667 1069642000593 CHC2 zinc finger; Region: zf-CHC2; cl17510 1069642000594 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 1069642000595 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 1069642000596 active site 1069642000597 metal binding site [ion binding]; metal-binding site 1069642000598 interdomain interaction site; other site 1069642000599 DnaB-helicase binding domain of primase; Region: DnaB_bind; pfam10410 1069642000600 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 1069642000601 RNA polymerase sigma factor RpoD, C-terminal domain; Region: RpoD_Cterm; TIGR02393 1069642000602 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1069642000603 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 1069642000604 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 1069642000605 DNA binding residues [nucleotide binding] 1069642000606 This domain contains a conserved N-terminal (F/Y)RG motif. It is functionally uncharacterised; Region: FRG; smart00901 1069642000607 Protein of unknown function (DUF4127); Region: DUF4127; pfam13552 1069642000608 GIY-YIG domain of uncharacterized hypothetical protein found in bacteria and archaea; Region: GIY-YIG_unchar_2; cd10447 1069642000609 GIY-YIG motif/motif A; other site 1069642000610 putative active site [active] 1069642000611 putative metal binding site [ion binding]; other site 1069642000612 Domain of unknown function (DUF4357); Region: DUF4357; pfam14267 1069642000613 type II restriction m6 adenine DNA methyltransferase, Alw26I/Eco31I/Esp3I family; Region: met_A_Alw26; TIGR02987 1069642000614 Methyltransferase domain; Region: Methyltransf_26; pfam13659 1069642000615 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 1069642000616 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 1069642000617 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 1069642000618 Radical SAM superfamily; Region: Radical_SAM; pfam04055 1069642000619 FeS/SAM binding site; other site 1069642000620 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5410 1069642000621 Terminase-like family; Region: Terminase_6; pfam03237 1069642000622 Phage-related terminase [General function prediction only]; Region: COG5362; cl02216 1069642000623 Domain of unknown function (DUF4268); Region: DUF4268; pfam14088 1069642000624 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 1069642000625 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 1069642000626 catalytic residues [active] 1069642000627 catalytic nucleophile [active] 1069642000628 Presynaptic Site I dimer interface [polypeptide binding]; other site 1069642000629 Synaptic Antiparallel dimer interface [polypeptide binding]; other site 1069642000630 Synaptic Flat tetramer interface [polypeptide binding]; other site 1069642000631 Synaptic Site I dimer interface [polypeptide binding]; other site 1069642000632 DNA binding site [nucleotide binding] 1069642000633 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or...; Region: Sigma70_r4; cl17257 1069642000634 Integrase [DNA replication, recombination, and repair]; Region: XerC; COG0582 1069642000635 Protein of unknown function (DUF3928); Region: DUF3928; pfam13065 1069642000636 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 1069642000637 active site 1069642000638 catalytic residues [active] 1069642000639 DNA binding site [nucleotide binding] 1069642000640 Int/Topo IB signature motif; other site 1069642000641 Cro/C1-type HTH DNA-binding domain; Region: HTH_26; pfam13443 1069642000642 Regulators of stationary/sporulation gene expression [Transcription]; Region: AbrB; COG2002 1069642000643 SpoVT / AbrB like domain; Region: SpoVT_AbrB; smart00966 1069642000644 Methylated DNA-protein cysteine methyltransferase [DNA replication, recombination, and repair]; Region: Ada; COG0350 1069642000645 6-O-methylguanine DNA methyltransferase, ribonuclease-like domain; Region: Methyltransf_1N; pfam02870 1069642000646 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 1069642000647 DNA binding site [nucleotide binding] 1069642000648 active site 1069642000649 Adenosine deaminase [Nucleotide transport and metabolism]; Region: Ada; COG2169 1069642000650 Metal binding domain of Ada; Region: Ada_Zn_binding; pfam02805 1069642000651 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1069642000652 AlkA N-terminal domain; Region: AlkA_N; pfam06029 1069642000653 3-methyladenine DNA glycosylase/8-oxoguanine DNA glycosylase [DNA replication, recombination, and repair]; Region: AlkA; COG0122 1069642000654 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 1069642000655 minor groove reading motif; other site 1069642000656 helix-hairpin-helix signature motif; other site 1069642000657 substrate binding pocket [chemical binding]; other site 1069642000658 active site 1069642000659 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; pfam13505 1069642000660 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 1069642000661 active site 1069642000662 catalytic site [active] 1069642000663 substrate binding site [chemical binding]; other site 1069642000664 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 1069642000665 GIY-YIG motif/motif A; other site 1069642000666 active site 1069642000667 catalytic site [active] 1069642000668 putative DNA binding site [nucleotide binding]; other site 1069642000669 metal binding site [ion binding]; metal-binding site 1069642000670 Rad3-related DNA helicases [Transcription / DNA replication, recombination, and repair]; Region: DinG; COG1199 1069642000671 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 1069642000672 DEAD_2; Region: DEAD_2; pfam06733 1069642000673 Helicase C-terminal domain; Region: Helicase_C_2; pfam13307 1069642000674 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 1069642000675 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 1069642000676 substrate binding pocket [chemical binding]; other site 1069642000677 membrane-bound complex binding site; other site 1069642000678 hinge residues; other site 1069642000679 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 1069642000680 Na+/H+ antiporter [Energy production and conversion]; Region: NhaC; COG1757 1069642000681 Putative MetA-pathway of phenol degradation; Region: Phenol_MetA_deg; cl01768 1069642000682 EamA-like transporter family; Region: EamA; pfam00892 1069642000683 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 1069642000684 Domain of unknown function (DUF4383); Region: DUF4383; pfam14325 1069642000685 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 1069642000686 lipoyl attachment site [posttranslational modification]; other site 1069642000687 glutamine synthetase, type I; Region: GlnA; TIGR00653 1069642000688 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 1069642000689 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 1069642000690 The substrate-binding domain of an ABC-type nickel/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like; cl01709 1069642000691 Nitrogen regulatory protein PII [Amino acid transport and metabolism]; Region: GlnK; COG0347 1069642000692 Nitrogen regulatory protein P-II; Region: P-II; smart00938 1069642000693 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 1069642000694 dimerization interface [polypeptide binding]; other site 1069642000695 putative active site pocket [active] 1069642000696 putative catalytic residue [active] 1069642000697 Predicted rRNA methylase (SpoU class) [Translation, ribosomal structure and biogenesis]; Region: CspR; COG0219 1069642000698 preprotein translocase subunit SecA; Reviewed; Region: PRK12904 1069642000699 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 1069642000700 SecA preprotein cross-linking domain; Region: SecA_PP_bind; smart00958 1069642000701 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 1069642000702 nucleotide binding region [chemical binding]; other site 1069642000703 ATP-binding site [chemical binding]; other site 1069642000704 zinc-ribbon domain; Region: zinc_ribbon_5; cl11777 1069642000705 SmpA / OmlA family; Region: SmpA_OmlA; cl17115 1069642000706 Zinc-dependent metalloprotease. This super-family of metalloproteases contains two major branches, the astacin-like proteases and the adamalysin/reprolysin-like proteases. Both branches have wide phylogenetic distribution, and contain sub-families, which...; Region: ZnMc; cl00064 1069642000707 active site 1069642000708 Acyl-CoA synthetases (AMP-forming)/AMP-acid ligases II [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: CaiC; COG0318 1069642000709 Bacterial Bile acid CoA ligases and similar proteins; Region: BACL_like; cd05929 1069642000710 acyl-activating enzyme (AAE) consensus motif; other site 1069642000711 putative AMP binding site [chemical binding]; other site 1069642000712 putative active site [active] 1069642000713 putative CoA binding site [chemical binding]; other site 1069642000714 3-oxoacyl-[acyl-carrier-protein]; Region: FabH; COG0332 1069642000715 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 1069642000716 dimer interface [polypeptide binding]; other site 1069642000717 active site 1069642000718 CoA binding pocket [chemical binding]; other site 1069642000719 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 1069642000720 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1069642000721 NAD(P) binding site [chemical binding]; other site 1069642000722 active site 1069642000723 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 1069642000724 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 1069642000725 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 1069642000726 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 1069642000727 Cytochrome c; Region: Cytochrom_C; pfam00034 1069642000728 Uncharacterized protein SCO1/SenC/PrrC, involved in biogenesis of respiratory and photosynthetic systems [General function prediction only]; Region: COG1999 1069642000729 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 1069642000730 Cu(I) binding site [ion binding]; other site 1069642000731 cytochrome c oxidase, subunit II; Region: CoxB; TIGR02866 1069642000732 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; pfam00116 1069642000733 Cytochrome c; Region: Cytochrom_C; pfam00034 1069642000734 Heme/copper-type cytochrome/quinol oxidases, subunit 1 [Energy production and conversion]; Region: CyoB; COG0843 1069642000735 cytochrome c oxidase, subunit I; Region: CtaD_CoxA; TIGR02891 1069642000736 NorE_like subfamily of heme-copper oxidase subunit III. Heme-copper oxidases include cytochrome c and ubiquinol oxidases. Alcaligenes faecalis norE is found in a gene cluster containing norCB. norCB encodes the cytochrome c and cytochrome b subunits of...; Region: NorE_like; cd02862 1069642000737 Subunit I/III interface [polypeptide binding]; other site 1069642000738 caa(3)-type oxidase, subunit IV; Region: caa3_sub_IV; TIGR02229 1069642000739 4-hydroxybenzoate polyprenyltransferase and related prenyltransferases [Coenzyme metabolism]; Region: UbiA; cl00337 1069642000740 UbiA prenyltransferase family; Region: UbiA; pfam01040 1069642000741 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 1069642000742 maleylacetoacetate isomerase; Region: maiA; TIGR01262 1069642000743 C-terminal domain interface [polypeptide binding]; other site 1069642000744 GSH binding site (G-site) [chemical binding]; other site 1069642000745 putative dimer interface [polypeptide binding]; other site 1069642000746 C-terminal, alpha helical domain of Class Zeta Glutathione S-transferases; Region: GST_C_Zeta; cd03191 1069642000747 dimer interface [polypeptide binding]; other site 1069642000748 N-terminal domain interface [polypeptide binding]; other site 1069642000749 maleylacetoacetate (MAA) substrate binding site (H site) [chemical binding]; other site 1069642000750 Outer membrane protein beta-barrel domain; Region: OMP_b-brl_2; pfam13568 1069642000751 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 1069642000752 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 1069642000753 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 1069642000754 E-class dimer interface [polypeptide binding]; other site 1069642000755 P-class dimer interface [polypeptide binding]; other site 1069642000756 active site 1069642000757 Cu2+ binding site [ion binding]; other site 1069642000758 Zn2+ binding site [ion binding]; other site 1069642000759 Large extracellular alpha-helical protein [General function prediction only]; Region: COG2373 1069642000760 MG2 domain; Region: A2M_N; pfam01835 1069642000761 Alpha-2-macroglobulin family; Region: A2M; pfam00207 1069642000762 Transglycosylase; Region: Transgly; pfam00912 1069642000763 penicillin-binding protein, 1A family; Region: PBP_1a_fam; TIGR02074 1069642000764 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 1069642000765 OsmC-like protein; Region: OsmC; pfam02566 1069642000766 Response regulator receiver domain; Region: Response_reg; pfam00072 1069642000767 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 1069642000768 active site 1069642000769 phosphorylation site [posttranslational modification] 1069642000770 intermolecular recognition site; other site 1069642000771 dimerization interface [polypeptide binding]; other site 1069642000772 PAS domain; Region: PAS_9; pfam13426 1069642000773 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 1069642000774 PAS fold; Region: PAS_3; pfam08447 1069642000775 putative active site [active] 1069642000776 heme pocket [chemical binding]; other site 1069642000777 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 1069642000778 dimer interface [polypeptide binding]; other site 1069642000779 phosphorylation site [posttranslational modification] 1069642000780 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 1069642000781 ATP binding site [chemical binding]; other site 1069642000782 Mg2+ binding site [ion binding]; other site 1069642000783 G-X-G motif; other site 1069642000784 Response regulator receiver domain; Region: Response_reg; pfam00072 1069642000785 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 1069642000786 active site 1069642000787 phosphorylation site [posttranslational modification] 1069642000788 intermolecular recognition site; other site 1069642000789 dimerization interface [polypeptide binding]; other site 1069642000790 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 1069642000791 putative binding surface; other site 1069642000792 active site 1069642000793 ABC transporter, phosphonate, periplasmic substrate-binding protein; Region: Phosphonate-bd; pfam12974 1069642000794 nucleoside diphosphate kinase regulator; Provisional; Region: PRK05753 1069642000795 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 1069642000796 putative NAD(P)H quinone oxidoreductase, PIG3 family; Region: quinone_pig3; TIGR02824 1069642000797 PIG3 p53-inducible quinone oxidoreductase; Region: p53_inducible_oxidoreductase; cd05276 1069642000798 NAD(P) binding site [chemical binding]; other site 1069642000799 M14 family of metallocarboxypeptidases and related proteins; Region: Peptidase_M14_like; cd00596 1069642000800 active site 1069642000801 Zn binding site [ion binding]; other site 1069642000802 Aminoglycoside/hydroxyurea antibiotic resistance kinase; Region: APH_6_hur; cl17810 1069642000803 Bacterial protein of unknown function (DUF899); Region: DUF899; cl17828 1069642000804 Pirin; Region: Pirin; pfam02678 1069642000805 Pirin-related protein [General function prediction only]; Region: COG1741 1069642000806 Pirin C-terminal cupin domain; Region: Pirin_C; pfam05726 1069642000807 Protein of unknown function (DUF3478); Region: DUF3478; pfam11964 1069642000808 benzoate transporter; Region: benE; TIGR00843 1069642000809 Benzoate membrane transport protein; Region: BenE; pfam03594 1069642000810 Predicted S-adenosylmethionine-dependent methyltransferase involved in bacterial cell division [Cell envelope biogenesis, outer membrane]; Region: GidB; COG0357 1069642000811 16S rRNA methyltransferase GidB; Reviewed; Region: gidB; cl17726 1069642000812 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 1069642000813 dimer interface [polypeptide binding]; other site 1069642000814 catalytic triad [active] 1069642000815 peroxidatic and resolving cysteines [active] 1069642000816 ATP-dependent RNA helicase SrmB; Provisional; Region: PRK11192 1069642000817 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 1069642000818 ATP binding site [chemical binding]; other site 1069642000819 Mg++ binding site [ion binding]; other site 1069642000820 motif III; other site 1069642000821 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 1069642000822 nucleotide binding region [chemical binding]; other site 1069642000823 ATP-binding site [chemical binding]; other site 1069642000824 RNA recognition motif in Helicobacter pylori HP0827 protein and similar proteins; Region: RRM_HP0827_like; cd12399 1069642000825 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 1069642000826 rRNA binding site [nucleotide binding]; other site 1069642000827 predicted 30S ribosome binding site; other site 1069642000828 D-amino acid dehydrogenase small subunit; Validated; Region: PRK00711 1069642000829 hydroxyglutarate oxidase; Provisional; Region: PRK11728 1069642000830 RibD C-terminal domain; Region: RibD_C; cl17279 1069642000831 Dihydrofolate reductase [Coenzyme metabolism]; Region: FolA; COG0262 1069642000832 helicase 45; Provisional; Region: PTZ00424 1069642000833 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 1069642000834 ATP binding site [chemical binding]; other site 1069642000835 Mg++ binding site [ion binding]; other site 1069642000836 motif III; other site 1069642000837 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 1069642000838 nucleotide binding region [chemical binding]; other site 1069642000839 ATP-binding site [chemical binding]; other site 1069642000840 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1069642000841 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 1069642000842 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 1069642000843 dimer interface [polypeptide binding]; other site 1069642000844 phosphorylation site [posttranslational modification] 1069642000845 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 1069642000846 ATP binding site [chemical binding]; other site 1069642000847 Mg2+ binding site [ion binding]; other site 1069642000848 G-X-G motif; other site 1069642000849 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 1069642000850 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 1069642000851 active site 1069642000852 phosphorylation site [posttranslational modification] 1069642000853 intermolecular recognition site; other site 1069642000854 dimerization interface [polypeptide binding]; other site 1069642000855 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 1069642000856 Walker A motif; other site 1069642000857 ATP binding site [chemical binding]; other site 1069642000858 Walker B motif; other site 1069642000859 arginine finger; other site 1069642000860 Bacterial regulatory protein, Fis family; Region: HTH_8; cl17420 1069642000861 Arsenate Reductase (ArsC) family, ArsC subfamily; arsenic reductases similar to that encoded by arsC on the R733 plasmid of Escherichia coli. E. coli ArsC catalyzes the reduction of arsenate [As(V)] to arsenite [As(III)], the first step in the...; Region: ArsC_ArsC; cd03034 1069642000862 ArsC family; Region: ArsC; pfam03960 1069642000863 catalytic residues [active] 1069642000864 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 1069642000865 catalytic residues [active] 1069642000866 dimer interface [polypeptide binding]; other site 1069642000867 O-Methyltransferase involved in polyketide biosynthesis [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3315 1069642000868 Leucine carboxyl methyltransferase; Region: LCM; pfam04072 1069642000869 short chain dehydrogenase; Provisional; Region: PRK06924 1069642000870 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1069642000871 NAD(P) binding site [chemical binding]; other site 1069642000872 active site 1069642000873 Family description; Region: VCBS; pfam13517 1069642000874 Family description; Region: VCBS; pfam13517 1069642000875 Family description; Region: VCBS; pfam13517 1069642000876 Family description; Region: VCBS; pfam13517 1069642000877 ASPIC and UnbV; Region: UnbV_ASPIC; pfam07593 1069642000878 Nuclear transport factor 2 (NTF2-like) superfamily. This family includes members of the NTF2 family, Delta-5-3-ketosteroid isomerases, Scytalone Dehydratases, and the beta subunit of Ring hydroxylating dioxygenases. This family is a classic example of...; Region: NTF2_like; cl09109 1069642000879 Predicted naringenin-chalcone synthase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: BcsA; COG3424 1069642000880 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 1069642000881 active site 1069642000882 NADH dehydrogenase, FAD-containing subunit [Energy production and conversion]; Region: Ndh; COG1252 1069642000883 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 1069642000884 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1069642000885 muropeptide transporter; Reviewed; Region: ampG; PRK11902 1069642000886 muropeptide transporter; Validated; Region: ampG; cl17669 1069642000887 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 1069642000888 active site 1069642000889 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 1069642000890 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1069642000891 Coenzyme A binding pocket [chemical binding]; other site 1069642000892 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 1069642000893 FKBP-type peptidyl-prolyl cis-trans isomerase; Provisional; Region: PRK15095 1069642000894 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1666 1069642000895 Proteins similar to Escherichia coli YajQ; Region: YajQ_like; cd11740 1069642000896 RNA recognition motif (RRM) superfamily; Region: RRM_SF; cl17169 1069642000897 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 1069642000898 active site 1069642000899 catalytic triad [active] 1069642000900 oxyanion hole [active] 1069642000901 switch loop; other site 1069642000902 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 1069642000903 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 1069642000904 Walker A/P-loop; other site 1069642000905 ATP binding site [chemical binding]; other site 1069642000906 Q-loop/lid; other site 1069642000907 ABC transporter signature motif; other site 1069642000908 Walker B; other site 1069642000909 D-loop; other site 1069642000910 H-loop/switch region; other site 1069642000911 Predicted ABC-type transport system involved in lysophospholipase L1 biosynthesis, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3127 1069642000912 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 1069642000913 FtsX-like permease family; Region: FtsX; pfam02687 1069642000914 FtsX-like permease family; Region: FtsX; pfam02687 1069642000915 Putative translation factor (SUA5) [Translation, ribosomal structure and biogenesis]; Region: SUA5; COG0009 1069642000916 Putative GTP-binding controlling metal-binding; Region: SUA5; pfam03481 1069642000917 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 1069642000918 Sodium/hydrogen exchanger family; Region: Na_H_Exchanger; pfam00999 1069642000919 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 1069642000920 Acetyltransferase (GNAT) domain; Region: Acetyltransf_5; cl17496 1069642000921 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 1069642000922 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 1069642000923 putative acyl-acceptor binding pocket; other site 1069642000924 DNA Polymerase IV/Kappa; Region: PolY_Pol_IV_kappa; cd03586 1069642000925 active site 1069642000926 DNA polymerase IV; Validated; Region: PRK02406 1069642000927 DNA binding site [nucleotide binding] 1069642000928 Arsenate Reductase (ArsC) family, unknown subfamily; uncharacterized proteins containing a CXXC motif with similarity to thioredoxin (TRX)-fold arsenic reductases, ArsC. Proteins containing a redox active CXXC motif like TRX and glutaredoxin (GRX)...; Region: ArsC_like; cd03036 1069642000929 putative ArsC-like catalytic residues; other site 1069642000930 Agmatinase and related proteins; Region: Agmatinase-like_2; cd11593 1069642000931 putative active site [active] 1069642000932 Mn binding site [ion binding]; other site 1069642000933 The substrate-binding component of the oligopeptide-binding protein, AppA, from Bacillus subtilis contains the type 2 periplasmic-binding fold; Region: PBP2_AppA_like; cd08514 1069642000934 peptide binding site [polypeptide binding]; other site 1069642000935 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 1069642000936 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4174 1069642000937 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 1069642000938 dimer interface [polypeptide binding]; other site 1069642000939 conserved gate region; other site 1069642000940 putative PBP binding loops; other site 1069642000941 ABC-ATPase subunit interface; other site 1069642000942 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4239 1069642000943 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 1069642000944 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 1069642000945 dimer interface [polypeptide binding]; other site 1069642000946 conserved gate region; other site 1069642000947 putative PBP binding loops; other site 1069642000948 ABC-ATPase subunit interface; other site 1069642000949 arginine decarboxylase; Provisional; Region: PRK05354 1069642000950 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Arginine Decarboxylase; Region: PLPDE_III_ADC; cd06830 1069642000951 dimer interface [polypeptide binding]; other site 1069642000952 active site 1069642000953 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 1069642000954 catalytic residues [active] 1069642000955 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes; Region: PLPDE_III; cl00261 1069642000956 leucyl-tRNA synthetase; Validated; Region: leuS; PRK00390 1069642000957 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 1069642000958 HIGH motif; other site 1069642000959 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 1069642000960 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 1069642000961 active site 1069642000962 KMSKS motif; other site 1069642000963 Anticodon-binding domain of bacterial and eukaryotic mitochondrial leucyl tRNA synthetases; Region: Anticodon_Ia_Leu_BEm; cd07958 1069642000964 tRNA binding surface [nucleotide binding]; other site 1069642000965 Response regulator receiver domain; Region: Response_reg; pfam00072 1069642000966 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 1069642000967 active site 1069642000968 phosphorylation site [posttranslational modification] 1069642000969 intermolecular recognition site; other site 1069642000970 dimerization interface [polypeptide binding]; other site 1069642000971 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1069642000972 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1069642000973 metal binding site [ion binding]; metal-binding site 1069642000974 active site 1069642000975 I-site; other site 1069642000976 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 1069642000977 Cation efflux family; Region: Cation_efflux; pfam01545 1069642000978 Putative methyltransferase; Region: Methyltransf_4; cl17290 1069642000979 delta-60 repeat domain; Region: delta_60_rpt; TIGR02608 1069642000980 delta-60 repeat domain; Region: delta_60_rpt; TIGR02608 1069642000981 delta-60 repeat domain; Region: delta_60_rpt; TIGR02608 1069642000982 delta-60 repeat domain; Region: delta_60_rpt; TIGR02608 1069642000983 delta-60 repeat domain; Region: delta_60_rpt; TIGR02608 1069642000984 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 1069642000985 catalytic loop [active] 1069642000986 iron binding site [ion binding]; other site 1069642000987 thioredoxin-disulfide reductase; Region: TRX_reduct; TIGR01292 1069642000988 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 1069642000989 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1069642000990 Response regulator receiver domain; Region: Response_reg; pfam00072 1069642000991 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 1069642000992 active site 1069642000993 phosphorylation site [posttranslational modification] 1069642000994 intermolecular recognition site; other site 1069642000995 dimerization interface [polypeptide binding]; other site 1069642000996 Peptidase S8 family domain in Protein convertases; Region: Peptidases_S8_Protein_convertases_Kexins_Furin-lik; cd04059 1069642000997 calcium binding site 1 [ion binding]; other site 1069642000998 Subtilisin-like serine proteases [Posttranslational modification, protein turnover, chaperones]; Region: AprE; COG1404 1069642000999 active site 1069642001000 catalytic triad [active] 1069642001001 calcium binding site 2 [ion binding]; other site 1069642001002 calcium binding site 3 [ion binding]; other site 1069642001003 Proprotein convertase P-domain; Region: P_proprotein; pfam01483 1069642001004 PilZ domain; Region: PilZ; pfam07238 1069642001005 phosphoglycolate phosphatase; Provisional; Region: PRK13222 1069642001006 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 1069642001007 motif II; other site 1069642001008 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 1069642001009 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 1069642001010 ligand binding site [chemical binding]; other site 1069642001011 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 1069642001012 Predicted O-methyltransferase [General function prediction only]; Region: COG4122 1069642001013 error-prone DNA polymerase; Validated; Region: dnaE2; PRK05672 1069642001014 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III at DnaE2 gene; Region: PHP_PolIIIA_DnaE2; cd07434 1069642001015 putative active site [active] 1069642001016 putative PHP Thumb interface [polypeptide binding]; other site 1069642001017 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 1069642001018 generic binding surface II; other site 1069642001019 generic binding surface I; other site 1069642001020 Y-family of DNA polymerases; Region: PolY; cl12025 1069642001021 DNA binding site [nucleotide binding] 1069642001022 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 1069642001023 Methylated DNA-protein cysteine methyltransferase [DNA replication, recombination, and repair]; Region: Ada; COG0350 1069642001024 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 1069642001025 DNA binding site [nucleotide binding] 1069642001026 active site 1069642001027 Methyltransferase domain; Region: Methyltransf_18; pfam12847 1069642001028 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 1069642001029 TPP-binding site [chemical binding]; other site 1069642001030 Transketolase, pyrimidine binding domain; Region: Transket_pyr; smart00861 1069642001031 bicyclomycin/multidrug efflux system; Provisional; Region: PRK11102 1069642001032 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 1069642001033 putative substrate translocation pore; other site 1069642001034 Pup-ligase protein; Region: Pup_ligase; cl15463 1069642001035 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 1069642001036 Protein phosphatase 2C; Region: PP2C; pfam00481 1069642001037 active site 1069642001038 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 1069642001039 Peptidase family M23; Region: Peptidase_M23; pfam01551 1069642001040 putative acyltransferase; Provisional; Region: PRK05790 1069642001041 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 1069642001042 dimer interface [polypeptide binding]; other site 1069642001043 active site 1069642001044 2-hydroxycyclohexanecarboxyl-CoA dehydrogenase; Region: benzo_BadH; TIGR03206 1069642001045 classical (c) SDRs; Region: SDR_c; cd05233 1069642001046 NAD(P) binding site [chemical binding]; other site 1069642001047 active site 1069642001048 HD superfamily phosphohydrolases [General function prediction only]; Region: COG1078 1069642001049 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 1069642001050 Zn2+ binding site [ion binding]; other site 1069642001051 Mg2+ binding site [ion binding]; other site 1069642001052 flagellin; Provisional; Region: PRK12804 1069642001053 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 1069642001054 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 1069642001055 flagellin; Provisional; Region: PRK12802 1069642001056 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 1069642001057 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 1069642001058 TonB family C-terminal domain; Region: tonB_Cterm; TIGR01352 1069642001059 Biopolymer transport protein ExbD/TolR; Region: ExbD; pfam02472 1069642001060 Biopolymer transport protein ExbD/TolR; Region: ExbD; pfam02472 1069642001061 Biopolymer transport proteins [Intracellular trafficking and secretion]; Region: TolQ; COG0811 1069642001062 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1069642001063 Predicted unusual protein kinase [General function prediction only]; Region: AarF; COG0661 1069642001064 ABC1 family; Region: ABC1; pfam03109 1069642001065 Aminoglycoside 3'-phosphotransferase (APH) and Choline Kinase (ChoK) family. The APH/ChoK family is part of a larger superfamily that includes the catalytic domains of other kinases, such as the typical serine/threonine/tyrosine protein kinases (PKs)...; Region: APH_ChoK_like; cd05120 1069642001066 active site 1069642001067 ATP binding site [chemical binding]; other site 1069642001068 ribonuclease R; Region: RNase_R; TIGR02063 1069642001069 Ribonuclease B OB domain; Region: OB_RNB; pfam08206 1069642001070 RNB domain; Region: RNB; pfam00773 1069642001071 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 1069642001072 RNA binding site [nucleotide binding]; other site 1069642001073 Protein of unknown function (DUF497); Region: DUF497; cl01108 1069642001074 Domain of unknown function (DUF4415); Region: DUF4415; pfam14384 1069642001075 Outer membrane protein family (DUF1597); Region: DUF1597; pfam07642 1069642001076 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1069642001077 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 1069642001078 active site 1069642001079 phosphorylation site [posttranslational modification] 1069642001080 intermolecular recognition site; other site 1069642001081 dimerization interface [polypeptide binding]; other site 1069642001082 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 1069642001083 DNA binding site [nucleotide binding] 1069642001084 threonine and homoserine efflux system; Provisional; Region: PRK10532 1069642001085 EamA-like transporter family; Region: EamA; pfam00892 1069642001086 Histidine kinase-, DNA gyrase B-, and HSP90-like ATPase; Region: HATPase_c; pfam02518 1069642001087 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1069642001088 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 1069642001089 active site 1069642001090 phosphorylation site [posttranslational modification] 1069642001091 intermolecular recognition site; other site 1069642001092 dimerization interface [polypeptide binding]; other site 1069642001093 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 1069642001094 DNA binding site [nucleotide binding] 1069642001095 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 1069642001096 Beta-lactamase; Region: Beta-lactamase; pfam00144 1069642001097 Vitamin K-dependent gamma-carboxylase; Region: VKG_Carbox; cl02773 1069642001098 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 1069642001099 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 1069642001100 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1069642001101 TM-ABC transporter signature motif; other site 1069642001102 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1069642001103 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 1069642001104 TM-ABC transporter signature motif; other site 1069642001105 ABC-type uncharacterized transport systems, ATPase components [General function prediction only]; Region: COG3845 1069642001106 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 1069642001107 Walker A/P-loop; other site 1069642001108 ATP binding site [chemical binding]; other site 1069642001109 Q-loop/lid; other site 1069642001110 ABC transporter signature motif; other site 1069642001111 Walker B; other site 1069642001112 D-loop; other site 1069642001113 H-loop/switch region; other site 1069642001114 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 1069642001115 Uncharacterized ABC-type transport system, periplasmic component/surface lipoprotein [General function prediction only]; Region: Med; COG1744 1069642001116 Periplasmic binding domain of basic membrane lipoprotein, PnrA, in Treponema pallidum and its homologs from other bacteria and Archaea; Region: PBP1_BmpA_PnrA_like; cd06354 1069642001117 ligand binding site [chemical binding]; other site 1069642001118 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 1069642001119 global nitrogen regulator NtcA, cyanobacterial; Region: NtcA_cyano; TIGR03697 1069642001120 ligand binding site [chemical binding]; other site 1069642001121 flexible hinge region; other site 1069642001122 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 1069642001123 putative switch regulator; other site 1069642001124 non-specific DNA interactions [nucleotide binding]; other site 1069642001125 DNA binding site [nucleotide binding] 1069642001126 sequence specific DNA binding site [nucleotide binding]; other site 1069642001127 putative cAMP binding site [chemical binding]; other site 1069642001128 Putative catalytic domain, repeat 1, of Escherichia coli uncharacterized protein ymdC and similar proteins; Region: PLDc_ymdC_like_1; cd09111 1069642001129 PLD-like domain; Region: PLDc_2; pfam13091 1069642001130 putative active site [active] 1069642001131 catalytic site [active] 1069642001132 Putative catalytic domain, repeat 2, of Escherichia coli uncharacterized protein ymdC and similar proteins; Region: PLDc_ymdC_like_2; cd09113 1069642001133 PLD-like domain; Region: PLDc_2; pfam13091 1069642001134 putative active site [active] 1069642001135 catalytic site [active] 1069642001136 Peroxiredoxin (PRX)-like 1 family; hypothetical proteins that show sequence similarity to PRXs. Members of this group contain a conserved cysteine that aligns to the first cysteine in the CXXC motif of TRX. This does not correspond to the peroxidatic...; Region: PRX_like1; cd02969 1069642001137 putative catalytic residue [active] 1069642001138 Disulphide bond corrector protein DsbC; Region: DsbC; cl15830 1069642001139 Thiol:disulfide interchange protein [Posttranslational modification, protein turnover, chaperones / Energy production and conversion]; Region: COG4232 1069642001140 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; cl15788 1069642001141 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 1069642001142 DsbD alpha interface [polypeptide binding]; other site 1069642001143 catalytic residues [active] 1069642001144 Peptidase domain in the S8 and S53 families; Region: Peptidases_S8_S53; cd00306 1069642001145 catalytic residues [active] 1069642001146 Escherichia coli YaeB and related proteins; Region: UPF0066; cd09281 1069642001147 homodimer interaction site [polypeptide binding]; other site 1069642001148 cofactor binding site; other site 1069642001149 Isopenicillin N synthase and related dioxygenases [General function prediction only]; Region: PcbC; COG3491 1069642001150 non-haem dioxygenase in morphine synthesis N-terminal; Region: DIOX_N; pfam14226 1069642001151 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy; pfam03171 1069642001152 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_19; cd07262 1069642001153 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 1069642001154 valyl-tRNA synthetase; Reviewed; Region: valS; PRK05729 1069642001155 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 1069642001156 HIGH motif; other site 1069642001157 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 1069642001158 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 1069642001159 active site 1069642001160 KMSKS motif; other site 1069642001161 Anticodon-binding domain of valyl tRNA synthetases; Region: Anticodon_Ia_Val; cd07962 1069642001162 tRNA binding surface [nucleotide binding]; other site 1069642001163 anticodon binding site; other site 1069642001164 Valyl tRNA synthetase tRNA binding arm; Region: Val_tRNA-synt_C; pfam10458 1069642001165 Phosphate-selective porin O and P; Region: Porin_O_P; pfam07396 1069642001166 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 1069642001167 active site residue [active] 1069642001168 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 1069642001169 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1069642001170 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 1069642001171 Uncharacterized ACR, YggU family COG1872; Region: DUF167; pfam02594 1069642001172 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 1069642001173 DivIVA protein; Region: DivIVA; pfam05103 1069642001174 DivIVA domain; Region: DivI1A_domain; TIGR03544 1069642001175 The band 7 domain of flotillin (reggie) like proteins. This group contains proteins similar to stomatin, prohibitin, flotillin, HlfK/C and podicin. Many of these band 7 domain-containing proteins are lipid raft-associated. Individual proteins of this...; Region: Band_7; cl02525 1069642001176 Pyrroline-5-carboxylate reductase [Amino acid transport and metabolism]; Region: ProC; COG0345 1069642001177 NADP oxidoreductase coenzyme F420-dependent; Region: F420_oxidored; cl17232 1069642001178 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, YBL036c-like proteins; Region: PLPDE_III_YBL036c_like; cd00635 1069642001179 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 1069642001180 catalytic residue [active] 1069642001181 probable sporulation protein, polysaccharide deacetylase family; Region: spore_ylxY; TIGR02873 1069642001182 Catalytic NodB homology domain of rhizobial NodB-like proteins; Region: CE4_NodB_like_6s_7s; cd10917 1069642001183 NodB motif; other site 1069642001184 active site 1069642001185 catalytic site [active] 1069642001186 metal binding site [ion binding]; metal-binding site 1069642001187 Maf-like protein; Region: Maf; pfam02545 1069642001188 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 1069642001189 active site 1069642001190 dimer interface [polypeptide binding]; other site 1069642001191 Flp pilus assembly protein TadC [Cell motility and secretion / Intracellular trafficking and secretion]; Region: TadC; COG2064 1069642001192 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 1069642001193 Uncharacterized ACR, COG1430; Region: DUF192; pfam02643 1069642001194 Forkhead associated domain (FHA); found in eukaryotic and prokaryotic proteins. Putative nuclear signalling domain. FHA domains may bind phosphothreonine, phosphoserine and sometimes phosphotyrosine. In eukaryotes, many FHA domain-containing proteins...; Region: FHA; cd00060 1069642001195 FOG: FHA domain [Signal transduction mechanisms]; Region: COG1716 1069642001196 phosphopeptide binding site; other site 1069642001197 Forkhead associated domain (FHA); found in eukaryotic and prokaryotic proteins. Putative nuclear signalling domain. FHA domains may bind phosphothreonine, phosphoserine and sometimes phosphotyrosine. In eukaryotes, many FHA domain-containing proteins...; Region: FHA; cd00060 1069642001198 FOG: FHA domain [Signal transduction mechanisms]; Region: COG1716 1069642001199 phosphopeptide binding site; other site 1069642001200 FHA domain; Region: FHA; pfam00498 1069642001201 phosphopeptide binding site; other site 1069642001202 Forkhead associated domain (FHA); found in eukaryotic and prokaryotic proteins. Putative nuclear signalling domain. FHA domains may bind phosphothreonine, phosphoserine and sometimes phosphotyrosine. In eukaryotes, many FHA domain-containing proteins...; Region: FHA; cd00060 1069642001203 FOG: FHA domain [Signal transduction mechanisms]; Region: COG1716 1069642001204 phosphopeptide binding site; other site 1069642001205 Sulfatase; Region: Sulfatase; cl17466 1069642001206 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; pfam01618 1069642001207 Biopolymer transport protein ExbD/TolR; Region: ExbD; pfam02472 1069642001208 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 1069642001209 Dolichol kinase [Lipid metabolism]; Region: SEC59; COG0170 1069642001210 Phosphatidylserine synthase [Lipid metabolism]; Region: PssA; COG1183 1069642001211 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; pfam01066 1069642001212 aspartate-semialdehyde dehydrogenase; Provisional; Region: PRK14874 1069642001213 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 1069642001214 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 1069642001215 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 1069642001216 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 1069642001217 substrate binding pocket [chemical binding]; other site 1069642001218 membrane-bound complex binding site; other site 1069642001219 hinge residues; other site 1069642001220 Herpesvirus UL49 tegument protein; Region: Herpes_UL49_2; cl17590 1069642001221 tRNA pseudouridine synthase A; Validated; Region: truA; PRK00021 1069642001222 Eukaryotic and bacterial pseudouridine synthases similar to E. coli TruA; Region: PseudoU_synth_EcTruA; cd02570 1069642001223 dimerization interface 3.5A [polypeptide binding]; other site 1069642001224 active site 1069642001225 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 1069642001226 23S rRNA interface [nucleotide binding]; other site 1069642001227 L3 interface [polypeptide binding]; other site 1069642001228 30S ribosomal protein S9; Reviewed; Region: rpsI; PRK00132 1069642001229 Protein of unknown function (DUF3373); Region: DUF3373; pfam11853 1069642001230 Cache domain; Region: Cache_1; pfam02743 1069642001231 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1069642001232 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 1069642001233 dimer interface [polypeptide binding]; other site 1069642001234 phosphorylation site [posttranslational modification] 1069642001235 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 1069642001236 ATP binding site [chemical binding]; other site 1069642001237 Mg2+ binding site [ion binding]; other site 1069642001238 G-X-G motif; other site 1069642001239 Response regulator receiver domain; Region: Response_reg; pfam00072 1069642001240 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 1069642001241 active site 1069642001242 phosphorylation site [posttranslational modification] 1069642001243 intermolecular recognition site; other site 1069642001244 dimerization interface [polypeptide binding]; other site 1069642001245 alanyl-tRNA synthetase; Reviewed; Region: alaS; PRK00252 1069642001246 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 1069642001247 motif 1; other site 1069642001248 active site 1069642001249 motif 2; other site 1069642001250 motif 3; other site 1069642001251 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 1069642001252 recombination regulator RecX; Reviewed; Region: recX; PRK00117 1069642001253 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 1069642001254 Bacillus subtilis YkuE and related proteins, C-terminal metallophosphatase domain; Region: MPP_YkuE_C; cd07385 1069642001255 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 1069642001256 putative active site [active] 1069642001257 putative metal binding site [ion binding]; other site 1069642001258 Acyl-coenzyme A synthetases/AMP-(fatty) acid ligases [Lipid metabolism]; Region: Acs; COG0365 1069642001259 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 1069642001260 acyl-activating enzyme (AAE) consensus motif; other site 1069642001261 AMP binding site [chemical binding]; other site 1069642001262 active site 1069642001263 CoA binding site [chemical binding]; other site 1069642001264 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 1069642001265 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 1069642001266 substrate binding pocket [chemical binding]; other site 1069642001267 membrane-bound complex binding site; other site 1069642001268 hinge residues; other site 1069642001269 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 1069642001270 putative beta-ketoacyl acyl carrier protein [ACP] reductase (BKR)-like, SDR; Region: BKR_like_SDR_like; cd05344 1069642001271 putative NAD(P) binding site [chemical binding]; other site 1069642001272 putative active site [active] 1069642001273 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 1069642001274 tryptophanyl-tRNA synthetase II; Reviewed; Region: PRK12282 1069642001275 active site 1069642001276 dimer interface [polypeptide binding]; other site 1069642001277 KMSKS motif; other site 1069642001278 Acetyltransferase (GNAT) domain; Region: Acetyltransf_8; pfam13523 1069642001279 Siderophore biosynthesis protein domain; Region: AlcB; smart01006 1069642001280 Phosphatidylglycerophosphatase A; a bacterial membrane-associated enzyme involved in lipid metabolism; Region: PgpA; cd06971 1069642001281 tetramer interfaces [polypeptide binding]; other site 1069642001282 binuclear metal-binding site [ion binding]; other site 1069642001283 Competence-damaged protein; Region: CinA; pfam02464 1069642001284 recombinase A; Provisional; Region: recA; PRK09354 1069642001285 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 1069642001286 hexamer interface [polypeptide binding]; other site 1069642001287 Walker A motif; other site 1069642001288 ATP binding site [chemical binding]; other site 1069642001289 Walker B motif; other site 1069642001290 Uncharacterized conserved protein [Function unknown]; Region: COG3189 1069642001291 CDP-diacylglycerol pyrophosphatase; Provisional; Region: PRK05471 1069642001292 3D domain; Region: 3D; cl01439 1069642001293 Peptidase S8 family domain in Subtilisin-like proteins; Region: Peptidases_S8_Subtilisin_like; cd07473 1069642001294 Subtilisin-like serine proteases [Posttranslational modification, protein turnover, chaperones]; Region: AprE; COG1404 1069642001295 catalytic triad [active] 1069642001296 putative active site [active] 1069642001297 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 1069642001298 catalytic residues [active] 1069642001299 dimer interface [polypeptide binding]; other site 1069642001300 Aspartokinases [Amino acid transport and metabolism]; Region: LysC; COG0527 1069642001301 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 1069642001302 putative nucleotide binding site [chemical binding]; other site 1069642001303 putative catalytic residues [active] 1069642001304 putative Mg ion binding site [ion binding]; other site 1069642001305 putative aspartate binding site [chemical binding]; other site 1069642001306 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 1069642001307 N-acetyl-D-glucosamine binding site [chemical binding]; other site 1069642001308 catalytic residue [active] 1069642001309 Flagellar basal body rod protein [Cell motility and secretion]; Region: FlgG; COG4786 1069642001310 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 1069642001311 flagellar basal-body rod protein FlgF; Region: flgF; TIGR02490 1069642001312 flagellar basal-body rod protein FlgG, Gram-negative bacteria; Region: flgG_G_neg; TIGR02488 1069642001313 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 1069642001314 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 1069642001315 SAF-like; Region: SAF_2; pfam13144 1069642001316 SAF domains of the flagella basal body P-ring formation protein FlgA and the flp pilus assembly CpaB; Region: SAF_CpaB_FlgA_like; cd11614 1069642001317 Flagellar L-ring protein; Region: FlgH; cl17277 1069642001318 flagellar basal body P-ring protein; Provisional; Region: flgI; PRK05303 1069642001319 flagellar basal body P-ring protein; Reviewed; Region: flgI; cl14622 1069642001320 Rod binding protein; Region: Rod-binding; pfam10135 1069642001321 Peptidase family M23; Region: Peptidase_M23; pfam01551 1069642001322 flagellar biosynthesis anti-sigma factor FlgM; Region: FlgM_jcvi; TIGR03824 1069642001323 FlgN protein; Region: FlgN; pfam05130 1069642001324 flagellar hook-associated protein FlgK; Validated; Region: flgK; PRK07739 1069642001325 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 1069642001326 Flagellin and related hook-associated proteins [Cell motility and secretion]; Region: FlgL; COG1344 1069642001327 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 1069642001328 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 1069642001329 flagellar assembly protein FliW; Provisional; Region: PRK13285 1069642001330 RmuC family; Region: RmuC; pfam02646 1069642001331 1,4-dihydroxy-2-naphthoate octaprenyltransferase; Validated; Region: PRK06080 1069642001332 UbiA prenyltransferase family; Region: UbiA; pfam01040 1069642001333 Enolase-superfamily, characterized by the presence of an enolate anion intermediate which is generated by abstraction of the alpha-proton of the carboxylate substrate by an active site residue and is stabilized by coordination to the essential Mg2+ ion; Region: enolase_like; cl17188 1069642001334 metal binding site [ion binding]; metal-binding site 1069642001335 substrate binding pocket [chemical binding]; other site 1069642001336 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 1069642001337 acyl-activating enzyme (AAE) consensus motif; other site 1069642001338 Acyl-CoA synthetases (AMP-forming)/AMP-acid ligases II [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: CaiC; COG0318 1069642001339 AMP binding site [chemical binding]; other site 1069642001340 active site 1069642001341 CoA binding site [chemical binding]; other site 1069642001342 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 1069642001343 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 1069642001344 Flagellin N-methylase; Region: FliB; pfam03692 1069642001345 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 1069642001346 active site 1069642001347 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 1069642001348 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 1069642001349 substrate binding pocket [chemical binding]; other site 1069642001350 chain length determination region; other site 1069642001351 substrate-Mg2+ binding site; other site 1069642001352 catalytic residues [active] 1069642001353 aspartate-rich region 1; other site 1069642001354 active site lid residues [active] 1069642001355 aspartate-rich region 2; other site 1069642001356 UbiA prenyltransferase family; Region: UbiA; pfam01040 1069642001357 1,4-dihydroxy-2-naphthoate octaprenyltransferase [Coenzyme metabolism]; Region: MenA; cl17224 1069642001358 Methyltransferase domain; Region: Methyltransf_23; pfam13489 1069642001359 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 1069642001360 S-adenosylmethionine binding site [chemical binding]; other site 1069642001361 Serine/threonine phosphatases, family 2C, catalytic domain; The protein architecture and deduced catalytic mechanism of PP2C phosphatases are similar to the PP1, PP2A, PP2B family of protein Ser/Thr phosphatases, with which PP2C shares no sequence...; Region: PP2Cc; cl00120 1069642001362 Bacillus subtilis (Bs) citrate synthase (CS)-II_like. CS catalyzes the condensation of acetyl coenzyme A (AcCoA) and oxalacetate (OAA) to form citrate and coenzyme A (CoA), the first step in the citric acid cycle (TCA or Krebs cycle). 2MCS catalyzes the...; Region: BSuCS-II_like; cd06110 1069642001363 dimer interface [polypeptide binding]; other site 1069642001364 Citrate synthase; Region: Citrate_synt; pfam00285 1069642001365 active site 1069642001366 citrylCoA binding site [chemical binding]; other site 1069642001367 oxalacetate/citrate binding site [chemical binding]; other site 1069642001368 coenzyme A binding site [chemical binding]; other site 1069642001369 catalytic triad [active] 1069642001370 Trypsin-like serine protease; Many of these are synthesized as inactive precursor zymogens that are cleaved during limited proteolysis to generate their active forms. Alignment contains also inactive enzymes that have substitutions of the catalytic triad...; Region: Tryp_SPc; cl00149 1069642001371 cleavage site 1069642001372 active site 1069642001373 substrate binding sites [chemical binding]; other site 1069642001374 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2989 1069642001375 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 1069642001376 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 1069642001377 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 1069642001378 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1069642001379 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 1069642001380 active site 1069642001381 phosphorylation site [posttranslational modification] 1069642001382 intermolecular recognition site; other site 1069642001383 dimerization interface [polypeptide binding]; other site 1069642001384 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 1069642001385 DNA binding site [nucleotide binding] 1069642001386 Diadenosine tetraphosphate (Ap4A) hydrolase and other HIT family hydrolases [Nucleotide transport and metabolism / Carbohydrate transport and metabolism / General function prediction only]; Region: Hit; COG0537 1069642001387 nucleotide binding site/active site [active] 1069642001388 HIT family signature motif; other site 1069642001389 catalytic residue [active] 1069642001390 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 1069642001391 dimer interface [polypeptide binding]; other site 1069642001392 substrate binding site [chemical binding]; other site 1069642001393 metal binding sites [ion binding]; metal-binding site 1069642001394 Protein of unknown function (DUF1653); Region: DUF1653; pfam07866 1069642001395 Nitronate monooxygenase; Region: NMO; pfam03060 1069642001396 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 1069642001397 FMN binding site [chemical binding]; other site 1069642001398 substrate binding site [chemical binding]; other site 1069642001399 putative catalytic residue [active] 1069642001400 Imelysin; Region: Peptidase_M75; pfam09375 1069642001401 Protein of unknown function (DUF1111); Region: DUF1111; pfam06537 1069642001402 Predicted thiol oxidoreductase [Energy production and conversion]; Region: COG3488 1069642001403 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 1069642001404 putative binding surface; other site 1069642001405 active site 1069642001406 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 1069642001407 ATP binding site [chemical binding]; other site 1069642001408 Mg2+ binding site [ion binding]; other site 1069642001409 G-X-G motif; other site 1069642001410 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 1069642001411 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 1069642001412 CheD chemotactic sensory transduction; Region: CheD; cl00810 1069642001413 chemotaxis-specific methylesterase; Provisional; Region: PRK00742 1069642001414 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 1069642001415 active site 1069642001416 phosphorylation site [posttranslational modification] 1069642001417 intermolecular recognition site; other site 1069642001418 dimerization interface [polypeptide binding]; other site 1069642001419 CheB methylesterase; Region: CheB_methylest; pfam01339 1069642001420 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 1069642001421 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 1069642001422 NAD(P) binding site [chemical binding]; other site 1069642001423 catalytic residues [active] 1069642001424 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1069642001425 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 1069642001426 dimerization interface [polypeptide binding]; other site 1069642001427 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 1069642001428 dimer interface [polypeptide binding]; other site 1069642001429 phosphorylation site [posttranslational modification] 1069642001430 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 1069642001431 ATP binding site [chemical binding]; other site 1069642001432 Mg2+ binding site [ion binding]; other site 1069642001433 G-X-G motif; other site 1069642001434 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 1069642001435 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 1069642001436 active site 1069642001437 phosphorylation site [posttranslational modification] 1069642001438 intermolecular recognition site; other site 1069642001439 dimerization interface [polypeptide binding]; other site 1069642001440 D-alanyl-alanine synthetase A; Reviewed; Region: ddl; PRK01966 1069642001441 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 1069642001442 D-ala D-ala ligase C-terminus; Region: Dala_Dala_lig_C; pfam07478 1069642001443 isoprenoid biosynthesis protein with amidotransferase-like domain; Provisional; Region: PRK11780 1069642001444 Type 1 glutamine amidotransferase (GATase1)-like domain found in zebrafish ES1; Region: GATase1_ES1; cd03133 1069642001445 conserved cys residue [active] 1069642001446 Acetyltransferase (GNAT) domain; Region: Acetyltransf_9; pfam13527 1069642001447 4Fe-4S single cluster domain; Region: Fer4_13; pfam13370 1069642001448 Predicted EndoIII-related endonuclease [DNA replication, recombination, and repair]; Region: Nth; COG0177 1069642001449 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 1069642001450 minor groove reading motif; other site 1069642001451 helix-hairpin-helix signature motif; other site 1069642001452 substrate binding pocket [chemical binding]; other site 1069642001453 active site 1069642001454 Iron-sulfur binding domain of endonuclease III; Region: EndIII_4Fe-2S; cl15304 1069642001455 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 1069642001456 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 1069642001457 ABC-type Fe3+ transport system, permease component [Inorganic ion transport and metabolism]; Region: ThiP; COG1178 1069642001458 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 1069642001459 dimer interface [polypeptide binding]; other site 1069642001460 conserved gate region; other site 1069642001461 putative PBP binding loops; other site 1069642001462 ABC-ATPase subunit interface; other site 1069642001463 ABC transporter; Region: ABC_tran; pfam00005 1069642001464 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1069642001465 Q-loop/lid; other site 1069642001466 ABC transporter signature motif; other site 1069642001467 Walker B; other site 1069642001468 D-loop; other site 1069642001469 H-loop/switch region; other site 1069642001470 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 1069642001471 dimerization interface [polypeptide binding]; other site 1069642001472 nitrogen regulation protein NR(II); Provisional; Region: glnL; PRK11073 1069642001473 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 1069642001474 putative active site [active] 1069642001475 heme pocket [chemical binding]; other site 1069642001476 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 1069642001477 dimer interface [polypeptide binding]; other site 1069642001478 phosphorylation site [posttranslational modification] 1069642001479 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 1069642001480 ATP binding site [chemical binding]; other site 1069642001481 Mg2+ binding site [ion binding]; other site 1069642001482 G-X-G motif; other site 1069642001483 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 1069642001484 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 1069642001485 active site 1069642001486 phosphorylation site [posttranslational modification] 1069642001487 intermolecular recognition site; other site 1069642001488 dimerization interface [polypeptide binding]; other site 1069642001489 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 1069642001490 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 1069642001491 membrane-bound complex binding site; other site 1069642001492 Membrane-bound lytic murein transglycosylase [Cell envelope biogenesis, outer membrane]; Region: MltA; COG2821 1069642001493 Protein of unknown function (DUF1460); Region: DUF1460; pfam07313 1069642001494 flagellin; Provisional; Region: PRK12802 1069642001495 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 1069642001496 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 1069642001497 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 1069642001498 flagellin; Provisional; Region: PRK12802 1069642001499 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 1069642001500 Zinc-dependent metalloprotease; MMP_like sub-family 2. A group of bacterial metalloproteinase domains similar to matrix metalloproteinases and astacin; Region: ZnMc_MMP_like_2; cd04276 1069642001501 active site 1069642001502 Phosphoenolpyruvate carboxylase [Energy production and conversion]; Region: Ppc; COG2352 1069642001503 Phosphoenolpyruvate carboxylase; Region: PEPcase; cl17418 1069642001504 Flagellar capping protein [Cell motility and secretion]; Region: FliD; COG1345 1069642001505 Flagellar hook-associated protein 2 C-terminus; Region: FliD_N; pfam02465 1069642001506 Flagellar hook-associated protein 2 C-terminus; Region: FliD_C; pfam07195 1069642001507 Flagellar protein FliS; Region: FliS; cl00654 1069642001508 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 1069642001509 TPR motif; other site 1069642001510 binding surface 1069642001511 Tetratricopeptide repeat; Region: TPR_12; pfam13424 1069642001512 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 1069642001513 binding surface 1069642001514 TPR repeat; Region: TPR_11; pfam13414 1069642001515 TPR motif; other site 1069642001516 TPR repeat; Region: TPR_11; pfam13414 1069642001517 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 1069642001518 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 1069642001519 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 1069642001520 putative active site [active] 1069642001521 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 1069642001522 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 1069642001523 putative active site [active] 1069642001524 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 1069642001525 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 1069642001526 dimer interface [polypeptide binding]; other site 1069642001527 phosphorylation site [posttranslational modification] 1069642001528 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 1069642001529 ATP binding site [chemical binding]; other site 1069642001530 Mg2+ binding site [ion binding]; other site 1069642001531 G-X-G motif; other site 1069642001532 Response regulator receiver domain; Region: Response_reg; pfam00072 1069642001533 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 1069642001534 active site 1069642001535 phosphorylation site [posttranslational modification] 1069642001536 intermolecular recognition site; other site 1069642001537 dimerization interface [polypeptide binding]; other site 1069642001538 N6-adenine-specific methylase [DNA replication, recombination, and repair]; Region: COG0742 1069642001539 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 1069642001540 S-adenosylmethionine binding site [chemical binding]; other site 1069642001541 Phosphopantetheine adenylyltransferase; Region: PPAT; cd02163 1069642001542 (T/H)XGH motif; other site 1069642001543 pantetheine-phosphate adenylyltransferase, bacterial; Region: coaD_prev_kdtB; TIGR01510 1069642001544 active site 1069642001545 aspartate aminotransferase; Provisional; Region: PRK05764 1069642001546 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 1069642001547 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1069642001548 homodimer interface [polypeptide binding]; other site 1069642001549 catalytic residue [active] 1069642001550 Protein of unknown function (DUF2802); Region: DUF2802; pfam10975 1069642001551 Trypsin-like serine protease; Many of these are synthesized as inactive precursor zymogens that are cleaved during limited proteolysis to generate their active forms. Alignment contains also inactive enzymes that have substitutions of the catalytic triad...; Region: Tryp_SPc; cl00149 1069642001552 cleavage site 1069642001553 active site 1069642001554 substrate binding sites [chemical binding]; other site 1069642001555 Peptidase MA superfamily; Region: Peptidase_MA_2; pfam13485 1069642001556 peptidoglycan-associated outer membrane lipoprotein; Provisional; Region: PRK10802 1069642001557 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 1069642001558 ligand binding site [chemical binding]; other site 1069642001559 tol-pal system protein YbgF; Region: tol_pal_ybgF; TIGR02795 1069642001560 Tetratricopeptide repeat; Region: TPR_6; pfam13174 1069642001561 tRNA threonylcarbamoyl adenosine modification protein YgjD; Region: T6A_YgjD; TIGR03723 1069642001562 tRNA threonylcarbamoyl adenosine modification protein YeaZ; Region: T6A_YeaZ; TIGR03725 1069642001563 16S ribosomal RNA methyltransferase KsgA/Dim1 family protein; Reviewed; Region: ksgA; PRK00274 1069642001564 Dimethyladenosine transferase (rRNA methylation) [Translation, ribosomal structure and biogenesis]; Region: KsgA; COG0030 1069642001565 EamA-like transporter family; Region: EamA; pfam00892 1069642001566 PilZ domain; Region: PilZ; pfam07238 1069642001567 Predicted SAM-dependent methyltransferase [General function prediction only]; Region: COG2933 1069642001568 FtsJ-like methyltransferase; Region: FtsJ; pfam01728 1069642001569 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 1069642001570 MarR family; Region: MarR_2; cl17246 1069642001571 Domain of unknown function (DUF336); Region: DUF336; pfam03928 1069642001572 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 1069642001573 active site 1069642001574 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 1069642001575 putative substrate binding site [chemical binding]; other site 1069642001576 putative ATP binding site [chemical binding]; other site 1069642001577 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 1069642001578 putative active site [active] 1069642001579 putative CoA binding site [chemical binding]; other site 1069642001580 nudix motif; other site 1069642001581 metal binding site [ion binding]; metal-binding site 1069642001582 Predicted membrane protein, hemolysin III homolog [General function prediction only]; Region: COG1272 1069642001583 channel protein, hemolysin III family; Region: hlyIII; TIGR01065 1069642001584 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 1069642001585 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1069642001586 putative substrate translocation pore; other site 1069642001587 glutathione-regulated potassium-efflux system protein KefC; Provisional; Region: PRK03562 1069642001588 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; COG0475 1069642001589 TrkA-N domain; Region: TrkA_N; pfam02254 1069642001590 Protein of unknown function (DUF2914); Region: DUF2914; pfam11141 1069642001591 cleavage site 1069642001592 Trypsin; Region: Trypsin; pfam00089 1069642001593 active site 1069642001594 substrate binding sites [chemical binding]; other site 1069642001595 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1069642001596 dimer interface [polypeptide binding]; other site 1069642001597 putative CheW interface [polypeptide binding]; other site 1069642001598 Choloylglycine hydrolase (CGH) is a bile salt-modifying enzyme that hydrolyzes non-peptide carbon-nitrogen bonds in choloylglycine and choloyltaurine, both of which are present in bile. CGH is present in a number of probiotic microbial organisms that...; Region: Ntn_CGH; cd01902 1069642001599 Linear amide C-N hydrolases, choloylglycine hydrolase family; Region: CBAH; pfam02275 1069642001600 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 1069642001601 active site 1069642001602 Nucleoside-specific channel-forming protein, Tsx; Region: Channel_Tsx; cl04114 1069642001603 Nucleoside-specific channel-forming protein, Tsx; Region: Channel_Tsx; cl04114 1069642001604 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 1069642001605 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 1069642001606 substrate binding pocket [chemical binding]; other site 1069642001607 membrane-bound complex binding site; other site 1069642001608 hinge residues; other site 1069642001609 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 1069642001610 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 1069642001611 substrate binding pocket [chemical binding]; other site 1069642001612 membrane-bound complex binding site; other site 1069642001613 hinge residues; other site 1069642001614 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 1069642001615 non-specific DNA binding site [nucleotide binding]; other site 1069642001616 salt bridge; other site 1069642001617 sequence-specific DNA binding site [nucleotide binding]; other site 1069642001618 Domain of unknown function (DUF4423); Region: DUF4423; pfam14394 1069642001619 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 1069642001620 Protein of unknown function (DUF1595); Region: PSD5; pfam07637 1069642001621 Protein of unknown function (DUF1592); Region: PSD4; pfam07631 1069642001622 Protein of unknown function (DUF1588); Region: PSCyt3; pfam07627 1069642001623 Protein of unknown function (DUF1552); Region: HXXSHH; pfam07586 1069642001624 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 1069642001625 DnaJ-class molecular chaperone with C-terminal Zn finger domain [Posttranslational modification, protein turnover, chaperones]; Region: DnaJ; COG0484 1069642001626 HSP70 interaction site [polypeptide binding]; other site 1069642001627 Domain of unknown function (DUF4423); Region: DUF4423; pfam14394 1069642001628 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 1069642001629 lipoyl attachment site [posttranslational modification]; other site 1069642001630 glycine cleavage system aminomethyltransferase T; Reviewed; Region: gcvT; PRK00389 1069642001631 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 1069642001632 Predicted SAM-dependent methyltransferase [General function prediction only]; Region: COG2384 1069642001633 Family of unknown function (DUF633); Region: DUF633; pfam04816 1069642001634 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 1069642001635 salt bridge; other site 1069642001636 non-specific DNA binding site [nucleotide binding]; other site 1069642001637 sequence-specific DNA binding site [nucleotide binding]; other site 1069642001638 Bacterial Ig-like domain (group 3); Region: Big_3_4; pfam13754 1069642001639 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 1069642001640 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 1069642001641 substrate binding pocket [chemical binding]; other site 1069642001642 membrane-bound complex binding site; other site 1069642001643 hinge residues; other site 1069642001644 Mitochondrial small ribosomal subunit Rsm22; Region: Rsm22; cl17847 1069642001645 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 1069642001646 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 1069642001647 putative active site [active] 1069642001648 glycine dehydrogenase; Provisional; Region: PRK05367 1069642001649 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 1069642001650 tetramer interface [polypeptide binding]; other site 1069642001651 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1069642001652 catalytic residue [active] 1069642001653 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 1069642001654 tetramer interface [polypeptide binding]; other site 1069642001655 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1069642001656 catalytic residue [active] 1069642001657 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 1069642001658 putative substrate translocation pore; other site 1069642001659 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 1069642001660 4-alpha-glucanotransferase; Region: Glyco_hydro_77; cl00711 1069642001661 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cl15239 1069642001662 putative active site [active] 1069642001663 catalytic site [active] 1069642001664 PLD-like domain; Region: PLDc_2; pfam13091 1069642001665 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cl15239 1069642001666 putative active site [active] 1069642001667 catalytic site [active] 1069642001668 Domain of unknown function (DUF4286); Region: DUF4286; pfam14114 1069642001669 Predicted Zn-dependent proteases and their inactivated homologs [General function prediction only]; Region: TldD; COG0312 1069642001670 Predicted Zn-dependent proteases and their inactivated homologs [General function prediction only]; Region: TldD; COG0312 1069642001671 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 1069642001672 EF-P lysine aminoacylase GenX; Region: genX; TIGR00462 1069642001673 motif 1; other site 1069642001674 dimer interface [polypeptide binding]; other site 1069642001675 active site 1069642001676 motif 2; other site 1069642001677 motif 3; other site 1069642001678 Trypsin-like serine protease; Many of these are synthesized as inactive precursor zymogens that are cleaved during limited proteolysis to generate their active forms. Alignment contains also inactive enzymes that have substitutions of the catalytic triad...; Region: Tryp_SPc; cd00190 1069642001679 cleavage site 1069642001680 active site 1069642001681 substrate binding sites [chemical binding]; other site 1069642001682 Chaperone of endosialidase; Region: Peptidase_S74; pfam13884 1069642001683 type I secretion outer membrane protein, TolC family; Region: type_I_sec_TolC; TIGR01844 1069642001684 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 1069642001685 Membrane Fusion Protein cluster 2 (function with RND porters); Region: 8a0102; TIGR00999 1069642001686 carboxyltransferase (CT) interaction site; other site 1069642001687 biotinylation site [posttranslational modification]; other site 1069642001688 HlyD family secretion protein; Region: HlyD_3; pfam13437 1069642001689 macrolide transporter ATP-binding /permease protein; Provisional; Region: PRK10535 1069642001690 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 1069642001691 Walker A/P-loop; other site 1069642001692 ATP binding site [chemical binding]; other site 1069642001693 Q-loop/lid; other site 1069642001694 ABC transporter signature motif; other site 1069642001695 Walker B; other site 1069642001696 D-loop; other site 1069642001697 H-loop/switch region; other site 1069642001698 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 1069642001699 FtsX-like permease family; Region: FtsX; pfam02687 1069642001700 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 1069642001701 IHF - DNA interface [nucleotide binding]; other site 1069642001702 IHF dimer interface [polypeptide binding]; other site 1069642001703 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1069642001704 This family is most closely related to the GT1 family of glycosyltransferases and named after YqgM in Bacillus licheniformis about which little is known. Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to...; Region: GT1_YqgM_like; cd03801 1069642001705 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 1069642001706 active site 1069642001707 8-oxo-dGMP binding site [chemical binding]; other site 1069642001708 nudix motif; other site 1069642001709 metal binding site [ion binding]; metal-binding site 1069642001710 dihydroorotate dehydrogenase 2; Reviewed; Region: PRK05286 1069642001711 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 1069642001712 quinone interaction residues [chemical binding]; other site 1069642001713 active site 1069642001714 catalytic residues [active] 1069642001715 FMN binding site [chemical binding]; other site 1069642001716 substrate binding site [chemical binding]; other site 1069642001717 Glutamate dehydrogenase/leucine dehydrogenase [Amino acid transport and metabolism]; Region: GdhA; COG0334 1069642001718 Glu/Leu/Phe/Val dehydrogenase, dimerisation domain; Region: ELFV_dehydrog_N; pfam02812 1069642001719 NAD(P) binding domain of glutamate dehydrogenase, subgroup 1; Region: NAD_bind_1_Glu_DH; cd01076 1069642001720 NAD(P) binding site [chemical binding]; other site 1069642001721 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy_2; pfam13532 1069642001722 ADP-heptose synthase, bifunctional sugar kinase/adenylyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaE; COG2870 1069642001723 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 1069642001724 putative ribose interaction site [chemical binding]; other site 1069642001725 putative ADP binding site [chemical binding]; other site 1069642001726 Dopa 4,5-dioxygenase family; Region: DOPA_dioxygen; pfam08883 1069642001727 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 1069642001728 FKBP-type peptidyl-prolyl cis-trans isomerases 2 [Posttranslational modification, protein turnover, chaperones]; Region: SlpA; COG1047 1069642001729 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 1069642001730 salt bridge; other site 1069642001731 non-specific DNA binding site [nucleotide binding]; other site 1069642001732 sequence-specific DNA binding site [nucleotide binding]; other site 1069642001733 Domain of unknown function (DUF4423); Region: DUF4423; pfam14394 1069642001734 NHL repeat; Region: NHL; pfam01436 1069642001735 NHL repeat; Region: NHL; pfam01436 1069642001736 NHL repeat; Region: NHL; pfam01436 1069642001737 NHL repeat; Region: NHL; pfam01436 1069642001738 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 1069642001739 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 1069642001740 substrate binding pocket [chemical binding]; other site 1069642001741 membrane-bound complex binding site; other site 1069642001742 hinge residues; other site 1069642001743 KH domain; Region: KH_4; pfam13083 1069642001744 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 1069642001745 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 1069642001746 putative substrate translocation pore; other site 1069642001747 Predicted Fe-S-cluster redox enzyme [General function prediction only]; Region: COG0820 1069642001748 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 1069642001749 FeS/SAM binding site; other site 1069642001750 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 1069642001751 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 1069642001752 substrate binding site [chemical binding]; other site 1069642001753 ATP binding site [chemical binding]; other site 1069642001754 Choline dehydrogenase and related flavoproteins [Amino acid transport and metabolism]; Region: BetA; COG2303 1069642001755 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 1069642001756 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 1069642001757 alpha/beta hydrolase fold; Region: Abhydrolase_1; pfam00561 1069642001758 Chromosome segregation ATPases [Cell division and chromosome partitioning]; Region: Smc; COG1196 1069642001759 Escherichia coli YbbF/LpxH and related proteins, metallophosphatase domain; Region: MPP_YbbF-LpxH; cd07398 1069642001760 putative active site [active] 1069642001761 putative metal binding site [ion binding]; other site 1069642001762 glucose-6-phosphate isomerase; Provisional; Region: PRK00973 1069642001763 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 1069642001764 active site 1069642001765 dimer interface [polypeptide binding]; other site 1069642001766 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 1069642001767 dimer interface [polypeptide binding]; other site 1069642001768 active site 1069642001769 Forkhead associated domain (FHA); found in eukaryotic and prokaryotic proteins. Putative nuclear signalling domain. FHA domains may bind phosphothreonine, phosphoserine and sometimes phosphotyrosine. In eukaryotes, many FHA domain-containing proteins...; Region: FHA; cd00060 1069642001770 FOG: FHA domain [Signal transduction mechanisms]; Region: COG1716 1069642001771 phosphopeptide binding site; other site 1069642001772 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1069642001773 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1069642001774 metal binding site [ion binding]; metal-binding site 1069642001775 active site 1069642001776 I-site; other site 1069642001777 RNA polymerase factor sigma-70; Validated; Region: PRK09047 1069642001778 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1069642001779 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 1069642001780 DNA binding residues [nucleotide binding] 1069642001781 L-aminoadipate-semialdehyde dehydrogenase; Region: alpha_am_amid; TIGR03443 1069642001782 Predicted aminopeptidase (DUF2265); Region: DUF2265; pfam10023 1069642001783 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; pfam13505 1069642001784 methionine sulfoxide reductase B; Provisional; Region: PRK00222 1069642001785 SelR domain; Region: SelR; pfam01641 1069642001786 Protein of unknown function (DUF3750); Region: DUF3750; pfam12570 1069642001787 TonB family C-terminal domain; Region: tonB_Cterm; TIGR01352 1069642001788 NYN ribonuclease and ATPase of PhoH family domains [General function prediction only]; Region: COG1875 1069642001789 PIN domain of bacterial Smg6-like homologs with PhoH-like ATPase domains; Region: PIN_PhoHL-ATPase; cd09883 1069642001790 putative active site [active] 1069642001791 PhoH-like protein; Region: PhoH; pfam02562 1069642001792 (R)-hydratase [(R)-specific enoyl-CoA hydratase] catalyzes the hydration of trans-2-enoyl CoA to (R)-3-hydroxyacyl-CoA as part of the PHA (polyhydroxyalkanoate) biosynthetic pathway. (R)-hydratase contains a hot-dog fold similar to those of thioesterase...; Region: R_hydratase; cd03449 1069642001793 dimer interaction site [polypeptide binding]; other site 1069642001794 substrate-binding tunnel; other site 1069642001795 active site 1069642001796 catalytic site [active] 1069642001797 substrate binding site [chemical binding]; other site 1069642001798 Sensors of blue-light using FAD; Region: BLUF; pfam04940 1069642001799 Predicted membrane protein [Function unknown]; Region: COG2259 1069642001800 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; cl14057 1069642001801 Tyrosine phosphatase family; Region: Y_phosphatase3; pfam13350 1069642001802 Tyrosine phosphatase family C-terminal region; Region: Y_phosphatase3C; pfam13348 1069642001803 SdiA-regulated; Region: SdiA-regulated; cd09971 1069642001804 putative active site [active] 1069642001805 Protein of unknown function (DUF3011); Region: DUF3011; pfam11218 1069642001806 dihydrolipoamide dehydrogenase; Reviewed; Region: PRK06416 1069642001807 Anaerobic glycerol-3-phosphate dehydrogenase [Amino acid transport and metabolism]; Region: GlpB; cl17730 1069642001808 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1069642001809 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 1069642001810 dihydrolipoamide acetyltransferase; Reviewed; Region: PRK11855 1069642001811 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 1069642001812 E3 interaction surface; other site 1069642001813 lipoyl attachment site [posttranslational modification]; other site 1069642001814 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 1069642001815 E3 interaction surface; other site 1069642001816 lipoyl attachment site [posttranslational modification]; other site 1069642001817 e3 binding domain; Region: E3_binding; pfam02817 1069642001818 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 1069642001819 putative DNA-binding transcriptional regulator; Reviewed; Region: PRK00347 1069642001820 Zn-dependent alcohol dehydrogenases [General function prediction only]; Region: AdhP; COG1064 1069642001821 Cinnamyl alcohol dehydrogenases (CAD); Region: CAD1; cd05283 1069642001822 putative NAD(P) binding site [chemical binding]; other site 1069642001823 putative substrate binding site [chemical binding]; other site 1069642001824 catalytic Zn binding site [ion binding]; other site 1069642001825 structural Zn binding site [ion binding]; other site 1069642001826 dimer interface [polypeptide binding]; other site 1069642001827 L,D-transpeptidase catalytic domain; Region: YkuD_2; pfam13645 1069642001828 HEPN domain; Region: HEPN; pfam05168 1069642001829 Thioredoxin; Region: Thioredoxin_4; pfam13462 1069642001830 DSBA-like thioredoxin domain; Region: DSBA; pfam01323 1069642001831 Type II/IV secretion system protein; Region: T2SE; pfam00437 1069642001832 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 1069642001833 ATP binding site [chemical binding]; other site 1069642001834 Walker A motif; other site 1069642001835 hexamer interface [polypeptide binding]; other site 1069642001836 Walker B motif; other site 1069642001837 enolase; Provisional; Region: eno; PRK00077 1069642001838 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 1069642001839 dimer interface [polypeptide binding]; other site 1069642001840 metal binding site [ion binding]; metal-binding site 1069642001841 substrate binding pocket [chemical binding]; other site 1069642001842 Catalase [Inorganic ion transport and metabolism]; Region: KatE; COG0753 1069642001843 Clade 3 of the heme-binding enzyme catalase; Region: catalase_clade_3; cd08156 1069642001844 tetramer interface [polypeptide binding]; other site 1069642001845 heme binding pocket [chemical binding]; other site 1069642001846 NADPH binding site [chemical binding]; other site 1069642001847 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 1069642001848 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 1069642001849 Septum formation initiator; Region: DivIC; pfam04977 1069642001850 DNA polymerase I; Provisional; Region: PRK05755 1069642001851 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 1069642001852 active site 1069642001853 metal binding site 1 [ion binding]; metal-binding site 1069642001854 putative 5' ssDNA interaction site; other site 1069642001855 metal binding site 3; metal-binding site 1069642001856 metal binding site 2 [ion binding]; metal-binding site 1069642001857 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 1069642001858 putative DNA binding site [nucleotide binding]; other site 1069642001859 putative metal binding site [ion binding]; other site 1069642001860 DnaQ-like (or DEDD) 3'-5' exonuclease domain superfamily; Region: DnaQ_like_exo; cl10012 1069642001861 active site 1069642001862 substrate binding site [chemical binding]; other site 1069642001863 catalytic site [active] 1069642001864 Polymerase I functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication; Region: DNA_pol_A_pol_I_C; cd08637 1069642001865 active site 1069642001866 DNA binding site [nucleotide binding] 1069642001867 catalytic site [active] 1069642001868 Flagellar basal body-associated protein FliL; Region: FliL; pfam03748 1069642001869 Forkhead associated domain (FHA); found in eukaryotic and prokaryotic proteins. Putative nuclear signalling domain. FHA domains may bind phosphothreonine, phosphoserine and sometimes phosphotyrosine. In eukaryotes, many FHA domain-containing proteins...; Region: FHA; cd00060 1069642001870 phosphopeptide binding site; other site 1069642001871 psp operon transcriptional activator PspF; Region: phageshock_pspF; TIGR02974 1069642001872 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 1069642001873 Walker A motif; other site 1069642001874 ATP binding site [chemical binding]; other site 1069642001875 Walker B motif; other site 1069642001876 arginine finger; other site 1069642001877 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 1069642001878 YihA (EngB) GTPase family; Region: YihA_EngB; cd01876 1069642001879 G1 box; other site 1069642001880 GTP/Mg2+ binding site [chemical binding]; other site 1069642001881 Switch I region; other site 1069642001882 G2 box; other site 1069642001883 G3 box; other site 1069642001884 Switch II region; other site 1069642001885 G4 box; other site 1069642001886 G5 box; other site 1069642001887 3-deoxy-manno-octulosonate cytidylyltransferase; Provisional; Region: PRK05450 1069642001888 CMP-KDO synthetase catalyzes the activation of KDO which is an essential component of the lipopolysaccharide; Region: CMP-KDO-Synthetase; cd02517 1069642001889 Ligand binding site; other site 1069642001890 oligomer interface; other site 1069642001891 CTP synthetase; Validated; Region: pyrG; PRK05380 1069642001892 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 1069642001893 Catalytic site [active] 1069642001894 active site 1069642001895 UTP binding site [chemical binding]; other site 1069642001896 Type 1 glutamine amidotransferase (GATase1) domain found in Cytidine Triphosphate Synthetase; Region: GATase1_CTP_Synthase; cd01746 1069642001897 active site 1069642001898 putative oxyanion hole; other site 1069642001899 catalytic triad [active] 1069642001900 D-arabinose 5-phosphate isomerase; Provisional; Region: PRK10892 1069642001901 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 1069642001902 putative active site [active] 1069642001903 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 1069642001904 Ribosomal protein L24e/L24 is a ribosomal protein found in eukaryotes (L24) and in archaea (L24e, distinct from archaeal L24). L24e/L24 is located on the surface of the large subunit, adjacent to proteins L14 and L3, and near the translation factor...; Region: Ribosomal_L24e_L24; cl00909 1069642001905 Bacterial transcription activator, effector binding domain; Region: AraC_E_bind; smart00871 1069642001906 Protein-tyrosine-phosphatase [Signal transduction mechanisms]; Region: Wzb; COG0394 1069642001907 Low molecular weight phosphatase family; Region: LMWPc; cd00115 1069642001908 active site 1069642001909 Uncharacterized conserved protein [Function unknown]; Region: COG5361 1069642001910 Protein of unknown function (DUF1254); Region: DUF1254; pfam06863 1069642001911 Protein of unknown function (DUF1214); Region: DUF1214; cl08447 1069642001912 Glucose/sorbosone dehydrogenases [Carbohydrate transport and metabolism]; Region: COG2133 1069642001913 Bacterial SH3 domain; Region: SH3_5; pfam08460 1069642001914 Glutaminase; Region: Glutaminase; cl00907 1069642001915 D-alanyl-D-alanine carboxypeptidase, serine-type, PBP4 family; Region: PBP4; TIGR00666 1069642001916 D-Ala-D-Ala carboxypeptidase 3 (S13) family; Region: Peptidase_S13; cl17429 1069642001917 Uncharacterized membrane protein [Function unknown]; Region: SapB; COG1285 1069642001918 Protein of unknown function (DUF3616); Region: DUF3616; pfam12275 1069642001919 Polyphosphate(polyP) polymerase domain of yeast vacuolar transport chaperone (VTC) proteins VTC-2, -3 and- 4, and similar proteins; Region: PolyPPase_VTC_like; cd07750 1069642001920 putative metal binding residues [ion binding]; other site 1069642001921 signature motif; other site 1069642001922 dimer interface [polypeptide binding]; other site 1069642001923 active site 1069642001924 polyP binding site; other site 1069642001925 substrate binding site [chemical binding]; other site 1069642001926 acceptor-phosphate pocket; other site 1069642001927 Tyrosine phosphatase family; Region: Y_phosphatase2; pfam03162 1069642001928 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 1069642001929 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 1069642001930 Walker A/P-loop; other site 1069642001931 ATP binding site [chemical binding]; other site 1069642001932 Q-loop/lid; other site 1069642001933 ABC transporter signature motif; other site 1069642001934 Walker B; other site 1069642001935 D-loop; other site 1069642001936 H-loop/switch region; other site 1069642001937 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 1069642001938 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 1069642001939 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 1069642001940 dimer interface [polypeptide binding]; other site 1069642001941 conserved gate region; other site 1069642001942 putative PBP binding loops; other site 1069642001943 ABC-ATPase subunit interface; other site 1069642001944 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 1069642001945 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 1069642001946 substrate binding pocket [chemical binding]; other site 1069642001947 membrane-bound complex binding site; other site 1069642001948 hinge residues; other site 1069642001949 HAD-superfamily hydrolase, subfamily IIIA; Region: HAD-SF-IIIA; TIGR01662 1069642001950 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 1069642001951 active site 1069642001952 motif I; other site 1069642001953 motif II; other site 1069642001954 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 1069642001955 binding surface 1069642001956 TPR motif; other site 1069642001957 tol-pal system protein YbgF; Region: tol_pal_ybgF; TIGR02795 1069642001958 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 1069642001959 TPR motif; other site 1069642001960 binding surface 1069642001961 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 1069642001962 TPR motif; other site 1069642001963 TPR repeat; Region: TPR_11; pfam13414 1069642001964 binding surface 1069642001965 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 1069642001966 binding surface 1069642001967 TPR motif; other site 1069642001968 TPR repeat; Region: TPR_11; pfam13414 1069642001969 TPR repeat; Region: TPR_11; pfam13414 1069642001970 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 1069642001971 binding surface 1069642001972 TPR motif; other site 1069642001973 Forkhead associated domain (FHA); found in eukaryotic and prokaryotic proteins. Putative nuclear signalling domain. FHA domains may bind phosphothreonine, phosphoserine and sometimes phosphotyrosine. In eukaryotes, many FHA domain-containing proteins...; Region: FHA; cd00060 1069642001974 FOG: FHA domain [Signal transduction mechanisms]; Region: COG1716 1069642001975 phosphopeptide binding site; other site 1069642001976 Biopolymer transport proteins [Intracellular trafficking and secretion]; Region: TolQ; COG0811 1069642001977 Biopolymer transport protein ExbD/TolR; Region: ExbD; cl00537 1069642001978 Biopolymer transport protein ExbD/TolR; Region: ExbD; pfam02472 1069642001979 Lipopolysaccharide-assembly, LptC-related; Region: LptC; pfam06835 1069642001980 OstA-like protein; Region: OstA; cl00844 1069642001981 ABC-type (unclassified) transport system, ATPase component [General function prediction only]; Region: YhbG; COG1137 1069642001982 ATP-binding cassette component of YhbG transport system; Region: ABC_YhbG; cd03218 1069642001983 Walker A/P-loop; other site 1069642001984 ATP binding site [chemical binding]; other site 1069642001985 Q-loop/lid; other site 1069642001986 ABC transporter signature motif; other site 1069642001987 Walker B; other site 1069642001988 D-loop; other site 1069642001989 H-loop/switch region; other site 1069642001990 RNA polymerase factor sigma-54; Reviewed; Region: PRK05932 1069642001991 Sigma-54 factor, Activator interacting domain (AID); Region: Sigma54_AID; pfam00309 1069642001992 Sigma-54 factor, core binding domain; Region: Sigma54_CBD; pfam04963 1069642001993 Sigma-54, DNA binding domain; Region: Sigma54_DBD; pfam04552 1069642001994 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 1069642001995 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 1069642001996 substrate binding pocket [chemical binding]; other site 1069642001997 membrane-bound complex binding site; other site 1069642001998 hinge residues; other site 1069642001999 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1069642002000 active site 1069642002001 nucleosidase; Provisional; Region: PRK05634 1069642002002 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 1069642002003 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 1069642002004 30S subunit binding site; other site 1069642002005 S-adenosylmethionine synthetase; Validated; Region: PRK05250 1069642002006 S-adenosylmethionine synthetase, N-terminal domain; Region: S-AdoMet_synt_N; pfam00438 1069642002007 S-adenosylmethionine synthetase, central domain; Region: S-AdoMet_synt_M; pfam02772 1069642002008 S-adenosylmethionine synthetase, C-terminal domain; Region: S-AdoMet_synt_C; pfam02773 1069642002009 GTP-binding protein LepA; Provisional; Region: PRK05433 1069642002010 LepA also known as Elongation Factor 4 (EF4); Region: LepA; cd01890 1069642002011 G1 box; other site 1069642002012 putative GEF interaction site [polypeptide binding]; other site 1069642002013 GTP/Mg2+ binding site [chemical binding]; other site 1069642002014 Switch I region; other site 1069642002015 G2 box; other site 1069642002016 G3 box; other site 1069642002017 Switch II region; other site 1069642002018 G4 box; other site 1069642002019 G5 box; other site 1069642002020 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 1069642002021 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 1069642002022 GTP-binding protein LepA C-terminus; Region: LepA_C; pfam06421 1069642002023 signal peptidase I, bacterial type; Region: sigpep_I_bact; TIGR02227 1069642002024 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 1069642002025 Catalytic site [active] 1069642002026 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 1069642002027 signal peptidase I, bacterial type; Region: sigpep_I_bact; TIGR02227 1069642002028 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 1069642002029 Catalytic site [active] 1069642002030 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 1069642002031 signal peptidase I, bacterial type; Region: sigpep_I_bact; TIGR02227 1069642002032 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 1069642002033 Catalytic site [active] 1069642002034 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 1069642002035 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 1069642002036 aspartate carbamoyltransferase catalytic subunit; Provisional; Region: pyrB; PRK00856 1069642002037 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 1069642002038 carbamoyl phosphate synthase small subunit; Reviewed; Region: PRK12564 1069642002039 Carbamoyl-phosphate synthase small chain, CPSase domain; Region: CPSase_sm_chain; cl03056 1069642002040 Small chain of the glutamine-dependent form of carbamoyl phosphate synthase, CPSase II; Region: GATase1_CPSase; cd01744 1069642002041 catalytic site [active] 1069642002042 subunit interface [polypeptide binding]; other site 1069642002043 carbamoyl phosphate synthase large subunit; Reviewed; Region: carB; PRK05294 1069642002044 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 1069642002045 ATP-grasp domain; Region: ATP-grasp_4; cl17255 1069642002046 Carbamoyl-phosphate synthetase large chain, oligomerisation domain; Region: CPSase_L_D3; pfam02787 1069642002047 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 1069642002048 ATP-grasp domain; Region: ATP-grasp_4; cl17255 1069642002049 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 1069642002050 IMP binding site; other site 1069642002051 dimer interface [polypeptide binding]; other site 1069642002052 interdomain contacts; other site 1069642002053 partial ornithine binding site; other site 1069642002054 phosphate/phosphite/phosphonate ABC transporters, periplasmic binding protein; Region: 3A0109s03R; TIGR01098 1069642002055 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 1069642002056 substrate binding pocket [chemical binding]; other site 1069642002057 membrane-bound complex binding site; other site 1069642002058 ABC-type Na+ transport system, ATPase component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatA; COG4555 1069642002059 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 1069642002060 Walker A/P-loop; other site 1069642002061 ATP binding site [chemical binding]; other site 1069642002062 Q-loop/lid; other site 1069642002063 ABC transporter signature motif; other site 1069642002064 Walker B; other site 1069642002065 D-loop; other site 1069642002066 H-loop/switch region; other site 1069642002067 ABC-type transport system involved in multi-copper enzyme maturation, permease component [General function prediction only]; Region: NosY; COG1277 1069642002068 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 1069642002069 Bacterial Peptidase A24 N-terminal domain; Region: DiS_P_DiS; pfam06750 1069642002070 Type IV leader peptidase family; Region: Peptidase_A24; pfam01478 1069642002071 Cell division protein FtsA; Region: FtsA; cl17206 1069642002072 Competence protein A; Region: Competence_A; pfam11104 1069642002073 Cell division protein FtsA; Region: FtsA; pfam14450 1069642002074 Tfp pilus assembly protein PilN [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilN; COG3166 1069642002075 Fimbrial assembly protein (PilN); Region: PilN; pfam05137 1069642002076 Pilus assembly protein, PilO; Region: PilO; cl01234 1069642002077 Pilus assembly protein, PilP; Region: PilP; pfam04351 1069642002078 type IV pilus secretin (or competence protein) PilQ; Region: IV_pilus_PilQ; TIGR02515 1069642002079 Secretin and TonB N terminus short domain; Region: STN; pfam07660 1069642002080 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 1069642002081 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 1069642002082 recombination factor protein RarA; Reviewed; Region: PRK13342 1069642002083 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 1069642002084 Walker A motif; other site 1069642002085 ATP binding site [chemical binding]; other site 1069642002086 Walker B motif; other site 1069642002087 arginine finger; other site 1069642002088 MgsA AAA+ ATPase C terminal; Region: MgsA_C; pfam12002 1069642002089 Cupin domain; Region: Cupin_2; pfam07883 1069642002090 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 1069642002091 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 1069642002092 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 1069642002093 putative substrate binding pocket [chemical binding]; other site 1069642002094 AC domain interface; other site 1069642002095 catalytic triad [active] 1069642002096 AB domain interface; other site 1069642002097 interchain disulfide; other site 1069642002098 CpxP component of the bacterial Cpx-two-component system and related proteins; Region: CpxP_like; cd09916 1069642002099 dimer interface [polypeptide binding]; other site 1069642002100 RNA polymerase sigma factor; Provisional; Region: PRK12518 1069642002101 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1069642002102 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 1069642002103 DNA binding residues [nucleotide binding] 1069642002104 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 1069642002105 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 1069642002106 ligand binding site [chemical binding]; other site 1069642002107 Chaperone of endosialidase; Region: Peptidase_S74; pfam13884 1069642002108 Septum formation initiator; Region: DivIC; cl17659 1069642002109 Domain of unknown function (DUF1904); Region: DUF1904; pfam08921 1069642002110 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 1069642002111 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 1069642002112 Protein export membrane protein; Region: SecD_SecF; cl14618 1069642002113 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_a; cd00913 1069642002114 aromatic arch; other site 1069642002115 DCoH dimer interaction site [polypeptide binding]; other site 1069642002116 DCoH /HNF-1 dimer interaction site [polypeptide binding]; other site 1069642002117 DCoH tetramer interaction site [polypeptide binding]; other site 1069642002118 substrate binding site [chemical binding]; other site 1069642002119 Protein of unknown function DUF72; Region: DUF72; pfam01904 1069642002120 BON domain; Region: BON; pfam04972 1069642002121 short chain dehydrogenase; Provisional; Region: PRK06181 1069642002122 classical (c) SDRs; Region: SDR_c; cd05233 1069642002123 NAD(P) binding site [chemical binding]; other site 1069642002124 active site 1069642002125 Domain of unknown function (DUF4105); Region: DUF4105; pfam13387 1069642002126 Protein of unknown function (DUF3015); Region: DUF3015; pfam11220 1069642002127 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1069642002128 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1069642002129 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 1069642002130 putative effector binding pocket; other site 1069642002131 dimerization interface [polypeptide binding]; other site 1069642002132 class III alcohol dehydrogenases; Region: alcohol_DH_class_III; cd08300 1069642002133 S-(hydroxymethyl)glutathione dehydrogenase/class III alcohol dehydrogenase; Region: adh_III_F_hyde; TIGR02818 1069642002134 substrate binding site [chemical binding]; other site 1069642002135 catalytic Zn binding site [ion binding]; other site 1069642002136 NAD binding site [chemical binding]; other site 1069642002137 structural Zn binding site [ion binding]; other site 1069642002138 dimer interface [polypeptide binding]; other site 1069642002139 S-formylglutathione hydrolase; Region: PLN02442 1069642002140 S-formylglutathione hydrolase; Region: fghA_ester_D; TIGR02821 1069642002141 Zn-dependent alcohol dehydrogenases [General function prediction only]; Region: AdhP; COG1064 1069642002142 Cinnamyl alcohol dehydrogenases (CAD); Region: CAD1; cd05283 1069642002143 putative NAD(P) binding site [chemical binding]; other site 1069642002144 putative substrate binding site [chemical binding]; other site 1069642002145 catalytic Zn binding site [ion binding]; other site 1069642002146 structural Zn binding site [ion binding]; other site 1069642002147 dimer interface [polypeptide binding]; other site 1069642002148 Predicted Zn-dependent hydrolases of the beta-lactamase fold [General function prediction only]; Region: COG2220 1069642002149 Beta-lactamase superfamily domain; Region: Lactamase_B_2; pfam12706 1069642002150 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1069642002151 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1069642002152 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 1069642002153 putative effector binding pocket; other site 1069642002154 putative dimerization interface [polypeptide binding]; other site 1069642002155 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1069642002156 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 1069642002157 dimerization interface [polypeptide binding]; other site 1069642002158 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 1069642002159 Trypsin; Region: Trypsin; pfam00089 1069642002160 cleavage site 1069642002161 active site 1069642002162 substrate binding sites [chemical binding]; other site 1069642002163 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1069642002164 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1069642002165 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 1069642002166 substrate binding pocket [chemical binding]; other site 1069642002167 dimerization interface [polypeptide binding]; other site 1069642002168 Putative intracellular protease/amidase [General function prediction only]; Region: ThiJ; COG0693 1069642002169 Type 1 glutamine amidotransferase (GATase1)-like domain found in proteins similar to Escherichia coli Hsp31 protein; Region: GATase1_Hsp31_like; cd03141 1069642002170 potential catalytic triad [active] 1069642002171 conserved cys residue [active] 1069642002172 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 1069642002173 atypical (a) SDRs, subgroup 4; Region: SDR_a4; cd05266 1069642002174 NADH(P)-binding; Region: NAD_binding_10; pfam13460 1069642002175 putative NAD(P) binding site [chemical binding]; other site 1069642002176 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 1069642002177 Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]; Region: COG0826 1069642002178 Peptidase family U32; Region: Peptidase_U32; pfam01136 1069642002179 Collagenase; Region: DUF3656; pfam12392 1069642002180 Peptidase family U32; Region: Peptidase_U32; cl03113 1069642002181 Chorismate mutase type II; Region: CM_2; smart00830 1069642002182 Predicted SAM-dependent methyltransferases [General function prediction only]; Region: COG1092 1069642002183 Middle domain of the SAM-dependent methyltransferase RlmI and related proteins; Region: RlmI_M_like; cd11572 1069642002184 putative RNA binding site [nucleotide binding]; other site 1069642002185 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 1069642002186 S-adenosylmethionine binding site [chemical binding]; other site 1069642002187 Cupin superfamily protein; Region: Cupin_4; pfam08007 1069642002188 Cupin-like domain; Region: Cupin_8; pfam13621 1069642002189 malate dehydrogenase; Provisional; Region: PRK05442 1069642002190 Chloroplast-like malate dehydrogenases; Region: MDH_choloroplast_like; cd01338 1069642002191 NAD(P) binding site [chemical binding]; other site 1069642002192 dimer interface [polypeptide binding]; other site 1069642002193 malate binding site [chemical binding]; other site 1069642002194 Pentapeptide repeats (9 copies); Region: Pentapeptide_4; pfam13599 1069642002195 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 1069642002196 Virulence factor BrkB; Region: Virul_fac_BrkB; pfam03631 1069642002197 Endonuclease I; Region: Endonuclease_1; pfam04231 1069642002198 KOW motif of Ribosomal Protein L26; Region: KOW_RPL26; cd06089 1069642002199 RNA binding site [nucleotide binding]; other site 1069642002200 nitrilase; Region: PLN02798 1069642002201 Nit1, Nit 2, and related proteins, and the Nit1-like domain of NitFhit (class 10 nitrilases); Region: nit; cd07572 1069642002202 putative active site [active] 1069642002203 catalytic triad [active] 1069642002204 dimer interface [polypeptide binding]; other site 1069642002205 hydroxyglutarate oxidase; Provisional; Region: PRK11728 1069642002206 geranylgeranyl reductase family; Region: GG-red-SF; TIGR02032 1069642002207 Electron transfer flavoprotein-ubiquinone oxidoreductase; Region: ETF_QO; pfam05187 1069642002208 Predicted N6-adenine-specific DNA methylase [DNA replication, recombination, and repair]; Region: COG0116 1069642002209 THUMP domain associated with S-adenosylmethionine-dependent methyltransferases; Region: THUMP_AdoMetMT; cd11715 1069642002210 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 1069642002211 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase; Provisional; Region: lpxD; PRK00892 1069642002212 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 1069642002213 trimer interface [polypeptide binding]; other site 1069642002214 active site 1069642002215 UDP-GlcNAc binding site [chemical binding]; other site 1069642002216 lipid binding site [chemical binding]; lipid-binding site 1069642002217 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 1069642002218 rRNA binding site [nucleotide binding]; other site 1069642002219 predicted 30S ribosome binding site; other site 1069642002220 Transcriptional accessory protein [Transcription]; Region: Tex; COG2183 1069642002221 Tex-like protein N-terminal domain; Region: Tex_N; pfam09371 1069642002222 Likely ribonuclease with RNase H fold; Region: YqgFc; smart00732 1069642002223 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 1069642002224 RNA binding site [nucleotide binding]; other site 1069642002225 Predicted Zn-dependent proteases and their inactivated homologs [General function prediction only]; Region: TldD; COG0312 1069642002226 Predicted Zn-dependent proteases and their inactivated homologs [General function prediction only]; Region: TldD; COG0312 1069642002227 Late embryogenesis abundant protein; Region: LEA_2; pfam03168 1069642002228 HAD-superfamily hydrolase, subfamily IIB; Region: HAD-SF-IIB; TIGR01484 1069642002229 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others; Region: HAD_like; cl17915 1069642002230 motif II; other site 1069642002231 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 1069642002232 DNA topoisomerase I subunit omega; Validated; Region: PRK07561 1069642002233 TOPRIM_TopoIA_TopoI: The topoisomerase-primase (TORPIM) domain found in members of the type IA family of DNA topoisomerases (Topo IA) similar to Escherichia coli DNA topoisomerase I. Type IA DNA topoisomerases remove (relax) negative supercoils in the...; Region: TOPRIM_TopoIA_TopoI; cd03363 1069642002234 active site 1069642002235 interdomain interaction site; other site 1069642002236 putative metal-binding site [ion binding]; other site 1069642002237 nucleotide binding site [chemical binding]; other site 1069642002238 Bacterial DNA topoisomeraes I ATP-binding domain; Region: TOP1Bc; smart00436 1069642002239 domain I; other site 1069642002240 phosphate binding site [ion binding]; other site 1069642002241 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 1069642002242 domain II; other site 1069642002243 domain III; other site 1069642002244 nucleotide binding site [chemical binding]; other site 1069642002245 DNA binding groove [nucleotide binding] 1069642002246 catalytic site [active] 1069642002247 domain IV; other site 1069642002248 Topoisomerase C-terminal repeat; Region: Toprim_C_rpt; pfam13368 1069642002249 Topoisomerase C-terminal repeat; Region: Toprim_C_rpt; pfam13368 1069642002250 Topoisomerase C-terminal repeat; Region: Toprim_C_rpt; pfam13368 1069642002251 Topoisomerase C-terminal repeat; Region: Toprim_C_rpt; pfam13368 1069642002252 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 1069642002253 C-terminal peptidase (prc); Region: prc; TIGR00225 1069642002254 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 1069642002255 protein binding site [polypeptide binding]; other site 1069642002256 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 1069642002257 Catalytic dyad [active] 1069642002258 C-terminal domain of tail specific protease (DUF3340); Region: DUF3340; pfam11818 1069642002259 Tetratricopeptide repeat; Region: TPR_16; pfam13432 1069642002260 pyruvate dehydrogenase E1 component, alpha subunit; Region: PDH_E1_alph_y; TIGR03182 1069642002261 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 1069642002262 tetramer interface [polypeptide binding]; other site 1069642002263 TPP-binding site [chemical binding]; other site 1069642002264 heterodimer interface [polypeptide binding]; other site 1069642002265 phosphorylation loop region [posttranslational modification] 1069642002266 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, beta subunit [Energy production and conversion]; Region: AcoB; COG0022 1069642002267 Pyrimidine (PYR) binding domain of thiamine pyrophosphate (TPP)-dependent enzymes; Region: TPP_enzyme_PYR; cl11410 1069642002268 dimer interface [polypeptide binding]; other site 1069642002269 PYR/PP interface [polypeptide binding]; other site 1069642002270 TPP binding site [chemical binding]; other site 1069642002271 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 1069642002272 S-adenosylmethionine binding site [chemical binding]; other site 1069642002273 Methyltransferase domain; Region: Methyltransf_18; pfam12847 1069642002274 Prokaryotic phospholipase A2; Region: Phospholip_A2_3; pfam09056 1069642002275 Uncharacterized conserved protein (DUF2183); Region: DUF2183; pfam09949 1069642002276 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1069642002277 active site 1069642002278 CutA1 divalent ion tolerance protein; Region: CutA1; cl00584 1069642002279 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 1069642002280 Domain of unknown function DUF21; Region: DUF21; pfam01595 1069642002281 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 1069642002282 Dienelactone hydrolase and related enzymes [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG0412 1069642002283 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 1069642002284 Bacterial protein of unknown function (DUF883); Region: DUF883; cl01888 1069642002285 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 1069642002286 elongation factor G; Reviewed; Region: PRK12740 1069642002287 G1 box; other site 1069642002288 putative GEF interaction site [polypeptide binding]; other site 1069642002289 GTP/Mg2+ binding site [chemical binding]; other site 1069642002290 Switch I region; other site 1069642002291 G2 box; other site 1069642002292 G3 box; other site 1069642002293 Switch II region; other site 1069642002294 G4 box; other site 1069642002295 G5 box; other site 1069642002296 mtEFG1_C: C-terminus of mitochondrial Elongation factor G1 (mtEFG1)-like proteins found in eukaryotes. Eukaryotic cells harbor 2 protein synthesis systems: one localized in the cytoplasm, the other in the mitochondria. Most factors regulating...; Region: mtEFG1_II_like; cd04091 1069642002297 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 1069642002298 mtEFG1_C: C-terminus of mitochondrial Elongation factor G1 (mtEFG1)-like proteins found in eukaryotes. Eukaryotic cells harbor 2 protein synthesis systems: one localized in the cytoplasm, the other in the mitochondria. Most factors regulating...; Region: mtEFG1_C; cd04097 1069642002299 Superfamily II DNA helicase [DNA replication, recombination, and repair]; Region: RecQ; COG0514 1069642002300 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 1069642002301 ATP binding site [chemical binding]; other site 1069642002302 putative Mg++ binding site [ion binding]; other site 1069642002303 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 1069642002304 nucleotide binding region [chemical binding]; other site 1069642002305 ATP-binding site [chemical binding]; other site 1069642002306 dehydrogenase, PQQ-dependent, s-GDH family; Region: non_repeat_PQQ; TIGR03606 1069642002307 Glucose / Sorbosone dehydrogenase; Region: GSDH; pfam07995 1069642002308 leucyl/phenylalanyl-tRNA--protein transferase; Reviewed; Region: aat; PRK00301 1069642002309 Cell Wall Hydrolase; Region: Hydrolase_2; pfam07486 1069642002310 Putative catalytic domain of uncharacterized bacterial hypothetical proteins similar to insect chitin deacetylase-like proteins; Region: CE4_CDA_like_3; cd10976 1069642002311 NodB motif; other site 1069642002312 putative active site [active] 1069642002313 putative catalytic site [active] 1069642002314 V8-like Glu-specific endopeptidase [Amino acid transport and metabolism]; Region: COG3591 1069642002315 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 1069642002316 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1069642002317 ABC transporter; Region: ABC_tran_2; pfam12848 1069642002318 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1069642002319 Uncharacterized conserved protein [Function unknown]; Region: COG5361 1069642002320 Protein of unknown function (DUF1254); Region: DUF1254; pfam06863 1069642002321 Protein of unknown function (DUF1214); Region: DUF1214; cl08447 1069642002322 Outer membrane efflux protein; Region: OEP; pfam02321 1069642002323 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 1069642002324 redox-sensitive transcriptional activator SoxR; Region: SoxR; TIGR01950 1069642002325 Helix-Turn-Helix DNA binding domain of the SoxR transcription regulator; Region: HTH_SoxR; cd01110 1069642002326 DNA binding residues [nucleotide binding] 1069642002327 dimer interface [polypeptide binding]; other site 1069642002328 [2Fe-2S] cluster binding site [ion binding]; other site 1069642002329 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 1069642002330 Catalytic LigB subunit of aromatic ring-opening dioxygenase; Region: LigB; pfam02900 1069642002331 putative active site [active] 1069642002332 metal binding site [ion binding]; metal-binding site 1069642002333 Uncharacterized conserved protein [Function unknown]; Region: COG2353 1069642002334 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1069642002335 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1069642002336 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 1069642002337 putative effector binding pocket; other site 1069642002338 dimerization interface [polypeptide binding]; other site 1069642002339 PilZ domain; Region: PilZ; pfam07238 1069642002340 thiamine monophosphate kinase; Provisional; Region: PRK05731 1069642002341 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 1069642002342 dimerization interface [polypeptide binding]; other site 1069642002343 ATP binding site [chemical binding]; other site 1069642002344 polyphosphate kinase; Provisional; Region: PRK05443 1069642002345 Polyphosphate kinase N-terminal domain; Region: PP_kinase_N; pfam13089 1069642002346 Polyphosphate kinase middle domain; Region: PP_kinase; pfam02503 1069642002347 Catalytic C-terminal domain, first repeat, of Pseudomonas aeruginosa polyphosphate kinase 1 and similar proteins; Region: PLDc_PaPPK1_C1_like; cd09165 1069642002348 putative domain interface [polypeptide binding]; other site 1069642002349 putative active site [active] 1069642002350 catalytic site [active] 1069642002351 Catalytic C-terminal domain, second repeat, of Pseudomonas aeruginosa polyphosphate kinase 1 and similar proteins; Region: PLDc_PaPPK1_C2_like; cd09168 1069642002352 putative domain interface [polypeptide binding]; other site 1069642002353 putative active site [active] 1069642002354 catalytic site [active] 1069642002355 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 1069642002356 catalytic core [active] 1069642002357 Type I phosphodiesterase / nucleotide pyrophosphatase; Region: Phosphodiest; pfam01663 1069642002358 Protein of unknown function (DUF3047); Region: DUF3047; pfam11249 1069642002359 Transposase IS200 like; Region: Y1_Tnp; cl00848 1069642002360 exopolyphosphatase; Region: exo_poly_only; TIGR03706 1069642002361 Ppx/GppA phosphatase family; Region: Ppx-GppA; pfam02541 1069642002362 phosphate transport system regulatory protein PhoU; Region: phoU_full; TIGR02135 1069642002363 PhoU domain; Region: PhoU; pfam01895 1069642002364 PhoU domain; Region: PhoU; pfam01895 1069642002365 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1069642002366 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 1069642002367 active site 1069642002368 phosphorylation site [posttranslational modification] 1069642002369 intermolecular recognition site; other site 1069642002370 dimerization interface [polypeptide binding]; other site 1069642002371 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 1069642002372 DNA binding site [nucleotide binding] 1069642002373 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 1069642002374 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 1069642002375 dimer interface [polypeptide binding]; other site 1069642002376 phosphorylation site [posttranslational modification] 1069642002377 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 1069642002378 ATP binding site [chemical binding]; other site 1069642002379 Mg2+ binding site [ion binding]; other site 1069642002380 G-X-G motif; other site 1069642002381 tRNA and rRNA cytosine-C5-methylases [Translation, ribosomal structure and biogenesis]; Region: Sun; COG0144 1069642002382 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 1069642002383 S-adenosylmethionine binding site [chemical binding]; other site 1069642002384 Domain of unknown function (DUF814); Region: DUF814; pfam05670 1069642002385 gliding motility-associated ABC transporter ATP-binding subunit GldA; Region: GldA_ABC_ATP; TIGR03522 1069642002386 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 1069642002387 Walker A/P-loop; other site 1069642002388 ATP binding site [chemical binding]; other site 1069642002389 Q-loop/lid; other site 1069642002390 ABC transporter signature motif; other site 1069642002391 Walker B; other site 1069642002392 D-loop; other site 1069642002393 H-loop/switch region; other site 1069642002394 gliding motility-associated ABC transporter permease protein GldF; Region: ABC_perm_GldF; TIGR03518 1069642002395 ABC-type uncharacterized transport system; Region: ABC_transp_aux; pfam09822 1069642002396 Domain of unknown function (DUF4340); Region: DUF4340; pfam14238 1069642002397 Predicted kinase related to galactokinase and mevalonate kinase [General function prediction only]; Region: COG2605 1069642002398 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 1069642002399 Protein of unknown function (DUF429); Region: DUF429; cl12046 1069642002400 hypothetical protein; Provisional; Region: PRK08317 1069642002401 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 1069642002402 S-adenosylmethionine binding site [chemical binding]; other site 1069642002403 CorA-like Mg2+ transporter protein; Region: CorA; pfam01544 1069642002404 Uncharacterized subfamily of the Thermotoga maritima CorA-like family; Region: TmCorA-like_u3; cd12832 1069642002405 oligomer interface [polypeptide binding]; other site 1069642002406 metal binding site [ion binding]; metal-binding site 1069642002407 putative Cl binding site [ion binding]; other site 1069642002408 basic sphincter; other site 1069642002409 hydrophobic gate; other site 1069642002410 periplasmic entrance; other site 1069642002411 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 1069642002412 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 1069642002413 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 1069642002414 Penicillin-insensitive murein endopeptidase; Region: Peptidase_M74; cl01538 1069642002415 Gram-negative bacterial tonB protein; Region: TonB; cl10048 1069642002416 thymidylate kinase; Validated; Region: tmk; PRK00698 1069642002417 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 1069642002418 TMP-binding site; other site 1069642002419 ATP-binding site [chemical binding]; other site 1069642002420 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 1069642002421 DNA polymerase III, delta' subunit; Region: holB; TIGR00678 1069642002422 Walker A motif; other site 1069642002423 ATP binding site [chemical binding]; other site 1069642002424 Walker B motif; other site 1069642002425 ATPase involved in DNA replication [DNA replication, recombination, and repair]; Region: HolB; COG0470 1069642002426 arginine finger; other site 1069642002427 DNA polymerase III, delta subunit, C terminal; Region: DNApol3-delta_C; pfam09115 1069642002428 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 1069642002429 active site 1069642002430 Trypsin-like serine protease; Many of these are synthesized as inactive precursor zymogens that are cleaved during limited proteolysis to generate their active forms. Alignment contains also inactive enzymes that have substitutions of the catalytic triad...; Region: Tryp_SPc; cl00149 1069642002431 active site 1069642002432 substrate binding sites [chemical binding]; other site 1069642002433 T-complex protein 10 C-terminus; Region: Tcp10_C; pfam07202 1069642002434 Surface antigen [Cell envelope biogenesis, outer membrane]; Region: LipA; COG4520 1069642002435 Glyceraldehyde-3-phosphate dehydrogenase/erythrose-4-phosphate dehydrogenase [Carbohydrate transport and metabolism]; Region: GapA; COG0057 1069642002436 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; pfam00044 1069642002437 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 1069642002438 phosphoglycerate kinase; Provisional; Region: pgk; PRK00073 1069642002439 Phosphoglycerate kinase; Region: PGK; pfam00162 1069642002440 substrate binding site [chemical binding]; other site 1069642002441 hinge regions; other site 1069642002442 ADP binding site [chemical binding]; other site 1069642002443 catalytic site [active] 1069642002444 triosephosphate isomerase; Provisional; Region: PRK14565 1069642002445 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 1069642002446 substrate binding site [chemical binding]; other site 1069642002447 dimer interface [polypeptide binding]; other site 1069642002448 catalytic triad [active] 1069642002449 asparaginyl-tRNA synthetase; Validated; Region: asnC; PRK03932 1069642002450 EcAsnRS_like_N: N-terminal, anticodon recognition domain of the type found in Escherichia coli asparaginyl-tRNA synthetase (AsnRS) and, in Arabidopsis thaliana and Saccharomyces cerevisiae mitochondrial (mt) AsnRS. This domain is a beta-barrel domain (OB...; Region: EcAsnRS_like_N; cd04318 1069642002451 putative dimer interface [polypeptide binding]; other site 1069642002452 putative anticodon binding site; other site 1069642002453 Asx tRNA synthetase (AspRS/AsnRS) class II core domain. Assignment to class II aminoacyl-tRNA synthetases (aaRS) based upon its structure and the presence of three characteristic sequence motifs in the core domain. This family includes AsnRS as well as...; Region: AsxRS_core; cd00776 1069642002454 homodimer interface [polypeptide binding]; other site 1069642002455 motif 1; other site 1069642002456 motif 2; other site 1069642002457 active site 1069642002458 motif 3; other site 1069642002459 threonine dehydratase; Provisional; Region: PRK08198 1069642002460 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 1069642002461 tetramer interface [polypeptide binding]; other site 1069642002462 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1069642002463 catalytic residue [active] 1069642002464 C-terminal ACT domain of biodegradative (catabolic) threonine dehydratase II (ThrD-II) and other related ACT domains; Region: ACT_ThrD-II-like; cd04886 1069642002465 methionine sulfoxide reductase A; Provisional; Region: PRK14054 1069642002466 N-methylhydantoinase B/acetone carboxylase, alpha subunit [Amino acid transport and metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: HyuB; COG0146 1069642002467 histidinol-phosphate aminotransferase; Region: hisC; TIGR01141 1069642002468 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 1069642002469 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1069642002470 homodimer interface [polypeptide binding]; other site 1069642002471 catalytic residue [active] 1069642002472 cytidylate kinase; Provisional; Region: cmk; PRK00023 1069642002473 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 1069642002474 CMP-binding site; other site 1069642002475 The sites determining sugar specificity; other site 1069642002476 conserved hypothetical protein; Region: TIGR02285 1069642002477 Prenyltransferase-like; Region: Prenyltrans_2; pfam13249 1069642002478 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 1069642002479 30S ribosomal protein S1; Reviewed; Region: rpsA; PRK06299 1069642002480 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 1069642002481 RNA binding site [nucleotide binding]; other site 1069642002482 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 1069642002483 RNA binding site [nucleotide binding]; other site 1069642002484 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 1069642002485 RNA binding site [nucleotide binding]; other site 1069642002486 S1_like: Ribosomal protein S1-like RNA-binding domain. Found in a wide variety of RNA-associated proteins. Originally identified in S1 ribosomal protein. This superfamily also contains the Cold Shock Domain (CSD), which is a homolog of the S1 domain; Region: S1_like; cl09927 1069642002487 RNA binding site [nucleotide binding]; other site 1069642002488 S1_like: Ribosomal protein S1-like RNA-binding domain. Found in a wide variety of RNA-associated proteins. Originally identified in S1 ribosomal protein. This superfamily also contains the Cold Shock Domain (CSD), which is a homolog of the S1 domain; Region: S1_like; cl09927 1069642002489 RNA binding site [nucleotide binding]; other site 1069642002490 Ribosomal protein S1-like RNA-binding domain; Region: S1; smart00316 1069642002491 RNA binding site [nucleotide binding]; other site 1069642002492 signal peptide peptidase SppA, 36K type; Region: SppA_dom; TIGR00706 1069642002493 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 1069642002494 tandem repeat interface [polypeptide binding]; other site 1069642002495 oligomer interface [polypeptide binding]; other site 1069642002496 active site residues [active] 1069642002497 FHIT (fragile histidine family): FHIT proteins, related to the HIT family carry a motif HxHxH/Qxx (x, is a hydrophobic amino acid), On the basis of sequence, substrate specificity, structure, evolution and mechanism, HIT proteins are classified into...; Region: FHIT; cd01275 1069642002498 nucleotide binding site/active site [active] 1069642002499 HIT family signature motif; other site 1069642002500 catalytic residue [active] 1069642002501 Membrane associated serine protease [Amino acid transport and metabolism]; Region: COG0705 1069642002502 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 1069642002503 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 1069642002504 Short chain fatty acids transporter [Lipid metabolism]; Region: AtoE; COG2031 1069642002505 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 1069642002506 Flagellar basal body-associated protein FliL; Region: FliL; pfam03748 1069642002507 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 1069642002508 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 1069642002509 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 1069642002510 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 1069642002511 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 1069642002512 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 1069642002513 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1069642002514 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1069642002515 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 1069642002516 dimerization interface [polypeptide binding]; other site 1069642002517 Cache domain; Region: Cache_1; pfam02743 1069642002518 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 1069642002519 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1069642002520 dimer interface [polypeptide binding]; other site 1069642002521 putative CheW interface [polypeptide binding]; other site 1069642002522 Isopropylmalate/homocitrate/citramalate synthases [Amino acid transport and metabolism]; Region: LeuA; COG0119 1069642002523 Kinase/pyrophosphorylase; Region: Kinase-PPPase; pfam03618 1069642002524 transcription antitermination factor NusB; Region: nusB; TIGR01951 1069642002525 transcriptional regulator NrdR; Validated; Region: nrdR; PRK00464 1069642002526 ATP cone domain; Region: ATP-cone; pfam03477 1069642002527 16S rRNA methyltransferase B; Provisional; Region: PRK14902 1069642002528 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 1069642002529 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 1069642002530 S-adenosylmethionine binding site [chemical binding]; other site 1069642002531 prolipoprotein diacylglyceryl transferase; Reviewed; Region: PRK00052 1069642002532 prolipoprotein diacylglyceryl transferase; Reviewed; Region: PRK00052 1069642002533 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1069642002534 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1069642002535 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 1069642002536 dimerization interface [polypeptide binding]; other site 1069642002537 histidyl-tRNA synthetase; Region: hisS; TIGR00442 1069642002538 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 1069642002539 dimer interface [polypeptide binding]; other site 1069642002540 motif 1; other site 1069642002541 active site 1069642002542 motif 2; other site 1069642002543 motif 3; other site 1069642002544 HGTP anticodon binding domain, as found at the C-terminus of histidyl, glycyl, threonyl and prolyl tRNA synthetases, which are classified as a group of class II aminoacyl-tRNA synthetases (aaRS). In aaRSs, the anticodon binding domain is responsible for...; Region: HGTP_anticodon; cl00266 1069642002545 anticodon binding site; other site 1069642002546 Protein of unknown function (DUF3299); Region: DUF3299; pfam11736 1069642002547 Protein of unknown function (DUF2796); Region: DUF2796; pfam10986 1069642002548 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 1069642002549 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 1069642002550 Walker A/P-loop; other site 1069642002551 ATP binding site [chemical binding]; other site 1069642002552 Q-loop/lid; other site 1069642002553 ABC transporter signature motif; other site 1069642002554 Walker B; other site 1069642002555 D-loop; other site 1069642002556 H-loop/switch region; other site 1069642002557 ABC-type transport system, involved in lipoprotein release, permease component [Cell envelope biogenesis, outer membrane]; Region: LolE; COG4591 1069642002558 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 1069642002559 FtsX-like permease family; Region: FtsX; pfam02687 1069642002560 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 1069642002561 dimerization interface [polypeptide binding]; other site 1069642002562 Adenylate cyclase, family 3 (some proteins contain HAMP domain) [Signal transduction mechanisms]; Region: CyaA; COG2114 1069642002563 cyclase homology domain; Region: CHD; cd07302 1069642002564 nucleotidyl binding site; other site 1069642002565 metal binding site [ion binding]; metal-binding site 1069642002566 dimer interface [polypeptide binding]; other site 1069642002567 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 1069642002568 Interdomain contacts; other site 1069642002569 Cytokine receptor motif; other site 1069642002570 transcription elongation factor GreB; Reviewed; Region: greB; PRK01885 1069642002571 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 1069642002572 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 1069642002573 Protein of unknown function (DUF3465); Region: DUF3465; pfam11948 1069642002574 Predicted hydrolase of the alpha/beta-hydrolase fold [General function prediction only]; Region: COG0429 1069642002575 TIGR03663 family protein; Region: TIGR03663 1069642002576 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; cl17364 1069642002577 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 1069642002578 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 1069642002579 N-acetyl-D-glucosamine binding site [chemical binding]; other site 1069642002580 catalytic residue [active] 1069642002581 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 1069642002582 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 1069642002583 N-acetyl-D-glucosamine binding site [chemical binding]; other site 1069642002584 catalytic residue [active] 1069642002585 FOG: LysM repeat [Cell envelope biogenesis, outer membrane]; Region: LytE; COG1388 1069642002586 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 1069642002587 FOG: LysM repeat [Cell envelope biogenesis, outer membrane]; Region: LytE; COG1388 1069642002588 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 1069642002589 FOG: LysM repeat [Cell envelope biogenesis, outer membrane]; Region: LytE; COG1388 1069642002590 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 1069642002591 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 1069642002592 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1069642002593 dimer interface [polypeptide binding]; other site 1069642002594 putative CheW interface [polypeptide binding]; other site 1069642002595 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1069642002596 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1069642002597 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 1069642002598 dimerization interface [polypeptide binding]; other site 1069642002599 Chaperone of endosialidase; Region: Peptidase_S74; pfam13884 1069642002600 branched-chain amino acid aminotransferase; Provisional; Region: PRK13357 1069642002601 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 1069642002602 homodimer interface [polypeptide binding]; other site 1069642002603 substrate-cofactor binding pocket; other site 1069642002604 catalytic residue [active] 1069642002605 Transglutaminase-like superfamily; Region: Transglut_core; pfam01841 1069642002606 Domain of unknown function (DUF3943); Region: DUF3943; pfam13084 1069642002607 Chaperone of endosialidase; Region: Peptidase_S74; pfam13884 1069642002608 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 1069642002609 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1069642002610 dimer interface [polypeptide binding]; other site 1069642002611 putative CheW interface [polypeptide binding]; other site 1069642002612 Domain of unknown function (DUF4344); Region: DUF4344; pfam14247 1069642002613 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 1069642002614 short chain dehydrogenase; Provisional; Region: PRK06172 1069642002615 classical (c) SDRs; Region: SDR_c; cd05233 1069642002616 NAD(P) binding site [chemical binding]; other site 1069642002617 active site 1069642002618 Uncharacterized conserved protein [Function unknown]; Region: COG1262 1069642002619 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; pfam03781 1069642002620 3-oxoacyl-(acyl-carrier-protein) reductase; Region: 3oxo_ACP_reduc; TIGR01830 1069642002621 classical (c) SDRs; Region: SDR_c; cd05233 1069642002622 NAD(P) binding site [chemical binding]; other site 1069642002623 active site 1069642002624 C1 Peptidase family (MEROPS database nomenclature), also referred to as the papain family; composed of two subfamilies of cysteine peptidases (CPs), C1A (papain) and C1B (bleomycin hydrolase). Papain-like enzymes are mostly endopeptidases with some...; Region: Peptidase_C1; cd02619 1069642002625 active site 1069642002626 Cache is an extracellular domain that is predicted to have a role in small-molecule recognition in a wide range of proteins; Region: Cache_2; smart01049 1069642002627 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 1069642002628 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1069642002629 dimer interface [polypeptide binding]; other site 1069642002630 putative CheW interface [polypeptide binding]; other site 1069642002631 NHL repeat; Region: NHL; pfam01436 1069642002632 NHL repeat; Region: NHL; pfam01436 1069642002633 Catalase-like heme-binding proteins and protein domains; Region: catalase_like; cl09506 1069642002634 heme binding pocket [chemical binding]; other site 1069642002635 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 1069642002636 Bacterial virulence protein (VirJ); Region: VirJ; pfam06057 1069642002637 SGNH_hydrolase, or GDSL_hydrolase, is a diverse family of lipases and esterases. The tertiary fold of the enzyme is substantially different from that of the alpha/beta hydrolase family and unique among all known hydrolases; its active site closely...; Region: SGNH_hydrolase; cl01053 1069642002638 active site 1069642002639 oxyanion hole [active] 1069642002640 catalytic triad [active] 1069642002641 Cro/C1-type HTH DNA-binding domain; Region: HTH_26; pfam13443 1069642002642 Tetratricopeptide repeat; Region: TPR_12; pfam13424 1069642002643 Tetratricopeptide repeat; Region: TPR_12; pfam13424 1069642002644 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 1069642002645 binding surface 1069642002646 TPR motif; other site 1069642002647 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl17200 1069642002648 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1069642002649 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 1069642002650 dimer interface [polypeptide binding]; other site 1069642002651 phosphorylation site [posttranslational modification] 1069642002652 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 1069642002653 ATP binding site [chemical binding]; other site 1069642002654 Mg2+ binding site [ion binding]; other site 1069642002655 G-X-G motif; other site 1069642002656 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 1069642002657 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 1069642002658 substrate binding pocket [chemical binding]; other site 1069642002659 membrane-bound complex binding site; other site 1069642002660 hinge residues; other site 1069642002661 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cl15239 1069642002662 putative active site [active] 1069642002663 catalytic site [active] 1069642002664 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cl15239 1069642002665 PLD-like domain; Region: PLDc_2; pfam13091 1069642002666 putative active site [active] 1069642002667 catalytic site [active] 1069642002668 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 1069642002669 Nuclear transport factor 2 (NTF2-like) superfamily. This family includes members of the NTF2 family, Delta-5-3-ketosteroid isomerases, Scytalone Dehydratases, and the beta subunit of Ring hydroxylating dioxygenases. This family is a classic example of...; Region: NTF2_like; cl09109 1069642002670 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 1069642002671 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 1069642002672 CUB domain; extracellular domain; present in proteins mostly known to be involved in development; not found in prokaryotes, plants and yeast; Region: CUB; cl00049 1069642002673 heterodimerization interface [polypeptide binding]; other site 1069642002674 Regulator of chromosome condensation (RCC1) repeat; Region: RCC1; pfam00415 1069642002675 Regulator of chromosome condensation (RCC1) repeat; Region: RCC1; pfam00415 1069642002676 OsmC-like protein; Region: OsmC; pfam02566 1069642002677 Protein of unknown function (DUF454); Region: DUF454; pfam04304 1069642002678 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 1069642002679 Protein export membrane protein; Region: SecD_SecF; cl14618 1069642002680 Cytochrome C subunit of the bacterial photosynthetic reaction center; Region: CytoC_RC; cl12263 1069642002681 glycyl-tRNA synthetase; Provisional; Region: PRK04173 1069642002682 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 1069642002683 motif 1; other site 1069642002684 Glycyl-tRNA synthetase (GlyRS)-like class II core catalytic domain. GlyRS functions as a homodimer in eukaryotes, archaea and some bacteria and as a heterotetramer in the remainder of prokaryotes. It is responsible for the attachment of glycine to the 3...; Region: GlyRS-like_core; cd00774 1069642002685 active site 1069642002686 motif 2; other site 1069642002687 motif 3; other site 1069642002688 GlyRS Glycyl-anticodon binding domain. GlyRS belongs to class II aminoacyl-tRNA synthetases (aaRS). This alignment contains the anticodon binding domain, which is responsible for specificity in tRNA-binding, so that the activated amino acid is...; Region: GlyRS_anticodon; cd00858 1069642002689 anticodon binding site; other site 1069642002690 pyruvate phosphate dikinase; Provisional; Region: PRK09279 1069642002691 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 1069642002692 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 1069642002693 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 1069642002694 mce related protein; Region: MCE; pfam02470 1069642002695 mce related protein; Region: MCE; pfam02470 1069642002696 Paraquat-inducible protein A; Region: PqiA; pfam04403 1069642002697 Catalase [Inorganic ion transport and metabolism]; Region: KatE; COG0753 1069642002698 Clade 3 of the heme-binding enzyme catalase; Region: catalase_clade_3; cd08156 1069642002699 tetramer interface [polypeptide binding]; other site 1069642002700 heme binding pocket [chemical binding]; other site 1069642002701 NADPH binding site [chemical binding]; other site 1069642002702 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 1069642002703 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 1069642002704 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 1069642002705 ATP-binding cassette domain of barmotin, a member of the SMC protein family; Region: ABC_SMC_barmotin; cd03278 1069642002706 Walker A/P-loop; other site 1069642002707 ATP binding site [chemical binding]; other site 1069642002708 Q-loop/lid; other site 1069642002709 SMC proteins Flexible Hinge Domain; Region: SMC_hinge; smart00968 1069642002710 ATP-binding cassette domain of barmotin, a member of the SMC protein family; Region: ABC_SMC_barmotin; cd03278 1069642002711 ABC transporter signature motif; other site 1069642002712 Walker B; other site 1069642002713 D-loop; other site 1069642002714 H-loop/switch region; other site 1069642002715 Protein of unknown function (DUF1501); Region: DUF1501; pfam07394 1069642002716 NAD(P)H:FMN oxidoreductase family. This domain catalyzes the reduction of flavin, nitrocompound, quinones and azo compounds using NADH or NADPH as an electron donor. The enzyme is a homodimer, and each monomer binds a FMN as co-factor. This family...; Region: NfsB_like_nitroreductase; cd02149 1069642002717 dimer interface [polypeptide binding]; other site 1069642002718 FMN binding site [chemical binding]; other site 1069642002719 Predicted transcriptional regulator [Transcription]; Region: COG1959 1069642002720 Transcriptional regulator; Region: Rrf2; pfam02082 1069642002721 Transcriptional regulator; Region: Rrf2; cl17282 1069642002722 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 1069642002723 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 1069642002724 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cl02931 1069642002725 ligand binding site [chemical binding]; other site 1069642002726 FOG: FHA domain [Signal transduction mechanisms]; Region: COG1716 1069642002727 Forkhead associated domain (FHA); found in eukaryotic and prokaryotic proteins. Putative nuclear signalling domain. FHA domains may bind phosphothreonine, phosphoserine and sometimes phosphotyrosine. In eukaryotes, many FHA domain-containing proteins...; Region: FHA; cd00060 1069642002728 phosphopeptide binding site; other site 1069642002729 signal recognition particle-docking protein FtsY; Provisional; Region: PRK10416 1069642002730 SRP54-type protein, helical bundle domain; Region: SRP54_N; pfam02881 1069642002731 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 1069642002732 P loop; other site 1069642002733 GTP binding site [chemical binding]; other site 1069642002734 CC3(TIP30)-like, atypical (a) SDRs; Region: CC3_like_SDR_a; cd05250 1069642002735 Predicted nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG0702 1069642002736 NAD binding site [chemical binding]; other site 1069642002737 active site 1069642002738 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2989 1069642002739 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 1069642002740 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 1069642002741 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 1069642002742 Cell division protein ZapA; Region: ZapA; pfam05164 1069642002743 5-formyltetrahydrofolate cyclo-ligase [Coenzyme metabolism]; Region: COG0212; cl00360 1069642002744 phosphodiesterase; Provisional; Region: PRK12704 1069642002745 ATP synthase B/B' CF(0); Region: ATP-synt_B; cl17192 1069642002746 KH domain; Region: KH_1; pfam00013 1069642002747 uncharacterized domain HDIG; Region: HDIG; TIGR00277 1069642002748 tyrosyl-tRNA synthetase; Validated; Region: PRK05912 1069642002749 catalytic core domain of tyrosinyl-tRNA synthetase; Region: TyrRS_core; cd00805 1069642002750 active site 1069642002751 HIGH motif; other site 1069642002752 dimer interface [polypeptide binding]; other site 1069642002753 KMSKS motif; other site 1069642002754 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 1069642002755 RNA binding surface [nucleotide binding]; other site 1069642002756 Ferredoxin [Energy production and conversion]; Region: Fdx; COG0633 1069642002757 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 1069642002758 catalytic loop [active] 1069642002759 iron binding site [ion binding]; other site 1069642002760 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 1069642002761 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1069642002762 dimer interface [polypeptide binding]; other site 1069642002763 putative CheW interface [polypeptide binding]; other site 1069642002764 Fe-S cluster assembly scaffold protein [Posttranslational modification, protein turnover, chaperones]; Region: sufA; COG0316 1069642002765 cysteine desulfurase NifS; Region: FeS_nifS; TIGR03402 1069642002766 Cysteine sulfinate desulfinase/cysteine desulfurase and related enzymes [Amino acid transport and metabolism]; Region: NifS; COG1104 1069642002767 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1069642002768 catalytic residue [active] 1069642002769 Class II vitamin B12-dependent ribonucleotide reductase; Region: Ribonuc_red_2_N; pfam08471 1069642002770 ribonucleoside-diphosphate reductase, adenosylcobalamin-dependent; Region: NrdJ_Z; TIGR02504 1069642002771 Class II ribonucleotide reductase, dimeric form; Region: RNR_II_dimer; cd02888 1069642002772 active site 1069642002773 dimer interface [polypeptide binding]; other site 1069642002774 effector binding site; other site 1069642002775 Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL; cl09939 1069642002776 TFIIB zinc-binding; Region: TF_Zn_Ribbon; pfam08271 1069642002777 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 1069642002778 RNA binding site [nucleotide binding]; other site 1069642002779 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 1069642002780 RNA binding site [nucleotide binding]; other site 1069642002781 S1_like: Ribosomal protein S1-like RNA-binding domain. Found in a wide variety of RNA-associated proteins. Originally identified in S1 ribosomal protein. This superfamily also contains the Cold Shock Domain (CSD), which is a homolog of the S1 domain; Region: S1_like; cl09927 1069642002782 RNA binding site [nucleotide binding]; other site 1069642002783 S1_like: Ribosomal protein S1-like RNA-binding domain. Found in a wide variety of RNA-associated proteins. Originally identified in S1 ribosomal protein. This superfamily also contains the Cold Shock Domain (CSD), which is a homolog of the S1 domain; Region: S1_like; cd00164 1069642002784 RNA binding site [nucleotide binding]; other site 1069642002785 Predicted nucleotide-utilizing enzyme related to molybdopterin-biosynthesis enzyme MoeA [General function prediction only]; Region: CinA; COG1058 1069642002786 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 1069642002787 putative MPT binding site; other site 1069642002788 isovaleryl-CoA dehydrogenase; Provisional; Region: PTZ00461 1069642002789 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 1069642002790 active site 1069642002791 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 1069642002792 Protein tyrosine phosphatases (PTP) catalyze the dephosphorylation of phosphotyrosine peptides; they regulate phosphotyrosine levels in signal transduction pathways. The depth of the active site cleft renders the enzyme specific for phosphorylated Tyr; Region: PTPc; cl00053 1069642002793 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 1069642002794 active site 1069642002795 Predicted SAM-dependent methyltransferases [General function prediction only]; Region: COG1092 1069642002796 Methyltransferase domain; Region: Methyltransf_26; pfam13659 1069642002797 LemA family; Region: LemA; cl00742 1069642002798 Repair protein; Region: Repair_PSII; pfam04536 1069642002799 Repair protein; Region: Repair_PSII; cl01535 1069642002800 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 1069642002801 active site 1069642002802 Borrelia P83/100 protein; Region: Borrelia_P83; pfam05262 1069642002803 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 1069642002804 active site 1069642002805 catalytic residues [active] 1069642002806 DNA binding site [nucleotide binding] 1069642002807 Int/Topo IB signature motif; other site 1069642002808 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 1069642002809 active site 1069642002810 catalytic residues [active] 1069642002811 Int/Topo IB signature motif; other site 1069642002812 DNA binding site [nucleotide binding] 1069642002813 insertion element IS2 transposase InsD; Provisional; Region: PRK14702 1069642002814 HTH-like domain; Region: HTH_21; pfam13276 1069642002815 Integrase core domain; Region: rve; pfam00665 1069642002816 Integrase core domain; Region: rve_3; pfam13683 1069642002817 SH3 domain protein; Region: SH3_and_anchor; TIGR04211 1069642002818 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 1069642002819 Integrase [DNA replication, recombination, and repair]; Region: XerC; COG0582 1069642002820 active site 1069642002821 Int/Topo IB signature motif; other site 1069642002822 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1069642002823 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1069642002824 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 1069642002825 dimerization interface [polypeptide binding]; other site 1069642002826 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 1069642002827 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 1069642002828 putative substrate translocation pore; other site 1069642002829 delta-60 repeat domain; Region: delta_60_rpt; TIGR02608 1069642002830 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4430 1069642002831 Domain of unknown function (DU1801); Region: DUF1801; pfam08818 1069642002832 Bacteriocin-protection, YdeI or OmpD-Associated; Region: OmdA; pfam13376 1069642002833 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 1069642002834 salt bridge; other site 1069642002835 non-specific DNA binding site [nucleotide binding]; other site 1069642002836 sequence-specific DNA binding site [nucleotide binding]; other site 1069642002837 Domain of unknown function (DUF4423); Region: DUF4423; pfam14394 1069642002838 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 1069642002839 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1069642002840 Walker A/P-loop; other site 1069642002841 ATP binding site [chemical binding]; other site 1069642002842 Q-loop/lid; other site 1069642002843 ABC transporter signature motif; other site 1069642002844 Walker B; other site 1069642002845 D-loop; other site 1069642002846 H-loop/switch region; other site 1069642002847 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; pfam08352 1069642002848 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1069642002849 Walker A/P-loop; other site 1069642002850 ATP binding site [chemical binding]; other site 1069642002851 Q-loop/lid; other site 1069642002852 ABC transporter signature motif; other site 1069642002853 Walker B; other site 1069642002854 D-loop; other site 1069642002855 H-loop/switch region; other site 1069642002856 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 1069642002857 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 1069642002858 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 1069642002859 nucleotide binding site [chemical binding]; other site 1069642002860 Alpha amylase catalytic domain found in bacterial and eukaryotic Alpha amylases (also called 1,4-alpha-D-glucan-4-glucanohydrolase); Region: AmyAc_bac_euk_AmyA; cd11317 1069642002861 Glycosidases [Carbohydrate transport and metabolism]; Region: AmyA; COG0366 1069642002862 active site 1069642002863 Ca binding site [ion binding]; other site 1069642002864 catalytic site [active] 1069642002865 Aamy_C domain; Region: Aamy_C; smart00632 1069642002866 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 1069642002867 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 1069642002868 Walker A/P-loop; other site 1069642002869 ATP binding site [chemical binding]; other site 1069642002870 Q-loop/lid; other site 1069642002871 ABC transporter signature motif; other site 1069642002872 Walker B; other site 1069642002873 D-loop; other site 1069642002874 H-loop/switch region; other site 1069642002875 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 1069642002876 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 1069642002877 dimer interface [polypeptide binding]; other site 1069642002878 conserved gate region; other site 1069642002879 putative PBP binding loops; other site 1069642002880 ABC-ATPase subunit interface; other site 1069642002881 maltose ABC transporter periplasmic protein; Reviewed; Region: malE; PRK09474 1069642002882 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 1069642002883 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 1069642002884 dimer interface [polypeptide binding]; other site 1069642002885 conserved gate region; other site 1069642002886 putative PBP binding loops; other site 1069642002887 ABC-ATPase subunit interface; other site 1069642002888 alpha-1,6-glucosidases, pullulanase-type; Region: pullul_strch; TIGR02103 1069642002889 Early set domain associated with the catalytic domain of pullulanase (also called dextrinase and alpha-dextrin endo-1,6-alpha glucosidase); Region: E_set_Pullulanase; cd02860 1069642002890 Alpha amylase catalytic domain found in Pullulanase (also called dextrinase; alpha-dextrin endo-1,6-alpha glucosidase), limit dextrinase, and related proteins; Region: AmyAc_Pullulanase_LD-like; cd11341 1069642002891 Ca binding site [ion binding]; other site 1069642002892 active site 1069642002893 catalytic site [active] 1069642002894 Domain of unknown function (DUF3372); Region: DUF3372; pfam11852 1069642002895 The Maltoporin-like channels (LamB porin) form a trimeric structure which facilitate the diffusion of maltodextrins and other sugars across the outer membrane of Gram-negative bacteria. The membrane channel is formed by an 18-strand antiparallel...; Region: Maltoporin-like; cd01346 1069642002896 trimer interface; other site 1069642002897 sugar binding site [chemical binding]; other site 1069642002898 Pirin-related protein [General function prediction only]; Region: COG1741 1069642002899 Pirin; Region: Pirin; pfam02678 1069642002900 Pirin C-terminal cupin domain; Region: Pirin_C; pfam05726 1069642002901 AMP nucleosidase; Provisional; Region: PRK07115 1069642002902 DNA-binding ferritin-like protein (oxidative damage protectant) [Inorganic ion transport and metabolism]; Region: Dps; COG0783 1069642002903 DPS protein, ferritin-like diiron-binding domain; Region: DPS; cd01043 1069642002904 dimerization interface [polypeptide binding]; other site 1069642002905 DPS ferroxidase diiron center [ion binding]; other site 1069642002906 ion pore; other site 1069642002907 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 1069642002908 substrate binding pocket [chemical binding]; other site 1069642002909 membrane-bound complex binding site; other site 1069642002910 hinge residues; other site 1069642002911 Domain of unknown function (DUF2016); Region: DUF2016; pfam09436 1069642002912 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 1069642002913 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 1069642002914 C-terminal processing peptidase family S41; Region: Peptidase_S41; cd06567 1069642002915 Active site serine [active] 1069642002916 RDD family; Region: RDD; pfam06271 1069642002917 Membrane associated serine protease [Amino acid transport and metabolism]; Region: COG0705 1069642002918 Endonuclease I; Region: Endonuclease_1; pfam04231 1069642002919 CUB domain; extracellular domain; present in proteins mostly known to be involved in development; not found in prokaryotes, plants and yeast; Region: CUB; cl00049 1069642002920 heterodimerization interface [polypeptide binding]; other site 1069642002921 Regulator of chromosome condensation (RCC1) repeat; Region: RCC1; pfam00415 1069642002922 Proline dehydrogenase; Region: Pro_dh; cl03282 1069642002923 Delta(1)-pyrroline-5-carboxylate dehydrogenase, RocA; Region: ALDH_PutA-P5CDH-RocA; cd07124 1069642002924 1-pyrroline-5-carboxylate dehydrogenase; Provisional; Region: PRK03137 1069642002925 Glutamate binding site [chemical binding]; other site 1069642002926 homodimer interface [polypeptide binding]; other site 1069642002927 NAD binding site [chemical binding]; other site 1069642002928 catalytic residues [active] 1069642002929 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 1069642002930 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 1069642002931 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 1069642002932 catalytic core [active] 1069642002933 Hsp33-like chaperonin; Reviewed; Region: hslO; PRK00114 1069642002934 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 1069642002935 dimerization interface [polypeptide binding]; other site 1069642002936 domain crossover interface; other site 1069642002937 redox-dependent activation switch; other site 1069642002938 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cl15239 1069642002939 putative active site [active] 1069642002940 catalytic site [active] 1069642002941 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cl15239 1069642002942 PLD-like domain; Region: PLDc_2; pfam13091 1069642002943 putative active site [active] 1069642002944 catalytic site [active] 1069642002945 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1069642002946 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 1069642002947 ATP binding site [chemical binding]; other site 1069642002948 G-X-G motif; other site 1069642002949 F420-0:Gamma-glutamyl ligase; Region: F420_ligase; pfam01996 1069642002950 GTP and metal dependent enzyme involved F420 coenzyme biosynthesis (catalyzes addition of two l-glutamates to F420 precursor) [Coenzyme transport and metabolism]; Region: COG1478 1069642002951 Isocitrate/isopropylmalate dehydrogenase; Region: Iso_dh; cl00445 1069642002952 Zinc-dependent metalloprotease; MMP_like sub-family 1. A group of bacterial, archaeal, and fungal metalloproteinase domains similar to matrix metalloproteinases and astacin; Region: ZnMc_MMP_like_1; cd04279 1069642002953 active site 1069642002954 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 1069642002955 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 1069642002956 DNA binding residues [nucleotide binding] 1069642002957 dimerization interface [polypeptide binding]; other site 1069642002958 Alpha-crystallin domain (ACD) of alpha-crystallin-type small(s) heat shock proteins (Hsps). sHsps are small stress induced proteins with monomeric masses between 12 -43 kDa, whose common feature is the Alpha-crystallin domain (ACD). sHsps are generally...; Region: ACD_sHsps-like; cd06464 1069642002959 putative dimer interface [polypeptide binding]; other site 1069642002960 Lipase maturation factor; Region: LMF1; pfam06762 1069642002961 Predicted membrane protein [Function unknown]; Region: COG2261 1069642002962 recombination and DNA strand exchange inhibitor protein; Reviewed; Region: PRK00409 1069642002963 MutS domain III; Region: MutS_III; pfam05192 1069642002964 ATP-binding cassette domain of MutS2; Region: ABC_MutS2; cd03280 1069642002965 Walker A/P-loop; other site 1069642002966 ATP binding site [chemical binding]; other site 1069642002967 Q-loop/lid; other site 1069642002968 ABC transporter signature motif; other site 1069642002969 Walker B; other site 1069642002970 D-loop; other site 1069642002971 H-loop/switch region; other site 1069642002972 Smr domain; Region: Smr; pfam01713 1069642002973 apolipoprotein N-acyltransferase; Reviewed; Region: lnt; PRK00302 1069642002974 Apolipoprotein N-acyl transferase (class 9 nitrilases); Region: ALP_N-acyl_transferase; cd07571 1069642002975 putative active site [active] 1069642002976 catalytic triad [active] 1069642002977 putative dimer interface [polypeptide binding]; other site 1069642002978 Domain of unknown function (DUF1853); Region: DUF1853; cl01545 1069642002979 Peptidase S8 family domain in Subtilisin-like proteins; Region: Peptidases_S8_Subtilisin_like; cd07473 1069642002980 catalytic triad [active] 1069642002981 putative active site [active] 1069642002982 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 1069642002983 binding surface 1069642002984 TPR motif; other site 1069642002985 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 1069642002986 N-acetyl-D-glucosamine binding site [chemical binding]; other site 1069642002987 catalytic residue [active] 1069642002988 heat shock protein HtpX; Provisional; Region: PRK05457 1069642002989 ATP-dependent Clp protease ATP-binding subunit clpA; Region: ClpA; TIGR02639 1069642002990 Clp amino terminal domain; Region: Clp_N; pfam02861 1069642002991 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 1069642002992 Walker A motif; other site 1069642002993 ATP binding site [chemical binding]; other site 1069642002994 Walker B motif; other site 1069642002995 arginine finger; other site 1069642002996 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 1069642002997 Walker A motif; other site 1069642002998 ATP binding site [chemical binding]; other site 1069642002999 Walker B motif; other site 1069642003000 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 1069642003001 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; pfam13544 1069642003002 Type IV pilin PilA; Region: Pilin_PilA; pfam14245 1069642003003 RHS Repeat; Region: RHS_repeat; cl11982 1069642003004 SH3 domain protein; Region: SH3_and_anchor; TIGR04211 1069642003005 insertion element IS2 transposase InsD; Provisional; Region: PRK14702 1069642003006 HTH-like domain; Region: HTH_21; pfam13276 1069642003007 Integrase core domain; Region: rve; pfam00665 1069642003008 Integrase core domain; Region: rve_3; pfam13683 1069642003009 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 1069642003010 RHS Repeat; Region: RHS_repeat; pfam05593 1069642003011 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 1069642003012 Domain of unknown function (DUF4415); Region: DUF4415; pfam14384 1069642003013 chaperone protein DnaJ; Region: DnaJ_bact; TIGR02349 1069642003014 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 1069642003015 HSP70 interaction site [polypeptide binding]; other site 1069642003016 Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cd10719 1069642003017 Zn binding sites [ion binding]; other site 1069642003018 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 1069642003019 dimer interface [polypeptide binding]; other site 1069642003020 molecular chaperone DnaK; Provisional; Region: dnaK; PRK00290 1069642003021 Nucleotide-binding domain of human HSPA9 and similar proteins; Region: HSPA9-Ssq1-like_NBD; cd10234 1069642003022 NEF interaction site [polypeptide binding]; other site 1069642003023 nucleotide binding site [chemical binding]; other site 1069642003024 SBD interface [polypeptide binding]; other site 1069642003025 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 1069642003026 Predicted transporter component [General function prediction only]; Region: COG2391 1069642003027 acetyl-CoA synthetase; Provisional; Region: PRK00174 1069642003028 Acetyl-CoA synthetase (also known as acetate-CoA ligase and acetyl-activating enzyme); Region: ACS; cd05966 1069642003029 active site 1069642003030 CoA binding site [chemical binding]; other site 1069642003031 acyl-activating enzyme (AAE) consensus motif; other site 1069642003032 AMP binding site [chemical binding]; other site 1069642003033 acetate binding site [chemical binding]; other site 1069642003034 putative TIM-barrel protein, nifR3 family; Region: nifR3_yhdG; TIGR00737 1069642003035 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 1069642003036 FMN binding site [chemical binding]; other site 1069642003037 active site 1069642003038 catalytic residues [active] 1069642003039 substrate binding site [chemical binding]; other site 1069642003040 Glutaredoxin (GRX) family; composed of GRX, approximately 10 kDa in size, and proteins containing a GRX or GRX-like domain. GRX is a glutathione (GSH) dependent reductase, catalyzing the disulfide reduction of target proteins such as ribonucleotide...; Region: GRX_family; cd02066 1069642003041 GSH binding site [chemical binding]; other site 1069642003042 catalytic residues [active] 1069642003043 Methyltransferase domain; Region: Methyltransf_23; pfam13489 1069642003044 Methyltransferase domain; Region: Methyltransf_11; pfam08241 1069642003045 conserved hypothetical protein; Region: TIGR02285 1069642003046 tRNA-dihydrouridine synthase C; Provisional; Region: PRK10550 1069642003047 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 1069642003048 FMN binding site [chemical binding]; other site 1069642003049 active site 1069642003050 catalytic residues [active] 1069642003051 substrate binding site [chemical binding]; other site 1069642003052 EVE domain; Region: EVE; cl00728 1069642003053 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3012 1069642003054 SEC-C motif; Region: SEC-C; pfam02810 1069642003055 classical (c) SDR, subgroup 5; Region: SDR_c5; cd05346 1069642003056 Short-chain alcohol dehydrogenase of unknown specificity [General function prediction only]; Region: COG4221 1069642003057 putative NAD(P) binding site [chemical binding]; other site 1069642003058 homodimer interface [polypeptide binding]; other site 1069642003059 homotetramer interface [polypeptide binding]; other site 1069642003060 active site 1069642003061 fumarate hydratase; Reviewed; Region: fumC; PRK00485 1069642003062 Class II fumarases; Region: Fumarase_classII; cd01362 1069642003063 active site 1069642003064 tetramer interface [polypeptide binding]; other site 1069642003065 Superfamily I DNA and RNA helicases [DNA replication, recombination, and repair]; Region: UvrD; COG0210 1069642003066 Part of AAA domain; Region: AAA_19; pfam13245 1069642003067 Family description; Region: UvrD_C_2; pfam13538 1069642003068 PAS domain; Region: PAS_9; pfam13426 1069642003069 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 1069642003070 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 1069642003071 active site 1069642003072 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 1069642003073 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 1069642003074 P-loop; other site 1069642003075 Magnesium ion binding site [ion binding]; other site 1069642003076 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 1069642003077 Magnesium ion binding site [ion binding]; other site 1069642003078 BolA-like protein; Region: BolA; pfam01722 1069642003079 putative ABC transporter ATP-binding protein; Reviewed; Region: PRK11819 1069642003080 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1069642003081 Walker A/P-loop; other site 1069642003082 ATP binding site [chemical binding]; other site 1069642003083 Q-loop/lid; other site 1069642003084 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1069642003085 ABC transporter signature motif; other site 1069642003086 Walker B; other site 1069642003087 D-loop; other site 1069642003088 ABC transporter; Region: ABC_tran_2; pfam12848 1069642003089 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1069642003090 Domain of unknown function (DUF4010); Region: DUF4010; pfam13194 1069642003091 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 1069642003092 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 1069642003093 ATP binding site [chemical binding]; other site 1069642003094 Mg2+ binding site [ion binding]; other site 1069642003095 G-X-G motif; other site 1069642003096 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 1069642003097 HSP70 interaction site [polypeptide binding]; other site 1069642003098 SWIB/MDM2 domain; Region: SWIB; pfam02201 1069642003099 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 1069642003100 active site 1069642003101 S-adenosyl-L-homocysteine hydrolase; Provisional; Region: PRK05476 1069642003102 S-Adenosylhomocysteine Hydrolase, NAD-binding and catalytic domains; Region: SAHH; cd00401 1069642003103 homotetramer interface [polypeptide binding]; other site 1069642003104 ligand binding site [chemical binding]; other site 1069642003105 catalytic site [active] 1069642003106 NAD binding site [chemical binding]; other site 1069642003107 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1069642003108 dimer interface [polypeptide binding]; other site 1069642003109 putative CheW interface [polypeptide binding]; other site 1069642003110 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 1069642003111 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 1069642003112 catalytic residues [active] 1069642003113 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 1069642003114 TPR motif; other site 1069642003115 binding surface 1069642003116 DNA alkylation repair enzyme [DNA replication, recombination, and repair]; Region: COG4335 1069642003117 DEDDh 3'-5' exonuclease domain of oligoribonuclease and similar proteins; Region: Orn; cd06135 1069642003118 catalytic site [active] 1069642003119 putative active site [active] 1069642003120 putative substrate binding site [chemical binding]; other site 1069642003121 dimer interface [polypeptide binding]; other site 1069642003122 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 1069642003123 active site 1069642003124 phosphorylation site [posttranslational modification] 1069642003125 intermolecular recognition site; other site 1069642003126 dimerization interface [polypeptide binding]; other site 1069642003127 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 1069642003128 metal-binding site [ion binding] 1069642003129 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 1069642003130 substrate binding pocket [chemical binding]; other site 1069642003131 Bacterial periplasmic substrate-binding proteins; Region: PBPb; smart00062 1069642003132 membrane-bound complex binding site; other site 1069642003133 hinge residues; other site 1069642003134 Acetyl-CoA hydrolase/transferase N-terminal domain; Region: AcetylCoA_hydro; pfam02550 1069642003135 succinate CoA transferase; Region: YgfH_subfam; TIGR03458 1069642003136 Acetyl-CoA hydrolase/transferase C-terminal domain; Region: AcetylCoA_hyd_C; pfam13336 1069642003137 Dihydrofolate reductase [Coenzyme metabolism]; Region: FolA; COG0262 1069642003138 RibD C-terminal domain; Region: RibD_C; cl17279 1069642003139 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2989 1069642003140 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 1069642003141 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 1069642003142 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 1069642003143 Trypsin-like serine protease; Many of these are synthesized as inactive precursor zymogens that are cleaved during limited proteolysis to generate their active forms. Alignment contains also inactive enzymes that have substitutions of the catalytic triad...; Region: Tryp_SPc; cl00149 1069642003144 cleavage site 1069642003145 active site 1069642003146 substrate binding sites [chemical binding]; other site 1069642003147 Mycoplasma protein of unknown function, DUF285; Region: DUF285; pfam03382 1069642003148 Domain of unknown function (DUF4288); Region: DUF4288; pfam14119 1069642003149 putative arabinose transporter; Provisional; Region: PRK03545 1069642003150 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 1069642003151 putative substrate translocation pore; other site 1069642003152 Peptidase S8 family domain in Subtilisin proteins; Region: Peptidases_S8_Subtilisin_subset; cd07477 1069642003153 active site 1069642003154 catalytic residues [active] 1069642003155 PA: Protease-associated (PA) domain. The PA domain is an insert domain in a diverse fraction of proteases. The significance of the PA domain to many of the proteins in which it is inserted is undetermined. It may be a protein-protein interaction domain; Region: PA; cl08238 1069642003156 PA/protease or protease-like domain interface [polypeptide binding]; other site 1069642003157 Peptidase domain in the S8 and S53 families; Region: Peptidases_S8_S53; cl10459 1069642003158 catalytic residues [active] 1069642003159 methionine sulfoxide reductase B; Provisional; Region: PRK00222 1069642003160 SelR domain; Region: SelR; pfam01641 1069642003161 SnoaL-like domain; Region: SnoaL_2; pfam12680 1069642003162 AAA domain; Region: AAA_11; pfam13086 1069642003163 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 1069642003164 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 1069642003165 Walker A motif; other site 1069642003166 ATP binding site [chemical binding]; other site 1069642003167 Superfamily I DNA and RNA helicases and helicase subunits [DNA replication, recombination, and repair]; Region: COG1112 1069642003168 AAA domain; Region: AAA_12; pfam13087 1069642003169 Putative hydrophobic ligand-binding SRPBCC domain of Micromonospora echinospora CalC, human Aha1, and related proteins; Region: SRPBCC_CalC_Aha1-like; cd07814 1069642003170 putative hydrophobic ligand binding site [chemical binding]; other site 1069642003171 nylC-like family; composed of proteins with similarity to Flavobacterium endo-type 6-aminohexanoate-oligomer hydrolase (EIII), the product of the nylon oligomer degradation gene, nylC. EIII is an amide hydrolase that catalyzes the degradation of...; Region: nylC_like; cd02252 1069642003172 putative active site pocket [active] 1069642003173 cleavage site 1069642003174 ATP-dependent RNA helicase SrmB; Provisional; Region: PRK11192 1069642003175 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 1069642003176 ATP binding site [chemical binding]; other site 1069642003177 putative Mg++ binding site [ion binding]; other site 1069642003178 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 1069642003179 nucleotide binding region [chemical binding]; other site 1069642003180 ATP-binding site [chemical binding]; other site 1069642003181 glutaminyl-tRNA synthetase; Provisional; Region: PRK05347 1069642003182 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 1069642003183 active site 1069642003184 HIGH motif; other site 1069642003185 nucleotide binding site [chemical binding]; other site 1069642003186 catalytic core domain of glutaminyl-tRNA synthetase; Region: GlnRS_core; cd00807 1069642003187 KMSKS motif; other site 1069642003188 tRNA synthetases class I (E and Q), anti-codon binding domain; Region: tRNA-synt_1c_C; pfam03950 1069642003189 Aminopeptidase P, N-terminal domain; Region: AMP_N; smart01011 1069642003190 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 1069642003191 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 1069642003192 active site 1069642003193 Chaperone of endosialidase; Region: Peptidase_S74; pfam13884 1069642003194 SnoaL-like domain; Region: SnoaL_2; pfam12680 1069642003195 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 1069642003196 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 1069642003197 ligand binding site [chemical binding]; other site 1069642003198 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 1069642003199 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 1069642003200 substrate binding pocket [chemical binding]; other site 1069642003201 membrane-bound complex binding site; other site 1069642003202 hinge residues; other site 1069642003203 Thg1 C terminal domain; Region: Thg1C; pfam14413 1069642003204 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_C39A; cd02549 1069642003205 putative active site [active] 1069642003206 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 1069642003207 TPR motif; other site 1069642003208 binding surface 1069642003209 TPR repeat; Region: TPR_11; pfam13414 1069642003210 PAS domain S-box; Region: sensory_box; TIGR00229 1069642003211 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 1069642003212 putative active site [active] 1069642003213 heme pocket [chemical binding]; other site 1069642003214 PAS fold; Region: PAS_4; pfam08448 1069642003215 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 1069642003216 putative active site [active] 1069642003217 heme pocket [chemical binding]; other site 1069642003218 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 1069642003219 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1069642003220 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 1069642003221 dimer interface [polypeptide binding]; other site 1069642003222 phosphorylation site [posttranslational modification] 1069642003223 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 1069642003224 ATP binding site [chemical binding]; other site 1069642003225 Mg2+ binding site [ion binding]; other site 1069642003226 G-X-G motif; other site 1069642003227 Response regulator receiver domain; Region: Response_reg; pfam00072 1069642003228 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 1069642003229 active site 1069642003230 phosphorylation site [posttranslational modification] 1069642003231 intermolecular recognition site; other site 1069642003232 dimerization interface [polypeptide binding]; other site 1069642003233 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1069642003234 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 1069642003235 dimer interface [polypeptide binding]; other site 1069642003236 phosphorylation site [posttranslational modification] 1069642003237 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 1069642003238 ATP binding site [chemical binding]; other site 1069642003239 Mg2+ binding site [ion binding]; other site 1069642003240 G-X-G motif; other site 1069642003241 Response regulator receiver domain; Region: Response_reg; pfam00072 1069642003242 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 1069642003243 active site 1069642003244 phosphorylation site [posttranslational modification] 1069642003245 intermolecular recognition site; other site 1069642003246 dimerization interface [polypeptide binding]; other site 1069642003247 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 1069642003248 tRNA pseudouridine isomerase C; Region: PseudoU_synth_TruC; cd02563 1069642003249 probable active site [active] 1069642003250 YaeQ protein; Region: YaeQ; cl01913 1069642003251 Glycerophosphoryl diester phosphodiesterase [Energy production and conversion]; Region: UgpQ; COG0584 1069642003252 Glycerophosphodiester phosphodiesterase domain as found in prokaryota and eukaryota, and similar proteins; Region: GDPD; cd08556 1069642003253 active site 1069642003254 catalytic site [active] 1069642003255 metal binding site [ion binding]; metal-binding site 1069642003256 Cys/Met metabolism PLP-dependent enzyme; Region: Cys_Met_Meta_PP; pfam01053 1069642003257 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 1069642003258 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1069642003259 catalytic residue [active] 1069642003260 DTW domain; Region: DTW; cl01221 1069642003261 Tryptophan halogenase; Region: Trp_halogenase; pfam04820 1069642003262 Trypsin-like serine protease; Many of these are synthesized as inactive precursor zymogens that are cleaved during limited proteolysis to generate their active forms. Alignment contains also inactive enzymes that have substitutions of the catalytic triad...; Region: Tryp_SPc; cl00149 1069642003263 cleavage site 1069642003264 active site 1069642003265 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 1069642003266 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 1069642003267 N-terminal plug; other site 1069642003268 ligand-binding site [chemical binding]; other site 1069642003269 ATP-dependent RNA helicase DbpA; Provisional; Region: PRK11776 1069642003270 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 1069642003271 ATP binding site [chemical binding]; other site 1069642003272 Mg++ binding site [ion binding]; other site 1069642003273 motif III; other site 1069642003274 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 1069642003275 nucleotide binding region [chemical binding]; other site 1069642003276 ATP-binding site [chemical binding]; other site 1069642003277 RNA recognition motif in Escherichia coli RNA helicase dbpA and similar proteins; Region: RRM_EcDbpA_like; cd12501 1069642003278 putative RNA binding site [nucleotide binding]; other site 1069642003279 Predicted RNA-bindining protein (contains S1 and HTH domains) [General function prediction only]; Region: COG2996 1069642003280 S1 domain; Region: S1_2; pfam13509 1069642003281 S1 domain; Region: S1_2; pfam13509 1069642003282 RNA recognition motif in Helicobacter pylori HP0827 protein and similar proteins; Region: RRM_HP0827_like; cd12399 1069642003283 Uncharacterized protein with SCP/PR1 domains [Function unknown]; Region: COG2340 1069642003284 SCP_bacterial: SCP-like extracellular protein domain, as found in bacteria and archaea. The wider family of SCP containing proteins includes plant pathogenesis-related protein 1 (PR-1), CRISPs, mammalian cysteine-rich secretory proteins, and allergen 5...; Region: SCP_bacterial; cd05379 1069642003285 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 1069642003286 E-class dimer interface [polypeptide binding]; other site 1069642003287 P-class dimer interface [polypeptide binding]; other site 1069642003288 active site 1069642003289 Cu2+ binding site [ion binding]; other site 1069642003290 Zn2+ binding site [ion binding]; other site 1069642003291 L,D-transpeptidase catalytic domain; Region: YkuD_2; pfam13645 1069642003292 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 1069642003293 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 1069642003294 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 1069642003295 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 1069642003296 anti sigma factor interaction site; other site 1069642003297 regulatory phosphorylation site [posttranslational modification]; other site 1069642003298 Cytochrome b(N-terminal)/b6/petB; Region: Cytochrom_B_N; pfam00033 1069642003299 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 1069642003300 non-specific DNA binding site [nucleotide binding]; other site 1069642003301 salt bridge; other site 1069642003302 sequence-specific DNA binding site [nucleotide binding]; other site 1069642003303 Domain of unknown function (DUF4423); Region: DUF4423; pfam14394 1069642003304 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 1069642003305 DEAD-like helicases superfamily; Region: DEXDc; smart00487 1069642003306 ATP binding site [chemical binding]; other site 1069642003307 Mg++ binding site [ion binding]; other site 1069642003308 motif III; other site 1069642003309 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 1069642003310 nucleotide binding region [chemical binding]; other site 1069642003311 ATP-binding site [chemical binding]; other site 1069642003312 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 1069642003313 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1069642003314 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1069642003315 Walker A/P-loop; other site 1069642003316 ATP binding site [chemical binding]; other site 1069642003317 Q-loop/lid; other site 1069642003318 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1069642003319 ABC transporter signature motif; other site 1069642003320 Walker B; other site 1069642003321 D-loop; other site 1069642003322 ABC transporter; Region: ABC_tran_2; pfam12848 1069642003323 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1069642003324 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 1069642003325 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 1069642003326 Spermidine/putrescine-binding periplasmic protein [Amino acid transport and metabolism]; Region: PotD; COG0687 1069642003327 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 1069642003328 sulfate ABC transporter, ATP-binding protein; Region: 3a0106s01; TIGR00968 1069642003329 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1069642003330 Walker A/P-loop; other site 1069642003331 ATP binding site [chemical binding]; other site 1069642003332 Q-loop/lid; other site 1069642003333 ABC transporter signature motif; other site 1069642003334 Walker B; other site 1069642003335 D-loop; other site 1069642003336 H-loop/switch region; other site 1069642003337 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 1069642003338 dimer interface [polypeptide binding]; other site 1069642003339 conserved gate region; other site 1069642003340 putative PBP binding loops; other site 1069642003341 ABC-ATPase subunit interface; other site 1069642003342 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 1069642003343 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 1069642003344 dimer interface [polypeptide binding]; other site 1069642003345 conserved gate region; other site 1069642003346 putative PBP binding loops; other site 1069642003347 ABC-ATPase subunit interface; other site 1069642003348 Permeases of the major facilitator superfamily [General function prediction only]; Region: COG2270 1069642003349 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 1069642003350 putative substrate translocation pore; other site 1069642003351 23S rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: FtsJ; COG0293 1069642003352 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 1069642003353 S-adenosylmethionine binding site [chemical binding]; other site 1069642003354 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 1069642003355 active site 1069642003356 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 1069642003357 MarR family; Region: MarR; pfam01047 1069642003358 Predicted HD superfamily hydrolase [General function prediction only]; Region: COG1418 1069642003359 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 1069642003360 Zn2+ binding site [ion binding]; other site 1069642003361 Mg2+ binding site [ion binding]; other site 1069642003362 C1 Peptidase family (MEROPS database nomenclature), also referred to as the papain family; composed of two subfamilies of cysteine peptidases (CPs), C1A (papain) and C1B (bleomycin hydrolase). Papain-like enzymes are mostly endopeptidases with some...; Region: Peptidase_C1; cd02619 1069642003363 active site 1069642003364 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 1069642003365 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 1069642003366 substrate binding pocket [chemical binding]; other site 1069642003367 membrane-bound complex binding site; other site 1069642003368 hinge residues; other site 1069642003369 Glyoxalase-like domain; Region: Glyoxalase_2; pfam12681 1069642003370 Micrococcal nuclease (thermonuclease) homologs [DNA replication, recombination, and repair]; Region: COG1525 1069642003371 Catalytic site; other site 1069642003372 Staphylococcal nuclease homologues. SNase homologues are found in bacteria, archaea, and eukaryotes. They contain no disufide bonds; Region: SNc; cl00140 1069642003373 Peptidase S8 family domain in Subtilisin-like proteins; Region: Peptidases_S8_Subtilisin_like; cd07473 1069642003374 catalytic triad [active] 1069642003375 putative active site [active] 1069642003376 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1069642003377 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1069642003378 metal binding site [ion binding]; metal-binding site 1069642003379 active site 1069642003380 I-site; other site 1069642003381 AIFL (apoptosis-inducing factor like) family, N-terminal Rieske domain; members of this family show similarity to human AIFL, containing an N-terminal Rieske domain and a C-terminal pyridine nucleotide-disulfide oxidoreductase domain (Pyr_redox). The...; Region: Rieske_AIFL_N; cd03478 1069642003382 [2Fe-2S] cluster binding site [ion binding]; other site 1069642003383 phenylpropionate dioxygenase ferredoxin reductase subunit; Provisional; Region: PRK09754 1069642003384 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1069642003385 peroxiredoxin, OsmC subfamily; Region: osmo_induc_OsmC; TIGR03562 1069642003386 Predicted membrane protein [Function unknown]; Region: COG2855 1069642003387 Peptidase S8 family domain in Vpr-like proteins; Region: Peptidases_S8_subtilisin_Vpr-like; cd07474 1069642003388 putative active site [active] 1069642003389 catalytic triad [active] 1069642003390 PA_subtilisin_1: Protease-associated domain containing subtilisin-like proteases, subgroup 1. A subgroup of PA domain-containing subtilisin-like proteases. The significance of the PA domain to many of the proteins in which it is inserted is undetermined; Region: PA_subtilisin_1; cd04818 1069642003391 PA/protease or protease-like domain interface [polypeptide binding]; other site 1069642003392 Peptidase S8 family domain in Vpr-like proteins; Region: Peptidases_S8_subtilisin_Vpr-like; cd07474 1069642003393 Multiple antibiotic transporter [Intracellular trafficking and secretion]; Region: MarC; COG2095 1069642003394 translocation protein TolB; Provisional; Region: tolB; PRK02889 1069642003395 Calx-beta domain; Region: Calx-beta; cl02522 1069642003396 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 1069642003397 Interdomain contacts; other site 1069642003398 Calx-beta domain; Region: Calx-beta; cl02522 1069642003399 Regulator of chromosome condensation (RCC1) repeat; Region: RCC1_2; pfam13540 1069642003400 Regulator of chromosome condensation (RCC1) repeat; Region: RCC1; pfam00415 1069642003401 Regulator of chromosome condensation (RCC1) repeat; Region: RCC1; pfam00415 1069642003402 Alpha-tubulin suppressor and related RCC1 domain-containing proteins [Cell division and chromosome partitioning / Cytoskeleton]; Region: ATS1; COG5184 1069642003403 Regulator of chromosome condensation (RCC1) repeat; Region: RCC1_2; pfam13540 1069642003404 Regulator of chromosome condensation (RCC1) repeat; Region: RCC1; pfam00415 1069642003405 Regulator of chromosome condensation (RCC1) repeat; Region: RCC1_2; pfam13540 1069642003406 Regulator of chromosome condensation (RCC1) repeat; Region: RCC1_2; pfam13540 1069642003407 Arylsulfatase A and related enzymes [Inorganic ion transport and metabolism]; Region: AslA; COG3119 1069642003408 Sulfatase; Region: Sulfatase; pfam00884 1069642003409 Uncharacterized conserved protein [Function unknown]; Region: COG1262 1069642003410 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; pfam03781 1069642003411 Protein of unknown function (DUF1622); Region: DUF1622; pfam07784 1069642003412 Multiple antibiotic transporter [Intracellular trafficking and secretion]; Region: MarC; COG2095 1069642003413 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1069642003414 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1069642003415 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 1069642003416 dimerization interface [polypeptide binding]; other site 1069642003417 Pyoverdine/dityrosine biosynthesis protein; Region: DIT1_PvcA; pfam05141 1069642003418 Probable taurine catabolism dioxygenase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: TauD; COG2175 1069642003419 Taurine catabolism dioxygenase TauD, TfdA family; Region: TauD; pfam02668 1069642003420 substrate binding pocket [chemical binding]; other site 1069642003421 active site 1069642003422 iron coordination sites [ion binding]; other site 1069642003423 hypothetical protein; Provisional; Region: PRK07190 1069642003424 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 1069642003425 ASCH domain; Region: ASCH; pfam04266 1069642003426 SH3 domain protein; Region: SH3_and_anchor; TIGR04211 1069642003427 insertion element IS2 transposase InsD; Provisional; Region: PRK14702 1069642003428 HTH-like domain; Region: HTH_21; pfam13276 1069642003429 Integrase core domain; Region: rve; pfam00665 1069642003430 Integrase core domain; Region: rve_3; pfam13683 1069642003431 Serine Recombinase family, catalytic domain; a DNA binding domain may be present either N- or C-terminal to the catalytic domain. These enzymes perform site-specific recombination of DNA molecules by a concerted, four-strand cleavage and rejoining...; Region: Ser_Recombinase; cd00338 1069642003432 catalytic residues [active] 1069642003433 catalytic nucleophile [active] 1069642003434 Recombinase; Region: Recombinase; pfam07508 1069642003435 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 1069642003436 Adenylosuccinate synthetase; Region: Adenylsucc_synt; smart00788 1069642003437 GDP-binding site [chemical binding]; other site 1069642003438 ACT binding site; other site 1069642003439 IMP binding site; other site 1069642003440 Phosphoglycerate dehydrogenase and related dehydrogenases [Amino acid transport and metabolism]; Region: SerA; COG0111 1069642003441 Phosphoglycerate dehydrogenase (PGDH) NAD-binding and catalytic domains; Region: PGDH_2; cd05303 1069642003442 putative ligand binding site [chemical binding]; other site 1069642003443 NAD binding site [chemical binding]; other site 1069642003444 dimerization interface [polypeptide binding]; other site 1069642003445 catalytic site [active] 1069642003446 Serine-pyruvate aminotransferase/archaeal aspartate aminotransferase [Amino acid transport and metabolism]; Region: COG0075 1069642003447 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1069642003448 catalytic residue [active] 1069642003449 Lipopolysaccharide-assembly; Region: LptE; cl01125 1069642003450 DNA polymerase III, delta subunit; Region: DNA_pol3_delta; pfam06144 1069642003451 DNA polymerase III, delta subunit; Region: holA; TIGR01128 1069642003452 30S ribosomal protein S20; Reviewed; Region: rpsT; PRK00239 1069642003453 Uncharacterized membrane protein, putative virulence factor [General function prediction only]; Region: MviN; COG0728 1069642003454 MurJ/MviN, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_MurJ_like; cd13123 1069642003455 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 1069642003456 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1069642003457 dimer interface [polypeptide binding]; other site 1069642003458 putative CheW interface [polypeptide binding]; other site 1069642003459 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 1069642003460 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1069642003461 dimer interface [polypeptide binding]; other site 1069642003462 putative CheW interface [polypeptide binding]; other site 1069642003463 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 1069642003464 type IV pilus biogenesis/stability protein PilW; Region: type_IV_pilW; TIGR02521 1069642003465 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; pfam13505 1069642003466 Gram-negative bacterial tonB protein; Region: TonB; cl10048 1069642003467 tol-pal system protein YbgF; Region: tol_pal_ybgF; TIGR02795 1069642003468 tol-pal system protein YbgF; Region: tol_pal_ybgF; TIGR02795 1069642003469 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 1069642003470 Biopolymer transport protein ExbD/TolR; Region: ExbD; pfam02472 1069642003471 Biopolymer transport protein ExbD/TolR; Region: ExbD; pfam02472 1069642003472 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 1069642003473 PilZ domain; Region: PilZ; pfam07238 1069642003474 Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b para-rossmann type of...; Region: vWFA; cl00057 1069642003475 nucleoside triphosphate pyrophosphohydrolase; Reviewed; Region: mazG; PRK09562 1069642003476 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) N-terminal tandem-domain of MazG proteins from Escherichia coli and bacterial homologs; Region: NTP-PPase_MazG_Nterm; cd11528 1069642003477 homodimer interface [polypeptide binding]; other site 1069642003478 metal binding site [ion binding]; metal-binding site 1069642003479 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) C-terminal tandem-domain of MazG proteins from Escherichia coli and bacterial homologs' Region: NTP-PPase_MazG_Cterm; cd11529 1069642003480 homodimer interface [polypeptide binding]; other site 1069642003481 active site 1069642003482 putative chemical substrate binding site [chemical binding]; other site 1069642003483 metal binding site [ion binding]; metal-binding site 1069642003484 Predicted membrane-associated HD superfamily hydrolase [General function prediction only]; Region: COG1480 1069642003485 7TM receptor with intracellular HD hydrolase; Region: 7TM-7TMR_HD; pfam07698 1069642003486 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 1069642003487 Zn2+ binding site [ion binding]; other site 1069642003488 Mg2+ binding site [ion binding]; other site 1069642003489 Uncharacterized protein family UPF0054; Region: UPF0054; pfam02130 1069642003490 This domain is found in peptide chain release factors; Region: PCRF; smart00937 1069642003491 Protein chain release factor B [Translation, ribosomal structure and biogenesis]; Region: PrfB; COG1186 1069642003492 RF-1 domain; Region: RF-1; pfam00472 1069642003493 ABC-type transport system, involved in lipoprotein release, permease component [Cell envelope biogenesis, outer membrane]; Region: LolE; COG4591 1069642003494 FtsX-like permease family; Region: FtsX; pfam02687 1069642003495 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 1069642003496 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 1069642003497 Walker A/P-loop; other site 1069642003498 ATP binding site [chemical binding]; other site 1069642003499 Q-loop/lid; other site 1069642003500 ABC transporter signature motif; other site 1069642003501 Walker B; other site 1069642003502 D-loop; other site 1069642003503 H-loop/switch region; other site 1069642003504 outer membrane protein assembly complex, YaeT protein; Region: OM_YaeT; TIGR03303 1069642003505 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 1069642003506 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 1069642003507 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 1069642003508 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 1069642003509 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 1069642003510 Surface antigen; Region: Bac_surface_Ag; pfam01103 1069642003511 Outer membrane protein (OmpH-like); Region: OmpH; pfam03938 1069642003512 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 1069642003513 UDP-N-acetylglucosamine acyltransferase; Provisional; Region: PRK05289 1069642003514 active site 1069642003515 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 1069642003516 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 1069642003517 ipid-A-disaccharide synthase; Provisional; Region: PRK14089 1069642003518 lipid-A-disaccharide synthase; Reviewed; Region: lpxB; PRK00025 1069642003519 Tetraacyldisaccharide-1-P 4'-kinase; Region: LpxK; pfam02606 1069642003520 tetraacyldisaccharide 4'-kinase; Region: lpxK; TIGR00682 1069642003521 Bacterial lipid A biosynthesis acyltransferase; Region: Lip_A_acyltrans; pfam03279 1069642003522 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 1069642003523 putative acyl-acceptor binding pocket; other site 1069642003524 Protein of unknown function (DUF3108); Region: DUF3108; pfam11306 1069642003525 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 1069642003526 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 1069642003527 ligand binding site [chemical binding]; other site 1069642003528 flexible hinge region; other site 1069642003529 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 1069642003530 ligand binding site [chemical binding]; other site 1069642003531 flexible hinge region; other site 1069642003532 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 1069642003533 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 1069642003534 putative active site [active] 1069642003535 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 1069642003536 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 1069642003537 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 1069642003538 putative active site [active] 1069642003539 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 1069642003540 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 1069642003541 active site 1069642003542 phosphorylation site [posttranslational modification] 1069642003543 intermolecular recognition site; other site 1069642003544 dimerization interface [polypeptide binding]; other site 1069642003545 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 1069642003546 Walker A motif; other site 1069642003547 ATP binding site [chemical binding]; other site 1069642003548 Walker B motif; other site 1069642003549 arginine finger; other site 1069642003550 Bacterial regulatory protein, Fis family; Region: HTH_8; cl17420 1069642003551 CHASE2 is an extracellular sensory domain, which is present in various classes of transmembrane receptors that are parts of signal transduction pathways in bacteria; Region: CHASE2; smart01080 1069642003552 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 1069642003553 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 1069642003554 dimer interface [polypeptide binding]; other site 1069642003555 phosphorylation site [posttranslational modification] 1069642003556 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 1069642003557 ATP binding site [chemical binding]; other site 1069642003558 Mg2+ binding site [ion binding]; other site 1069642003559 G-X-G motif; other site 1069642003560 bifunctional riboflavin kinase/FMN adenylyltransferase; Reviewed; Region: PRK05627 1069642003561 FAD synthetase, N-terminal domain of the bifunctional enzyme; Region: FAD_synthetase_N; cd02064 1069642003562 Riboflavin kinase; Region: Flavokinase; pfam01687 1069642003563 Shikimate / quinate 5-dehydrogenase; Region: Shikimate_DH; pfam01488 1069642003564 type IV-A pilus assembly ATPase PilB; Region: type_IV_pilB; TIGR02538 1069642003565 Type II secretion system (T2SS), protein E, N-terminal domain; Region: T2SE_Nter; pfam05157 1069642003566 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 1069642003567 Walker A motif; other site 1069642003568 ATP binding site [chemical binding]; other site 1069642003569 Walker B motif; other site 1069642003570 pilus retraction protein PilT; Region: pilT_fam; TIGR01420 1069642003571 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 1069642003572 Type II secretory pathway, component PulF [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulF; COG1459 1069642003573 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 1069642003574 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 1069642003575 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 1069642003576 PAS domain; Region: PAS; smart00091 1069642003577 putative active site [active] 1069642003578 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 1069642003579 phosphorylation site [posttranslational modification] 1069642003580 dimer interface [polypeptide binding]; other site 1069642003581 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 1069642003582 ATP binding site [chemical binding]; other site 1069642003583 Mg2+ binding site [ion binding]; other site 1069642003584 G-X-G motif; other site 1069642003585 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 1069642003586 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 1069642003587 active site 1069642003588 phosphorylation site [posttranslational modification] 1069642003589 intermolecular recognition site; other site 1069642003590 dimerization interface [polypeptide binding]; other site 1069642003591 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 1069642003592 Walker A motif; other site 1069642003593 ATP binding site [chemical binding]; other site 1069642003594 Walker B motif; other site 1069642003595 arginine finger; other site 1069642003596 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 1069642003597 Ferritin-like domain; Region: Ferritin; pfam00210 1069642003598 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cd00657 1069642003599 dinuclear metal binding motif [ion binding]; other site 1069642003600 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cl15239 1069642003601 putative active site [active] 1069642003602 catalytic site [active] 1069642003603 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cl15239 1069642003604 PLD-like domain; Region: PLDc_2; pfam13091 1069642003605 putative active site [active] 1069642003606 catalytic site [active] 1069642003607 Peptidase M1 family containing bacterial Aminopeptidase N; Region: M1_APN_5; cd09604 1069642003608 Zn binding site [ion binding]; other site 1069642003609 tRNA pseudouridine isomerase C; Region: PseudoU_synth_TruC; cd02563 1069642003610 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 1069642003611 probable active site [active] 1069642003612 Predicted dithiol-disulfide isomerase involved in polyketide biosynthesis [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FrnE; COG2761 1069642003613 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 1069642003614 Type 1 glutamine amidotransferase (GATase1)-like domain found in proteins similar to Escherichia coli Hsp31 protein; Region: GATase1_Hsp31_like; cd03141 1069642003615 Putative intracellular protease/amidase [General function prediction only]; Region: ThiJ; COG0693 1069642003616 potential catalytic triad [active] 1069642003617 conserved cys residue [active] 1069642003618 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 1069642003619 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 1069642003620 Walker A motif; other site 1069642003621 ATP binding site [chemical binding]; other site 1069642003622 Walker B motif; other site 1069642003623 arginine finger; other site 1069642003624 Bacterial regulatory protein, Fis family; Region: HTH_8; cl17420 1069642003625 exopolyphosphatase; Region: exo_poly_only; TIGR03706 1069642003626 Ppx/GppA phosphatase family; Region: Ppx-GppA; pfam02541 1069642003627 Protein required for attachment to host cells; Region: Host_attach; pfam10116 1069642003628 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 1069642003629 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 1069642003630 ATP-binding cassette domain of the bacterial lipid flippase and related proteins, subfamily C; Region: ABCC_MsbA; cd03251 1069642003631 Walker A/P-loop; other site 1069642003632 ATP binding site [chemical binding]; other site 1069642003633 Q-loop/lid; other site 1069642003634 ABC transporter signature motif; other site 1069642003635 Walker B; other site 1069642003636 D-loop; other site 1069642003637 H-loop/switch region; other site 1069642003638 Uridine kinase [Nucleotide transport and metabolism]; Region: Udk; COG0572 1069642003639 Uridine monophosphate kinase (UMPK, EC 2.7.1.48), also known as uridine kinase or uridine-cytidine kinase (UCK), catalyzes the reversible phosphoryl transfer from ATP to uridine or cytidine to yield UMP or CMP. In the primidine nucleotide-salvage pathway; Region: UMPK; cd02023 1069642003640 ATP-binding site [chemical binding]; other site 1069642003641 Sugar specificity; other site 1069642003642 Pyrimidine base specificity; other site 1069642003643 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1069642003644 active site 1069642003645 Protein of unknown function (DUF1688); Region: DUF1688; pfam07958 1069642003646 hypothetical protein; Validated; Region: PRK07198 1069642003647 GTP cyclohydrolase N terminal; Region: GTP_CH_N; pfam12471 1069642003648 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; cl00522 1069642003649 dimerization interface [polypeptide binding]; other site 1069642003650 active site 1069642003651 Methylmalonate semialdehyde dehydrogenase and ALDH family members 6A1 and 6B2; Region: ALDH_F6_MMSDH; cd07085 1069642003652 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 1069642003653 tetrameric interface [polypeptide binding]; other site 1069642003654 NAD binding site [chemical binding]; other site 1069642003655 catalytic residues [active] 1069642003656 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 1069642003657 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 1069642003658 putative active site [active] 1069642003659 heme pocket [chemical binding]; other site 1069642003660 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 1069642003661 dimer interface [polypeptide binding]; other site 1069642003662 phosphorylation site [posttranslational modification] 1069642003663 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 1069642003664 ATP binding site [chemical binding]; other site 1069642003665 Mg2+ binding site [ion binding]; other site 1069642003666 G-X-G motif; other site 1069642003667 Response regulator receiver domain; Region: Response_reg; pfam00072 1069642003668 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 1069642003669 active site 1069642003670 phosphorylation site [posttranslational modification] 1069642003671 intermolecular recognition site; other site 1069642003672 dimerization interface [polypeptide binding]; other site 1069642003673 Orthopoxvirus protein of unknown function (DUF830); Region: DUF830; cl13998 1069642003674 Winged helix DNA-binding domain; Region: HTH_27; pfam13463 1069642003675 Domain of unknown function (DUF4423); Region: DUF4423; pfam14394 1069642003676 Trypsin-like serine protease; Many of these are synthesized as inactive precursor zymogens that are cleaved during limited proteolysis to generate their active forms. Alignment contains also inactive enzymes that have substitutions of the catalytic triad...; Region: Tryp_SPc; cl00149 1069642003677 active site 1069642003678 substrate binding sites [chemical binding]; other site 1069642003679 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 1069642003680 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1069642003681 Coenzyme A binding pocket [chemical binding]; other site 1069642003682 ribosome maturation protein RimP; Reviewed; Region: PRK00092 1069642003683 Sm and related proteins; Region: Sm_like; cl00259 1069642003684 Bacillus subtilis YxlS-like, C-terminal domain; Region: YlxS_C; cd01734 1069642003685 putative oligomer interface [polypeptide binding]; other site 1069642003686 putative RNA binding site [nucleotide binding]; other site 1069642003687 NusA N-terminal domain; Region: NusA_N; pfam08529 1069642003688 transcription elongation factor NusA; Provisional; Region: nusA; PRK12327 1069642003689 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 1069642003690 RNA binding site [nucleotide binding]; other site 1069642003691 homodimer interface [polypeptide binding]; other site 1069642003692 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 1069642003693 G-X-X-G motif; other site 1069642003694 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 1069642003695 G-X-X-G motif; other site 1069642003696 translation initiation factor IF-2; Region: IF-2; TIGR00487 1069642003697 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 1069642003698 Initiation Factor 2 (IF2)/ eukaryotic Initiation Factor 5B (eIF5B) family; Region: IF2_eIF5B; cd01887 1069642003699 G1 box; other site 1069642003700 putative GEF interaction site [polypeptide binding]; other site 1069642003701 GTP/Mg2+ binding site [chemical binding]; other site 1069642003702 Switch I region; other site 1069642003703 G2 box; other site 1069642003704 G3 box; other site 1069642003705 Switch II region; other site 1069642003706 G4 box; other site 1069642003707 G5 box; other site 1069642003708 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 1069642003709 Translation-initiation factor 2; Region: IF-2; pfam11987 1069642003710 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 1069642003711 Ribosome-binding factor A; Region: RBFA; pfam02033 1069642003712 tRNA pseudouridine synthase B; Provisional; Region: truB; PRK00130 1069642003713 Pseudouridine synthase, Escherichia coli TruB like; Region: PseudoU_synth_EcTruB; cd02573 1069642003714 RNA binding site [nucleotide binding]; other site 1069642003715 active site 1069642003716 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 1069642003717 16S/18S rRNA binding site [nucleotide binding]; other site 1069642003718 S13e-L30e interaction site [polypeptide binding]; other site 1069642003719 25S rRNA binding site [nucleotide binding]; other site 1069642003720 polynucleotide phosphorylase/polyadenylase; Provisional; Region: PRK11824 1069642003721 Polyribonucleotide nucleotidyltransferase, repeat 1; Region: RNase_PH_PNPase_1; cd11363 1069642003722 RNase E interface [polypeptide binding]; other site 1069642003723 trimer interface [polypeptide binding]; other site 1069642003724 Polyribonucleotide nucleotidyltransferase, RNA binding domain; Region: PNPase; pfam03726 1069642003725 Polyribonucleotide nucleotidyltransferase, repeat 2; Region: RNase_PH_PNPase_2; cd11364 1069642003726 RNase E interface [polypeptide binding]; other site 1069642003727 trimer interface [polypeptide binding]; other site 1069642003728 active site 1069642003729 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 1069642003730 putative nucleic acid binding region [nucleotide binding]; other site 1069642003731 G-X-X-G motif; other site 1069642003732 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 1069642003733 RNA binding site [nucleotide binding]; other site 1069642003734 domain interface; other site 1069642003735 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 1069642003736 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 1069642003737 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 1069642003738 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 1069642003739 trimer interface [polypeptide binding]; other site 1069642003740 active site 1069642003741 Yip1 domain; Region: Yip1; pfam04893 1069642003742 Family of unknown function (DUF490); Region: DUF490; pfam04357 1069642003743 Surface antigen; Region: Bac_surface_Ag; pfam01103 1069642003744 DPM1_like represents putative enzymes similar to eukaryotic DPM1; Region: DPM1_like; cd06442 1069642003745 Ligand binding site; other site 1069642003746 Putative Catalytic site; other site 1069642003747 DXD motif; other site 1069642003748 putative carboxyl-terminal-processing protease, deltaproteobacterial; Region: prc_long_Delta; TIGR03900 1069642003749 DNA mismatch repair protein; Reviewed; Region: mutL; PRK00095 1069642003750 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 1069642003751 ATP binding site [chemical binding]; other site 1069642003752 Mg2+ binding site [ion binding]; other site 1069642003753 G-X-G motif; other site 1069642003754 MutL_Trans: transducer domain, having a ribosomal S5 domain 2-like fold, conserved in the C-terminal domain of DNA mismatch repair (MutL/MLH1/PMS2) family. This transducer domain is homologous to the second domain of the DNA gyrase B subunit, which is...; Region: MutL_Trans; cd00782 1069642003755 ATP binding site [chemical binding]; other site 1069642003756 MutL C terminal dimerisation domain; Region: MutL_C; pfam08676 1069642003757 tRNA delta(2)-isopentenylpyrophosphate transferase; Reviewed; Region: miaA; PRK00091 1069642003758 tRNA delta(2)-isopentenylpyrophosphate transferase [Translation, ribosomal structure and biogenesis]; Region: MiaA; COG0324 1069642003759 hypothetical protein; Provisional; Region: PRK11820 1069642003760 YicC-like family, N-terminal region; Region: YicC_N; pfam03755 1069642003761 Domain of unknown function (DUF1732); Region: DUF1732; pfam08340 1069642003762 Guanylate kinase [Nucleotide transport and metabolism]; Region: Gmk; COG0194 1069642003763 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 1069642003764 catalytic site [active] 1069642003765 G-X2-G-X-G-K; other site 1069642003766 DNA-directed RNA polymerase subunit omega; Reviewed; Region: rpoZ; PRK00392 1069642003767 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 1069642003768 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 1069642003769 Zn2+ binding site [ion binding]; other site 1069642003770 Mg2+ binding site [ion binding]; other site 1069642003771 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 1069642003772 synthetase active site [active] 1069642003773 NTP binding site [chemical binding]; other site 1069642003774 metal binding site [ion binding]; metal-binding site 1069642003775 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 1069642003776 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 1069642003777 CHASE domain; Region: CHASE; cl01369 1069642003778 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 1069642003779 PAS domain; Region: PAS_9; pfam13426 1069642003780 putative active site [active] 1069642003781 heme pocket [chemical binding]; other site 1069642003782 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 1069642003783 dimer interface [polypeptide binding]; other site 1069642003784 phosphorylation site [posttranslational modification] 1069642003785 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 1069642003786 ATP binding site [chemical binding]; other site 1069642003787 Mg2+ binding site [ion binding]; other site 1069642003788 G-X-G motif; other site 1069642003789 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 1069642003790 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 1069642003791 L-lysine 6-monooxygenase (NADPH-requiring); Region: K_oxygenase; pfam13434 1069642003792 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 1069642003793 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 1069642003794 Siderophore synthetase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: RhbC; COG4264 1069642003795 IucA / IucC family; Region: IucA_IucC; pfam04183 1069642003796 Ferric iron reductase FhuF-like transporter; Region: FhuF; pfam06276 1069642003797 Acetyltransferase (GNAT) domain; Region: Acetyltransf_8; pfam13523 1069642003798 Siderophore biosynthesis protein domain; Region: AlcB; smart01006 1069642003799 IucA / IucC family; Region: IucA_IucC; pfam04183 1069642003800 Ferric iron reductase FhuF-like transporter; Region: FhuF; pfam06276 1069642003801 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1069642003802 Uncharacterized iron-regulated membrane protein [Function unknown]; Region: PiuB; COG3182 1069642003803 PepSY-associated TM helix; Region: PepSY_TM_2; pfam13703 1069642003804 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 1069642003805 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 1069642003806 dimer interface [polypeptide binding]; other site 1069642003807 ssDNA binding site [nucleotide binding]; other site 1069642003808 tetramer (dimer of dimers) interface [polypeptide binding]; other site 1069642003809 Competence protein A; Region: Competence_A; pfam11104 1069642003810 Type II secretion system (T2SS), protein K; Region: T2SK; pfam03934 1069642003811 Type II secretion system (T2SS), protein J; Region: T2SJ; pfam11612 1069642003812 Type II secretory pathway, pseudopilin PulG [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulG; COG2165 1069642003813 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; cl06830 1069642003814 Type II secretion system (T2SS), protein G; Region: T2SG; pfam08334 1069642003815 type II secretion system protein F; Region: GspF; TIGR02120 1069642003816 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 1069642003817 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 1069642003818 Type II secretion system (T2SS), protein E, N-terminal domain; Region: T2SE_Nter; pfam05157 1069642003819 type II secretion system protein E; Region: type_II_gspE; TIGR02533 1069642003820 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 1069642003821 Walker A motif; other site 1069642003822 ATP binding site [chemical binding]; other site 1069642003823 Walker B motif; other site 1069642003824 type II secretion system protein D; Region: type_II_gspD; TIGR02517 1069642003825 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 1069642003826 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 1069642003827 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 1069642003828 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 1069642003829 Type IV pilus biogenesis; Region: Pilus_PilP; pfam11356 1069642003830 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 1069642003831 protein binding site [polypeptide binding]; other site 1069642003832 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1069642003833 dimer interface [polypeptide binding]; other site 1069642003834 Methyl-accepting chemotaxis protein (MCP) signalling domain; Region: MCPsignal; pfam00015 1069642003835 putative CheW interface [polypeptide binding]; other site 1069642003836 Cobalamin adenosyltransferase; Region: Cob_adeno_trans; pfam01923 1069642003837 N-formylglutamate amidohydrolase; Region: FGase; pfam05013 1069642003838 ResB-like family; Region: ResB; pfam05140 1069642003839 ResB-like family; Region: ResB; pfam05140 1069642003840 cytochrome c-type biogenesis protein CcsB; Region: cytochr_II_ccsB; TIGR03144 1069642003841 Heme-binding domain of the class III cytochrome C family and related proteins; Region: Cytochrom_C3; cl03439 1069642003842 heme-binding residues [chemical binding]; other site 1069642003843 Anaerobic dehydrogenases, typically selenocysteine-containing [Energy production and conversion]; Region: BisC; COG0243 1069642003844 The MopB_PHLH CD includes a group of related uncharacterized putative hydrogenase-like homologs (PHLH) of molybdopterin binding (MopB) proteins. This CD is of the PHLH region homologous to the catalytic molybdopterin-binding subunit of MopB homologs; Region: MopB_PHLH; cd02764 1069642003845 The MopB_CT_PHLH CD includes a group of related uncharacterized putative hydrogenase-like homologs (PHLH) of molybdopterin binding proteins. This CD is of the PHLH region homologous to the conserved molybdopterin-binding C-terminal (MopB_CT) region...; Region: MopB_CT_PHLH; cd02784 1069642003846 Fe-S-cluster-containing hydrogenase components 1 [Energy production and conversion]; Region: HybA; COG0437 1069642003847 Polysulphide reductase [Energy production and conversion]; Region: COG5557; cl17901 1069642003848 Polysulphide reductase, NrfD; Region: NrfD; pfam03916 1069642003849 Protein of unknown function (DUF3341); Region: DUF3341; pfam11821 1069642003850 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 1069642003851 PilZ domain; Region: PilZ; pfam07238 1069642003852 threonyl-tRNA synthetase; Reviewed; Region: thrS; PRK00413 1069642003853 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 1069642003854 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 1069642003855 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 1069642003856 active site 1069642003857 dimer interface [polypeptide binding]; other site 1069642003858 motif 1; other site 1069642003859 motif 2; other site 1069642003860 motif 3; other site 1069642003861 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 1069642003862 anticodon binding site; other site 1069642003863 translation initiation factor IF-3; Reviewed; Region: infC; PRK00028 1069642003864 Translation initiation factor IF-3, N-terminal domain; Region: IF3_N; pfam05198 1069642003865 Translation initiation factor IF-3, C-terminal domain; Region: IF3_C; pfam00707 1069642003866 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 1069642003867 putative active site [active] 1069642003868 dimerization interface [polypeptide binding]; other site 1069642003869 putative tRNAtyr binding site [nucleotide binding]; other site 1069642003870 Putative esterase; Region: Esterase; pfam00756 1069642003871 Putative flagellar system-associated repeat; Region: SWM_repeat; pfam13753 1069642003872 CUB domain; extracellular domain; present in proteins mostly known to be involved in development; not found in prokaryotes, plants and yeast; Region: CUB; cl00049 1069642003873 heterodimerization interface [polypeptide binding]; other site 1069642003874 CUB domain; extracellular domain; present in proteins mostly known to be involved in development; not found in prokaryotes, plants and yeast; Region: CUB; cd00041 1069642003875 heterodimerization interface [polypeptide binding]; other site 1069642003876 Regulator of chromosome condensation (RCC1) repeat; Region: RCC1_2; pfam13540 1069642003877 Regulator of chromosome condensation (RCC1) repeat; Region: RCC1; pfam00415 1069642003878 Regulator of chromosome condensation (RCC1) repeat; Region: RCC1_2; pfam13540 1069642003879 Regulator of chromosome condensation (RCC1) repeat; Region: RCC1; pfam00415 1069642003880 Regulator of chromosome condensation (RCC1) repeat; Region: RCC1; pfam00415 1069642003881 Alpha-tubulin suppressor and related RCC1 domain-containing proteins [Cell division and chromosome partitioning / Cytoskeleton]; Region: ATS1; COG5184 1069642003882 Regulator of chromosome condensation (RCC1) repeat; Region: RCC1_2; pfam13540 1069642003883 Ribosomal protein L20; Region: Ribosomal_L20; cd07026 1069642003884 23S rRNA binding site [nucleotide binding]; other site 1069642003885 L21 binding site [polypeptide binding]; other site 1069642003886 L13 binding site [polypeptide binding]; other site 1069642003887 isopentenyl pyrophosphate isomerase; Provisional; Region: PRK05437 1069642003888 Isopentenyl-diphosphate:dimethylallyl diphosphate isomerase type 2 (IDI-2) FMN-binding domain. Two types of IDIs have been characterized at present. The long known IDI-1 is only dependent on divalent metals for activity, whereas IDI-2 requires a metal; Region: IDI-2_FMN; cd02811 1069642003889 homotetramer interface [polypeptide binding]; other site 1069642003890 FMN binding site [chemical binding]; other site 1069642003891 homodimer contacts [polypeptide binding]; other site 1069642003892 putative active site [active] 1069642003893 putative substrate binding site [chemical binding]; other site 1069642003894 Class II hydroxymethylglutaryl-coenzyme A (HMG-CoA) reductase (HMGR); Region: HMG-CoA_reductase_classII; cd00644 1069642003895 homodimer interface [polypeptide binding]; other site 1069642003896 catalytic residues [active] 1069642003897 NAD binding site [chemical binding]; other site 1069642003898 substrate binding pocket [chemical binding]; other site 1069642003899 flexible flap; other site 1069642003900 Phosphomevalonate kinase [Lipid metabolism]; Region: ERG8; COG3890 1069642003901 Mevalonate pyrophosphate decarboxylase [Lipid metabolism]; Region: MVD1; COG3407 1069642003902 diphosphomevalonate decarboxylase; Region: PLN02407 1069642003903 mevalonate kinase; Region: mevalon_kin; TIGR00549 1069642003904 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 1069642003905 DNA alkylation repair enzyme; Region: DNA_alkylation; pfam08713 1069642003906 A new structural DNA glycosylase; Region: AlkD_like; cd06561 1069642003907 active site 1069642003908 rRNA methylases [Translation, ribosomal structure and biogenesis]; Region: SpoU; COG0566 1069642003909 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 1069642003910 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1069642003911 Transcriptional regulatory protein, C terminal; Region: Trans_reg_C; pfam00486 1069642003912 DNA binding site [nucleotide binding] 1069642003913 Predicted S-adenosylmethionine-dependent methyltransferase involved in bacterial cell division [Cell envelope biogenesis, outer membrane]; Region: GidB; COG0357 1069642003914 16S rRNA methyltransferase GidB; Reviewed; Region: gidB; cl17726 1069642003915 phenylalanyl-tRNA synthetase subunit alpha; Validated; Region: pheS; PRK00488 1069642003916 Aminoacyl tRNA synthetase class II, N-terminal domain; Region: Phe_tRNA-synt_N; pfam02912 1069642003917 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 1069642003918 dimer interface [polypeptide binding]; other site 1069642003919 motif 1; other site 1069642003920 active site 1069642003921 motif 2; other site 1069642003922 motif 3; other site 1069642003923 phenylalanyl-tRNA synthetase subunit beta; Reviewed; Region: pheT; PRK00629 1069642003924 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 1069642003925 putative tRNA-binding site [nucleotide binding]; other site 1069642003926 B3/4 domain; Region: B3_4; pfam03483 1069642003927 tRNA synthetase B5 domain; Region: B5; smart00874 1069642003928 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 1069642003929 dimer interface [polypeptide binding]; other site 1069642003930 motif 1; other site 1069642003931 motif 3; other site 1069642003932 motif 2; other site 1069642003933 Ferredoxin-fold anticodon binding domain; Region: FDX-ACB; pfam03147 1069642003934 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 1069642003935 IHF dimer interface [polypeptide binding]; other site 1069642003936 IHF - DNA interface [nucleotide binding]; other site 1069642003937 Helix-Turn-Helix DNA binding domain of putative MlrA-like transcription regulators; Region: HTH_MlrA-like_sg2; cd04765 1069642003938 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 1069642003939 DNA binding residues [nucleotide binding] 1069642003940 Chaperone of endosialidase; Region: Peptidase_S74; pfam13884 1069642003941 Cysteine-rich 4 helical bundle widely conserved in bacteria; Region: DUF326; cd08026 1069642003942 dimerization interface [polypeptide binding]; other site 1069642003943 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; cl00465 1069642003944 Domain of unknown function DUF20; Region: UPF0118; pfam01594 1069642003945 C1 Peptidase family (MEROPS database nomenclature), also referred to as the papain family; composed of two subfamilies of cysteine peptidases (CPs), C1A (papain) and C1B (bleomycin hydrolase). Papain-like enzymes are mostly endopeptidases with some...; Region: Peptidase_C1; cl00298 1069642003946 active site 1069642003947 Fatty acid cis/trans isomerase (CTI); Region: CTI; pfam06934 1069642003948 Phosphoglycerate mutase family; Region: PGAM; smart00855 1069642003949 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; cl11399 1069642003950 Etoposide-induced protein 2.4 (EI24); Region: EI24; pfam07264 1069642003951 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 1069642003952 metal binding site 2 [ion binding]; metal-binding site 1069642003953 putative DNA binding helix; other site 1069642003954 metal binding site 1 [ion binding]; metal-binding site 1069642003955 dimer interface [polypeptide binding]; other site 1069642003956 structural Zn2+ binding site [ion binding]; other site 1069642003957 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 1069642003958 PAS fold; Region: PAS_3; pfam08447 1069642003959 putative active site [active] 1069642003960 heme pocket [chemical binding]; other site 1069642003961 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 1069642003962 dimer interface [polypeptide binding]; other site 1069642003963 phosphorylation site [posttranslational modification] 1069642003964 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 1069642003965 ATP binding site [chemical binding]; other site 1069642003966 Mg2+ binding site [ion binding]; other site 1069642003967 G-X-G motif; other site 1069642003968 PBP superfamily domain; Region: PBP_like_2; cl17296 1069642003969 ABC-type phosphate transport system, permease component [Inorganic ion transport and metabolism]; Region: PstC; COG0573 1069642003970 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 1069642003971 dimer interface [polypeptide binding]; other site 1069642003972 conserved gate region; other site 1069642003973 putative PBP binding loops; other site 1069642003974 ABC-ATPase subunit interface; other site 1069642003975 ABC-type phosphate transport system, permease component [Inorganic ion transport and metabolism]; Region: PstA; COG0581 1069642003976 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 1069642003977 dimer interface [polypeptide binding]; other site 1069642003978 conserved gate region; other site 1069642003979 putative PBP binding loops; other site 1069642003980 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 1069642003981 ABC-ATPase subunit interface; other site 1069642003982 ABC-type phosphate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: PstB; COG1117 1069642003983 ATP-binding cassette domain of the phosphate transport system; Region: ABC_PstB_phosphate_transporter; cd03260 1069642003984 Walker A/P-loop; other site 1069642003985 ATP binding site [chemical binding]; other site 1069642003986 Q-loop/lid; other site 1069642003987 ABC transporter signature motif; other site 1069642003988 Walker B; other site 1069642003989 D-loop; other site 1069642003990 H-loop/switch region; other site 1069642003991 Catalytic NodB homology domain of the carbohydrate esterase 4 superfamily; Region: CE4_SF; cl15692 1069642003992 CDP-D-glucose 4,6-dehydratase, extended (e) SDRs; Region: CDP_GD_SDR_e; cd05252 1069642003993 CDP-glucose 4,6-dehydratase; Region: CDP_4_6_dhtase; TIGR02622 1069642003994 NAD binding site [chemical binding]; other site 1069642003995 homotetramer interface [polypeptide binding]; other site 1069642003996 homodimer interface [polypeptide binding]; other site 1069642003997 substrate binding site [chemical binding]; other site 1069642003998 active site 1069642003999 SNF2 family N-terminal domain; Region: SNF2_N; pfam00176 1069642004000 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 1069642004001 ATP binding site [chemical binding]; other site 1069642004002 putative Mg++ binding site [ion binding]; other site 1069642004003 Superfamily II DNA and RNA helicases [DNA replication, recombination, and repair / Transcription / Translation, ribosomal structure and biogenesis]; Region: SrmB; COG0513 1069642004004 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 1069642004005 nucleotide binding region [chemical binding]; other site 1069642004006 ATP-binding site [chemical binding]; other site 1069642004007 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 1069642004008 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 1069642004009 non-specific DNA binding site [nucleotide binding]; other site 1069642004010 salt bridge; other site 1069642004011 sequence-specific DNA binding site [nucleotide binding]; other site 1069642004012 Predicted membrane protein involved in D-alanine export [Cell envelope biogenesis, outer membrane]; Region: DltB; COG1696 1069642004013 Sulfatase; Region: Sulfatase; cl17466 1069642004014 Glycosyltransferase family 17; Region: Glyco_transf_17; pfam04724 1069642004015 Sulfatase; Region: Sulfatase; cl17466 1069642004016 O-Antigen ligase; Region: Wzy_C; pfam04932 1069642004017 Acyltransferase family; Region: Acyl_transf_3; pfam01757 1069642004018 carbamoyl phosphate synthase-like protein; Provisional; Region: PRK12767 1069642004019 ATP-grasp domain; Region: ATP-grasp_4; cl17255 1069642004020 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 1069642004021 extended (e) SDRs; Region: SDR_e; cd08946 1069642004022 NAD(P) binding site [chemical binding]; other site 1069642004023 active site 1069642004024 substrate binding site [chemical binding]; other site 1069642004025 undecaprenyl phosphate 4-deoxy-4-formamido-L-arabinose transferase; Provisional; Region: PRK10714 1069642004026 Bacterial DPM1_like enzymes are related to eukaryotic DPM1; Region: DPM1_like_bac; cd04187 1069642004027 Ligand binding site; other site 1069642004028 Putative Catalytic site; other site 1069642004029 DXD motif; other site 1069642004030 Vitamin K-dependent gamma-carboxylase; Region: VKG_Carbox; cl02773 1069642004031 UDP-N-acetyl-D-mannosaminuronate dehydrogenase [Cell envelope biogenesis, outer membrane]; Region: WecC; COG0677 1069642004032 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 1069642004033 UDP-glucose/GDP-mannose dehydrogenase family, UDP binding domain; Region: UDPG_MGDP_dh_C; pfam03720 1069642004034 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 1069642004035 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 1069642004036 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 1069642004037 imidazole glycerol phosphate synthase subunit HisH; Provisional; Region: hisH; PRK13181 1069642004038 Type 1 glutamine amidotransferase (GATase1) domain found in imidazole glycerol phosphate synthase (IGPS); Region: GATase1_IGP_Synthase; cd01748 1069642004039 putative active site [active] 1069642004040 oxyanion strand; other site 1069642004041 catalytic triad [active] 1069642004042 imidazole glycerol phosphate synthase subunit HisF; Provisional; Region: PRK01033 1069642004043 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 1069642004044 phosphate binding site [ion binding]; other site 1069642004045 Polysaccharide biosynthesis protein; Region: Polysacc_synt_3; pfam13440 1069642004046 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 1069642004047 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1069642004048 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_III; cd01996 1069642004049 Ligand Binding Site [chemical binding]; other site 1069642004050 tRNA(Ile)-lysidine synthase MesJ [Cell cycle control, cell division, chromosome partitioning]; Region: MesJ; COG0037 1069642004051 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_III; cd01996 1069642004052 Ligand Binding Site [chemical binding]; other site 1069642004053 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 1069642004054 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1069642004055 Bacterial sugar transferase; Region: Bac_transf; cl00939 1069642004056 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 1069642004057 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 1069642004058 inhibitor-cofactor binding pocket; inhibition site 1069642004059 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1069642004060 catalytic residue [active] 1069642004061 Predicted nucleoside-diphosphate sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG1086 1069642004062 Left-handed parallel beta-Helix (LbetaH or LbH) domain: The alignment contains 5 turns, each containing three imperfect tandem repeats of a hexapeptide repeat motif (X-[STAV]-X-[LIV]-[GAED]-X). Proteins containing hexapeptide repeats are often enzymes...; Region: LbetaH; cl00160 1069642004063 UDP-Glcnac (UDP-linked N-acetylglucosamine) inverting 4,6-dehydratase, extended (e) SDRs; Region: UDP_invert_4-6DH_SDR_e; cd05237 1069642004064 NAD(P) binding site [chemical binding]; other site 1069642004065 homodimer interface [polypeptide binding]; other site 1069642004066 substrate binding site [chemical binding]; other site 1069642004067 active site 1069642004068 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 1069642004069 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 1069642004070 inhibitor-cofactor binding pocket; inhibition site 1069642004071 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1069642004072 catalytic residue [active] 1069642004073 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 1069642004074 non-specific DNA binding site [nucleotide binding]; other site 1069642004075 salt bridge; other site 1069642004076 sequence-specific DNA binding site [nucleotide binding]; other site 1069642004077 HipA N-terminal domain; Region: Couple_hipA; pfam13657 1069642004078 Toxin module HipA, protein kinase of phosphatidylinositol 3/4-kinase superfamily [General function prediction only]; Region: HipA; COG3550 1069642004079 HipA-like N-terminal domain; Region: HipA_N; pfam07805 1069642004080 HipA-like C-terminal domain; Region: HipA_C; pfam07804 1069642004081 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 1069642004082 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 1069642004083 FMN binding site [chemical binding]; other site 1069642004084 substrate binding site [chemical binding]; other site 1069642004085 putative catalytic residue [active] 1069642004086 mobile mystery protein A; Region: mob_myst_A; TIGR02612 1069642004087 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 1069642004088 non-specific DNA binding site [nucleotide binding]; other site 1069642004089 salt bridge; other site 1069642004090 sequence-specific DNA binding site [nucleotide binding]; other site 1069642004091 mobile mystery protein B; Region: mob_myst_B; TIGR02613 1069642004092 Fic/DOC family; Region: Fic; pfam02661 1069642004093 Domain of unknown function found in archaea, bacteria, and plants; Region: DUF296; cd11378 1069642004094 trimer interface [polypeptide binding]; other site 1069642004095 putative Zn binding site [ion binding]; other site 1069642004096 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 1069642004097 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 1069642004098 dimer interface [polypeptide binding]; other site 1069642004099 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1069642004100 catalytic residue [active] 1069642004101 hypothetical protein; Provisional; Region: PRK05421 1069642004102 putative catalytic site [active] 1069642004103 putative phosphate binding site [ion binding]; other site 1069642004104 putative metal binding site [ion binding]; other site 1069642004105 Antitoxin of toxin-antitoxin stability system [Cell division and chromosome partitioning]; Region: Phd; COG4118 1069642004106 PIN domain of the VapC-like Sll0205 protein and homologs; Region: PIN_Sll0205; cd09872 1069642004107 putative active site [active] 1069642004108 Chaperone of endosialidase; Region: Peptidase_S74; pfam13884 1069642004109 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 1069642004110 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1069642004111 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 1069642004112 DNA binding residues [nucleotide binding] 1069642004113 H(+) -translocating inorganic pyrophosphatase; Region: PLN02255; cl11452 1069642004114 Inorganic H+ pyrophosphatase; Region: H_PPase; pfam03030 1069642004115 Uncharacterized protein family UPF0016; Region: UPF0016; pfam01169 1069642004116 Exopolysaccharide synthesis, ExoD; Region: ExoD; pfam06055 1069642004117 Cysteine rich repeat; Region: Cys_rich_FGFR; pfam00839 1069642004118 Cysteine rich repeat; Region: Cys_rich_FGFR; pfam00839 1069642004119 Escherichia coli YaeB and related proteins; Region: UPF0066; cd09281 1069642004120 homodimer interaction site [polypeptide binding]; other site 1069642004121 cofactor binding site; other site 1069642004122 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 1069642004123 methionyl-tRNA synthetase; Reviewed; Region: metG; PRK00133 1069642004124 catalytic core domain of methioninyl-tRNA synthetases; Region: MetRS_core; cd00814 1069642004125 active site 1069642004126 HIGH motif; other site 1069642004127 KMSKS motif; other site 1069642004128 Anticodon-binding domain of methionyl tRNA synthetases; Region: Anticodon_Ia_Met; cd07957 1069642004129 tRNA binding surface [nucleotide binding]; other site 1069642004130 anticodon binding site; other site 1069642004131 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 1069642004132 dimer interface [polypeptide binding]; other site 1069642004133 putative tRNA-binding site [nucleotide binding]; other site 1069642004134 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; cl00391 1069642004135 active site clefts [active] 1069642004136 zinc binding site [ion binding]; other site 1069642004137 dimer interface [polypeptide binding]; other site 1069642004138 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 1069642004139 PyridoxaL 5'-Phosphate Dependent Enzymes class IV (PLPDE_IV). This D-amino acid superfamily, one of five classes of PLPDE, consists of branched-chain amino acid aminotransferases (BCAT), D-amino acid transferases (DAAT), and...; Region: PLPDE_IV; cd00449 1069642004140 homodimer interface [polypeptide binding]; other site 1069642004141 substrate-cofactor binding pocket; other site 1069642004142 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1069642004143 catalytic residue [active] 1069642004144 rod shape-determining protein MreB; Provisional; Region: PRK13930 1069642004145 MreB and similar proteins; Region: MreB_like; cd10225 1069642004146 nucleotide binding site [chemical binding]; other site 1069642004147 Mg binding site [ion binding]; other site 1069642004148 putative protofilament interaction site [polypeptide binding]; other site 1069642004149 RodZ interaction site [polypeptide binding]; other site 1069642004150 UDP-glucose LOS-beta-1,4 glucosyltransferase is required for biosynthesis of lipooligosaccharide; Region: Beta4Glucosyltransferase; cd02511 1069642004151 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 1069642004152 putative metal binding site; other site 1069642004153 Zinc-dependent metalloprotease. This super-family of metalloproteases contains two major branches, the astacin-like proteases and the adamalysin/reprolysin-like proteases. Both branches have wide phylogenetic distribution, and contain sub-families, which...; Region: ZnMc; cl00064 1069642004154 Zinc-dependent metalloprotease. This super-family of metalloproteases contains two major branches, the astacin-like proteases and the adamalysin/reprolysin-like proteases. Both branches have wide phylogenetic distribution, and contain sub-families, which...; Region: ZnMc; cl00064 1069642004155 active site 1069642004156 active site 1069642004157 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 1069642004158 active site residue [active] 1069642004159 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 1069642004160 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 1069642004161 dimer interface [polypeptide binding]; other site 1069642004162 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1069642004163 catalytic residue [active] 1069642004164 Erythromycin esterase; Region: Erythro_esteras; pfam05139 1069642004165 N-terminal domain of Fpg (formamidopyrimidine-DNA glycosylase, MutM)_Nei (endonuclease VIII) base-excision repair DNA glycosylases; Region: FpgNei_N; cl03119 1069642004166 formamidopyrimidine-DNA glycosylase (fpg); Region: fpg; TIGR00577 1069642004167 DNA binding site [nucleotide binding] 1069642004168 catalytic residue [active] 1069642004169 H2TH interface [polypeptide binding]; other site 1069642004170 putative catalytic residues [active] 1069642004171 Formamidopyrimidine-DNA glycosylase H2TH domain; Region: H2TH; pfam06831 1069642004172 Predicted membrane protein [Function unknown]; Region: COG2323 1069642004173 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 1069642004174 Membrane transporters of cations and cationic drugs [Inorganic ion transport and metabolism]; Region: EmrE; COG2076 1069642004175 Phage Tail Collar Domain; Region: Collar; pfam07484 1069642004176 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 1069642004177 Predicted flavoprotein [General function prediction only]; Region: COG0431 1069642004178 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 1069642004179 Zn2+ binding site [ion binding]; other site 1069642004180 Mg2+ binding site [ion binding]; other site 1069642004181 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 1069642004182 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 1069642004183 homotrimer interaction site [polypeptide binding]; other site 1069642004184 putative active site [active] 1069642004185 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 1069642004186 putative active site [active] 1069642004187 Permease; Region: Permease; pfam02405 1069642004188 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 1069642004189 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1069642004190 Walker A/P-loop; other site 1069642004191 ATP binding site [chemical binding]; other site 1069642004192 Q-loop/lid; other site 1069642004193 ABC transporter signature motif; other site 1069642004194 Walker B; other site 1069642004195 D-loop; other site 1069642004196 H-loop/switch region; other site 1069642004197 virulence factor Mce family protein; Region: Mtu_fam_mce; TIGR00996 1069642004198 mce related protein; Region: MCE; pfam02470 1069642004199 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 1069642004200 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 1069642004201 substrate binding pocket [chemical binding]; other site 1069642004202 membrane-bound complex binding site; other site 1069642004203 hinge residues; other site 1069642004204 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 1069642004205 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 1069642004206 substrate binding pocket [chemical binding]; other site 1069642004207 membrane-bound complex binding site; other site 1069642004208 hinge residues; other site 1069642004209 ABC-type transport system, involved in lipoprotein release, permease component [Cell envelope biogenesis, outer membrane]; Region: LolE; COG4591 1069642004210 FtsX-like permease family; Region: FtsX; pfam02687 1069642004211 2,3,4,5-tetrahydropyridine-2,6-carboxylate N-succinyltransferase; Provisional; Region: dapD; PRK11830 1069642004212 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 1069642004213 trimer interface [polypeptide binding]; other site 1069642004214 active site 1069642004215 substrate binding site [chemical binding]; other site 1069642004216 CoA binding site [chemical binding]; other site 1069642004217 Peptidase M14-like domain of Escherichia coli Murein Peptide Amidase A and related proteins; Region: M14_MpaA_like; cd06904 1069642004218 putative active site [active] 1069642004219 Zn binding site [ion binding]; other site 1069642004220 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Diaminopimelate Decarboxylase; Region: PLPDE_III_DapDC; cd06828 1069642004221 Diaminopimelate decarboxylase [Amino acid transport and metabolism]; Region: LysA; COG0019 1069642004222 active site 1069642004223 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 1069642004224 substrate binding site [chemical binding]; other site 1069642004225 catalytic residues [active] 1069642004226 dimer interface [polypeptide binding]; other site 1069642004227 glutamate racemase; Provisional; Region: PRK00865 1069642004228 inosine 5-monophosphate dehydrogenase; Validated; Region: PRK06843 1069642004229 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 1069642004230 active site 1069642004231 triphenylmethane reductase (TMR)-like proteins, NMRa-like, atypical (a) SDRs; Region: TMR_SDR_a; cd05269 1069642004232 NADH(P)-binding; Region: NAD_binding_10; pfam13460 1069642004233 NADP binding site [chemical binding]; other site 1069642004234 Putative hydrophobic ligand-binding SRPBCC domain of Micromonospora echinospora CalC, human Aha1, and related proteins; Region: SRPBCC_CalC_Aha1-like; cd07814 1069642004235 putative hydrophobic ligand binding site [chemical binding]; other site 1069642004236 Zinc-dependent metalloprotease. This super-family of metalloproteases contains two major branches, the astacin-like proteases and the adamalysin/reprolysin-like proteases. Both branches have wide phylogenetic distribution, and contain sub-families, which...; Region: ZnMc; cl00064 1069642004237 active site 1069642004238 ABC-type amino acid transport/signal transduction systems, periplasmic component/domain [Amino acid transport and metabolism / Signal transduction mechanisms]; Region: HisJ; COG0834 1069642004239 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 1069642004240 substrate binding pocket [chemical binding]; other site 1069642004241 membrane-bound complex binding site; other site 1069642004242 hinge residues; other site 1069642004243 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 1069642004244 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 1069642004245 Ankyrin repeats (many copies); Region: Ank_4; pfam13637 1069642004246 Glutathione-dependent formaldehyde-activating enzyme; Region: GFA; pfam04828 1069642004247 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 1069642004248 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 1069642004249 active site 1069642004250 Protein of unknown function (DUF1524); Region: DUF1524; pfam07510 1069642004251 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 1069642004252 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 1069642004253 hypothetical protein; Validated; Region: PRK00029 1069642004254 Uncharacterized conserved protein [Function unknown]; Region: COG0397 1069642004255 MerC mercury resistance protein; Region: MerC; pfam03203 1069642004256 High potential iron-sulfur protein; Region: HIPIP; pfam01355 1069642004257 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK08974 1069642004258 Prokaryotic long-chain fatty acid CoA synthetases similar to Escherichia coli FadD; Region: FC-FACS_FadD_like; cd05936 1069642004259 acyl-activating enzyme (AAE) consensus motif; other site 1069642004260 putative AMP binding site [chemical binding]; other site 1069642004261 putative active site [active] 1069642004262 putative CoA binding site [chemical binding]; other site 1069642004263 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 1069642004264 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 1069642004265 catalytic triad [active] 1069642004266 heat shock protein 90; Provisional; Region: PRK05218 1069642004267 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 1069642004268 ATP binding site [chemical binding]; other site 1069642004269 Mg2+ binding site [ion binding]; other site 1069642004270 G-X-G motif; other site 1069642004271 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 1069642004272 active site 1069642004273 dimer interface [polypeptide binding]; other site 1069642004274 motif 1; other site 1069642004275 motif 2; other site 1069642004276 motif 3; other site 1069642004277 HGTP anticodon binding domain, as found at the C-terminus of histidyl, glycyl, threonyl and prolyl tRNA synthetases, which are classified as a group of class II aminoacyl-tRNA synthetases (aaRS). In aaRSs, the anticodon binding domain is responsible for...; Region: HGTP_anticodon; cl00266 1069642004278 anticodon binding site; other site 1069642004279 Domain of Unknown Function (DUF748); Region: DUF748; pfam05359 1069642004280 Tryptophan 2,3-dioxygenase; Region: Trp_dioxygenase; cl03994 1069642004281 Threonine aldolase [Amino acid transport and metabolism]; Region: GLY1; COG2008 1069642004282 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 1069642004283 tetramer interface [polypeptide binding]; other site 1069642004284 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1069642004285 catalytic residue [active] 1069642004286 agmatinase; Region: agmatinase; TIGR01230 1069642004287 Formimidoylglutamase or HutE; Region: Formimidoylglutamase; cd09988 1069642004288 putative active site [active] 1069642004289 putative metal binding site [ion binding]; other site 1069642004290 Uncharacterized protein conserved in bacteria (DUF2063); Region: DUF2063; cl01262 1069642004291 Chloride channel protein EriC [Inorganic ion transport and metabolism]; Region: EriC; COG0038 1069642004292 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 1069642004293 putative ion selectivity filter; other site 1069642004294 putative pore gating glutamate residue; other site 1069642004295 putative H+/Cl- coupling transport residue; other site 1069642004296 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 1069642004297 Zn2+ binding site [ion binding]; other site 1069642004298 Mg2+ binding site [ion binding]; other site 1069642004299 epoxyqueuosine reductase; Region: TIGR00276 1069642004300 Domain of unknown function (DUF1730); Region: DUF1730; pfam08331 1069642004301 tRNA nucleotidyltransferase/poly(A) polymerase [Translation, ribosomal structure and biogenesis]; Region: PcnB; COG0617 1069642004302 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 1069642004303 active site 1069642004304 NTP binding site [chemical binding]; other site 1069642004305 metal binding triad [ion binding]; metal-binding site 1069642004306 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 1069642004307 RDD family; Region: RDD; pfam06271 1069642004308 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 1069642004309 Zn2+ binding site [ion binding]; other site 1069642004310 Mg2+ binding site [ion binding]; other site 1069642004311 Predicted inhibitor of MCP methylation, homolog of CheC [Cell motility and secretion]; Region: COG1406 1069642004312 Chemotaxis phosphatase CheX; Region: CheX; pfam13690 1069642004313 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 1069642004314 active site 1069642004315 phosphorylation site [posttranslational modification] 1069642004316 intermolecular recognition site; other site 1069642004317 dimerization interface [polypeptide binding]; other site 1069642004318 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 1069642004319 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 1069642004320 DNA binding residues [nucleotide binding] 1069642004321 dimerization interface [polypeptide binding]; other site 1069642004322 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 1069642004323 PAS fold; Region: PAS_4; pfam08448 1069642004324 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 1069642004325 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 1069642004326 dimer interface [polypeptide binding]; other site 1069642004327 phosphorylation site [posttranslational modification] 1069642004328 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 1069642004329 ATP binding site [chemical binding]; other site 1069642004330 Mg2+ binding site [ion binding]; other site 1069642004331 G-X-G motif; other site 1069642004332 Response regulator receiver domain; Region: Response_reg; pfam00072 1069642004333 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 1069642004334 active site 1069642004335 phosphorylation site [posttranslational modification] 1069642004336 intermolecular recognition site; other site 1069642004337 dimerization interface [polypeptide binding]; other site 1069642004338 GTP-binding protein HflX; Region: GTP_HflX; TIGR03156 1069642004339 GTP-binding GTPase N-terminal; Region: GTP-bdg_N; pfam13167 1069642004340 HflX GTPase family; Region: HflX; cd01878 1069642004341 G1 box; other site 1069642004342 GTP/Mg2+ binding site [chemical binding]; other site 1069642004343 Switch I region; other site 1069642004344 G2 box; other site 1069642004345 G3 box; other site 1069642004346 Switch II region; other site 1069642004347 G4 box; other site 1069642004348 G5 box; other site 1069642004349 Chromate transport protein ChrA [Inorganic ion transport and metabolism]; Region: ChrA; COG2059 1069642004350 Chromate transporter; Region: Chromate_transp; pfam02417 1069642004351 bifunctional malic enzyme oxidoreductase/phosphotransacetylase; Reviewed; Region: PRK07232 1069642004352 Malic enzyme, N-terminal domain; Region: malic; pfam00390 1069642004353 NAD(P) binding domain of malic enzyme (ME), subgroup 2; Region: NAD_bind_2_malic_enz; cd05311 1069642004354 putative NAD(P) binding site [chemical binding]; other site 1069642004355 Phosphotransacetylase [Energy production and conversion]; Region: Pta; COG0280 1069642004356 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 1069642004357 acetyl-CoA acetyltransferases; Region: AcCoA-C-Actrans; TIGR01930 1069642004358 dimer interface [polypeptide binding]; other site 1069642004359 active site 1069642004360 multifunctional fatty acid oxidation complex subunit alpha; Reviewed; Region: fadJ; PRK11154 1069642004361 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 1069642004362 substrate binding site [chemical binding]; other site 1069642004363 oxyanion hole (OAH) forming residues; other site 1069642004364 trimer interface [polypeptide binding]; other site 1069642004365 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 1069642004366 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 1069642004367 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 1069642004368 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 1069642004369 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 1069642004370 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1069642004371 Coenzyme A binding pocket [chemical binding]; other site 1069642004372 Cysteine-rich CPXCG; Region: Cys_rich_CPXG; pfam14255 1069642004373 Dipeptide/tripeptide permease [Amino acid transport and metabolism]; Region: PTR2; COG3104 1069642004374 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 1069642004375 putative substrate translocation pore; other site 1069642004376 Zinc-dependent metalloprotease; MMP_like sub-family 2. A group of bacterial metalloproteinase domains similar to matrix metalloproteinases and astacin; Region: ZnMc_MMP_like_2; cd04276 1069642004377 active site 1069642004378 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 1069642004379 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 1069642004380 putative acyl-acceptor binding pocket; other site 1069642004381 Protein of unknown function (DUF962); Region: DUF962; pfam06127 1069642004382 Bacterial SH3 domain; Region: SH3_3; cl17532 1069642004383 3-hydroxybutyryl-CoA dehydrogenase; Validated; Region: PRK05808 1069642004384 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 1069642004385 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 1069642004386 3-hydroxybutyryl-CoA dehydratase; Validated; Region: PRK05809 1069642004387 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 1069642004388 substrate binding site [chemical binding]; other site 1069642004389 oxyanion hole (OAH) forming residues; other site 1069642004390 trimer interface [polypeptide binding]; other site 1069642004391 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 1069642004392 B12 binding site [chemical binding]; other site 1069642004393 cobalt ligand [ion binding]; other site 1069642004394 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 1069642004395 Coenzyme B12-dependent-methylmalonyl coenzyme A (CoA) mutase (MCM)-like family; contains proteins similar to MCM, and the large subunit of Streptomyces coenzyme B12-dependent isobutyryl-CoA mutase (ICM). MCM catalyzes the isomerization of...; Region: MM_CoA_mutase; cl00817 1069642004396 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 1069642004397 dimerization interface [polypeptide binding]; other site 1069642004398 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 1069642004399 dimer interface [polypeptide binding]; other site 1069642004400 phosphorylation site [posttranslational modification] 1069642004401 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 1069642004402 ATP binding site [chemical binding]; other site 1069642004403 Mg2+ binding site [ion binding]; other site 1069642004404 G-X-G motif; other site 1069642004405 Glutamate/Leucine/Phenylalanine/Valine dehydrogenase; Region: ELFV_dehydrog; pfam00208 1069642004406 Uncharacterized FAD-dependent dehydrogenases [General function prediction only]; Region: COG2509 1069642004407 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 1069642004408 Phosphatidylserine decarboxylase; Region: PS_Dcarbxylase; pfam02666 1069642004409 methyl indole-3-acetate methyltransferase; Region: PLN02211; cl17657 1069642004410 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 1069642004411 6-pyruvoyl tetrahydropterin synthase; Region: PTPS; pfam01242 1069642004412 active site 1069642004413 Tunnelling fold (T-fold). The five known T-folds are found in five different enzymes with different functions: dihydroneopterin-triphosphate epimerase (DHNTPE), dihydroneopterin aldolase (DHNA) , GTP cyclohydrolase I (GTPCH-1), 6-pyrovoyl...; Region: TFold; cl00263 1069642004414 FeoA domain; Region: FeoA; pfam04023 1069642004415 Fe2+ transport system protein B [Inorganic ion transport and metabolism]; Region: FeoB; COG0370 1069642004416 Ferrous iron transport protein B (FeoB) family; Region: FeoB; cd01879 1069642004417 G1 box; other site 1069642004418 GTP/Mg2+ binding site [chemical binding]; other site 1069642004419 Switch I region; other site 1069642004420 G2 box; other site 1069642004421 G3 box; other site 1069642004422 Switch II region; other site 1069642004423 G4 box; other site 1069642004424 G5 box; other site 1069642004425 Nucleoside recognition; Region: Gate; pfam07670 1069642004426 Ferrous iron transport protein B C terminus; Region: FeoB_C; pfam07664 1069642004427 Nucleoside recognition; Region: Gate; pfam07670 1069642004428 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1069642004429 This family is most closely related to the GT1 family of glycosyltransferases and named after YqgM in Bacillus licheniformis about which little is known. Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to...; Region: GT1_YqgM_like; cd03801 1069642004430 dTDP-D-glucose 4,6-dehydratase, extended (e) SDRs; Region: dTDP_GD_SDR_e; cd05246 1069642004431 dTDP-D-glucose 4,6-dehydratase [Cell envelope biogenesis, outer membrane]; Region: RfbB; COG1088 1069642004432 NAD binding site [chemical binding]; other site 1069642004433 substrate binding site [chemical binding]; other site 1069642004434 homodimer interface [polypeptide binding]; other site 1069642004435 active site 1069642004436 G1P_TT_short is the short form of glucose-1-phosphate thymidylyltransferase; Region: G1P_TT_short; cd02538 1069642004437 glucose-1-phosphate thymidylyltransferase, short form; Region: rmlA; TIGR01207 1069642004438 substrate binding site; other site 1069642004439 tetramer interface; other site 1069642004440 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 1069642004441 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 1069642004442 inhibitor-cofactor binding pocket; inhibition site 1069642004443 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1069642004444 catalytic residue [active] 1069642004445 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1069642004446 dimer interface [polypeptide binding]; other site 1069642004447 putative CheW interface [polypeptide binding]; other site 1069642004448 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1069642004449 HlyD family secretion protein; Region: HlyD_3; pfam13437 1069642004450 ABC-type Mn/Zn transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: ZnuC; COG1121 1069642004451 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 1069642004452 Walker A/P-loop; other site 1069642004453 ATP binding site [chemical binding]; other site 1069642004454 Q-loop/lid; other site 1069642004455 ABC transporter signature motif; other site 1069642004456 Walker B; other site 1069642004457 D-loop; other site 1069642004458 H-loop/switch region; other site 1069642004459 ABC-type Na+ transport system, ATPase component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatA; COG4555 1069642004460 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 1069642004461 Walker A/P-loop; other site 1069642004462 ATP binding site [chemical binding]; other site 1069642004463 Q-loop/lid; other site 1069642004464 ABC transporter signature motif; other site 1069642004465 Walker B; other site 1069642004466 D-loop; other site 1069642004467 H-loop/switch region; other site 1069642004468 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 1069642004469 ABC-2 family transporter protein; Region: ABC2_membrane_2; pfam12679 1069642004470 ABC-type Na+ efflux pump, permease component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatB; COG1668 1069642004471 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 1069642004472 Escherichia coli PhnB and similar proteins; the E. coli phnB gene is found next to an operon involved in the cleavage of carbon-phosphorus bonds in unactivated alkylphosphonates; Region: PhnB_like; cd06588 1069642004473 dimer interface [polypeptide binding]; other site 1069642004474 TIGR02147 family protein; Region: Fsuc_second 1069642004475 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 1069642004476 non-specific DNA binding site [nucleotide binding]; other site 1069642004477 salt bridge; other site 1069642004478 sequence-specific DNA binding site [nucleotide binding]; other site 1069642004479 Sodium:sulfate symporter transmembrane region; Region: Na_sulph_symp; pfam00939 1069642004480 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 1069642004481 transmembrane helices; other site 1069642004482 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 1069642004483 GAF domain; Region: GAF; pfam01590 1069642004484 Transcriptional regulators containing an AAA-type ATPase domain and a DNA-binding domain [Transcription / Signal transduction mechanisms]; Region: PspF; COG1221 1069642004485 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 1069642004486 Walker A motif; other site 1069642004487 ATP binding site [chemical binding]; other site 1069642004488 Walker B motif; other site 1069642004489 arginine finger; other site 1069642004490 Bacterial regulatory protein, Fis family; Region: HTH_8; cl17420 1069642004491 Domain of unknown function (DUF4423); Region: DUF4423; pfam14394 1069642004492 PAS domain; Region: PAS_9; pfam13426 1069642004493 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 1069642004494 putative active site [active] 1069642004495 heme pocket [chemical binding]; other site 1069642004496 PAS domain; Region: PAS_9; pfam13426 1069642004497 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1069642004498 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 1069642004499 active site 1069642004500 phosphorylation site [posttranslational modification] 1069642004501 intermolecular recognition site; other site 1069642004502 dimerization interface [polypeptide binding]; other site 1069642004503 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 1069642004504 DNA binding site [nucleotide binding] 1069642004505 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 1069642004506 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 1069642004507 Putative flagellar system-associated repeat; Region: SWM_repeat; pfam13753 1069642004508 Domain of unknown function (DUF4423); Region: DUF4423; pfam14394 1069642004509 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 1069642004510 TIGR02147 family protein; Region: Fsuc_second 1069642004511 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 1069642004512 Flavin containing amine oxidoreductase; Region: Amino_oxidase; pfam01593 1069642004513 Hemerythrin-like domain; Region: Hr-like; cd12108 1069642004514 Fe binding site [ion binding]; other site 1069642004515 Terminase small subunit; Region: Terminase_2; cl01513 1069642004516 amino acid transporter; Region: 2A0306; TIGR00909 1069642004517 Type VI secretion lipoprotein; Region: T6SS-SciN; cl01405 1069642004518 Antibiotic biosynthesis monooxygenase; Region: ABM; cl10022 1069642004519 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 1069642004520 nucleoside/Zn binding site; other site 1069642004521 dimer interface [polypeptide binding]; other site 1069642004522 catalytic motif [active] 1069642004523 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 1069642004524 MarR family; Region: MarR; pfam01047 1069642004525 type I secretion outer membrane protein, TolC family; Region: type_I_sec_TolC; TIGR01844 1069642004526 Multidrug resistance efflux pump [Defense mechanisms]; Region: EmrA; COG1566 1069642004527 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1069642004528 Membrane fusogenic activity; Region: BMFP; cl01115 1069642004529 HlyD family secretion protein; Region: HlyD_3; pfam13437 1069642004530 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 1069642004531 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 1069642004532 putative substrate translocation pore; other site 1069642004533 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 1069642004534 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 1069642004535 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 1069642004536 active site 1069642004537 Bacterial fructose-1,6-bisphosphatase, glpX-encoded; Region: FBPase_glpX; pfam03320 1069642004538 Bacterial fructose-1,6-bisphosphatase, glpX-encoded. A dimeric enzyme dependent on Mg(2+). glpX-encoded FPBase (FBPase class II) differs from other members of the inositol-phosphatase superfamily by permutation of secondary structure elements. The core...; Region: FBPase_glpX; cd01516 1069642004539 putative active site [active] 1069642004540 Alpha-tubulin suppressor and related RCC1 domain-containing proteins [Cell division and chromosome partitioning / Cytoskeleton]; Region: ATS1; COG5184 1069642004541 Alpha-tubulin suppressor and related RCC1 domain-containing proteins [Cell division and chromosome partitioning / Cytoskeleton]; Region: ATS1; COG5184 1069642004542 Regulator of chromosome condensation (RCC1) repeat; Region: RCC1; pfam00415 1069642004543 Regulator of chromosome condensation (RCC1) repeat; Region: RCC1; pfam00415 1069642004544 Regulator of chromosome condensation (RCC1) repeat; Region: RCC1_2; pfam13540 1069642004545 START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC (SRPBCC) ligand-binding domain superfamily; Region: SRPBCC; cl14643 1069642004546 hydrophobic ligand binding site; other site 1069642004547 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 1069642004548 Mycobacterium tuberculosis succinate-semialdehyde dehydrogenase 1-like; Region: ALDH_SSADH1_GabD1; cd07100 1069642004549 NAD(P) binding site [chemical binding]; other site 1069642004550 catalytic residues [active] 1069642004551 tRNA(Ile)-lysidine synthase MesJ [Cell cycle control, cell division, chromosome partitioning]; Region: MesJ; COG0037 1069642004552 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 1069642004553 Ligand Binding Site [chemical binding]; other site 1069642004554 FtsH Extracellular; Region: FtsH_ext; pfam06480 1069642004555 ATP-dependent metalloprotease FtsH; Region: FtsH_fam; TIGR01241 1069642004556 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 1069642004557 Walker A motif; other site 1069642004558 ATP binding site [chemical binding]; other site 1069642004559 Walker B motif; other site 1069642004560 arginine finger; other site 1069642004561 Peptidase family M41; Region: Peptidase_M41; pfam01434 1069642004562 TIGR00159 family protein; Region: TIGR00159 1069642004563 DisA bacterial checkpoint controller nucleotide-binding; Region: DisA_N; pfam02457 1069642004564 phosphoglucosamine mutase; Provisional; Region: glmM; PRK14314 1069642004565 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 1069642004566 active site 1069642004567 substrate binding site [chemical binding]; other site 1069642004568 metal binding site [ion binding]; metal-binding site 1069642004569 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 1069642004570 active site 1069642004571 hydrophilic channel; other site 1069642004572 dimerization interface [polypeptide binding]; other site 1069642004573 catalytic residues [active] 1069642004574 active site lid [active] 1069642004575 Uncharacterized P-loop hydrolase UPF0079; Region: UPF0079; cl00520 1069642004576 Staphylococcal nuclease homologues; Region: SNc; smart00318 1069642004577 Staphylococcal nuclease homologues. SNase homologues are found in bacteria, archaea, and eukaryotes. They contain no disufide bonds; Region: SNc; cl00140 1069642004578 Catalytic site; other site 1069642004579 Protein-arginine deiminase (PAD); Region: PAD; pfam03068 1069642004580 cysteine desulfurase NifS; Region: FeS_nifS; TIGR03402 1069642004581 Cysteine sulfinate desulfinase/cysteine desulfurase and related enzymes [Amino acid transport and metabolism]; Region: NifS; COG1104 1069642004582 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1069642004583 catalytic residue [active] 1069642004584 tRNA methyl transferase; Region: tRNA_Me_trans; pfam03054 1069642004585 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 1069642004586 Ligand Binding Site [chemical binding]; other site 1069642004587 2-methylthioadenine synthetase [Translation, ribosomal structure and biogenesis]; Region: MiaB; COG0621 1069642004588 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 1069642004589 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 1069642004590 FeS/SAM binding site; other site 1069642004591 ribonuclease III; Reviewed; Region: rnc; PRK00102 1069642004592 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 1069642004593 dimerization interface [polypeptide binding]; other site 1069642004594 active site 1069642004595 metal binding site [ion binding]; metal-binding site 1069642004596 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 1069642004597 dsRNA binding site [nucleotide binding]; other site 1069642004598 GTPase Era; Reviewed; Region: era; PRK00089 1069642004599 E. coli Ras-like protein (Era) is a multifunctional GTPase; Region: Era; cd04163 1069642004600 G1 box; other site 1069642004601 GTP/Mg2+ binding site [chemical binding]; other site 1069642004602 Switch I region; other site 1069642004603 G2 box; other site 1069642004604 Switch II region; other site 1069642004605 G3 box; other site 1069642004606 G4 box; other site 1069642004607 G5 box; other site 1069642004608 KH domain; Region: KH_2; pfam07650 1069642004609 ribosome-associated GTPase EngA; Region: GTPase_EngA; TIGR03594 1069642004610 EngA1 GTPase contains the first domain of EngA; Region: EngA1; cd01894 1069642004611 G1 box; other site 1069642004612 GTP/Mg2+ binding site [chemical binding]; other site 1069642004613 Switch I region; other site 1069642004614 G2 box; other site 1069642004615 Switch II region; other site 1069642004616 G3 box; other site 1069642004617 G4 box; other site 1069642004618 G5 box; other site 1069642004619 EngA2 GTPase contains the second domain of EngA; Region: EngA2; cd01895 1069642004620 G1 box; other site 1069642004621 GTP/Mg2+ binding site [chemical binding]; other site 1069642004622 Switch I region; other site 1069642004623 G2 box; other site 1069642004624 G3 box; other site 1069642004625 Switch II region; other site 1069642004626 G4 box; other site 1069642004627 G5 box; other site 1069642004628 solute carrier 6 subfamily, Fusobacterium nucleatum Tyt1-like; solute-binding domain; Region: SLC6sbd_Tyt1-Like; cd10336 1069642004629 Na2 binding site [ion binding]; other site 1069642004630 putative substrate binding site 1 [chemical binding]; other site 1069642004631 Na binding site 1 [ion binding]; other site 1069642004632 putative substrate binding site 2 [chemical binding]; other site 1069642004633 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 1069642004634 catalytic residues [active] 1069642004635 dimer interface [polypeptide binding]; other site 1069642004636 adenylosuccinate lyase; Provisional; Region: PRK07492 1069642004637 Adenylsuccinate lyase (ASL)_subgroup 1; Region: Adenylsuccinate_lyase_1; cd01360 1069642004638 tetramer interface [polypeptide binding]; other site 1069642004639 active site 1069642004640 Adenylosuccinate lyase C-terminus; Region: ADSL_C; smart00998 1069642004641 LD-Carboxypeptidase, a serine protease, includes microcin C7 self immunity protein; Region: Peptidase_S66; cd07025 1069642004642 dimer interface [polypeptide binding]; other site 1069642004643 catalytic triad [active] 1069642004644 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 1069642004645 Beta-lactamase; Region: Beta-lactamase; pfam00144 1069642004646 UDP-N-acetylmuramate-alanine ligase [Cell envelope biogenesis, outer membrane]; Region: MurC; COG0773 1069642004647 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 1069642004648 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 1069642004649 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 1069642004650 DNA mismatch repair protein MutS; Provisional; Region: PRK05399 1069642004651 MutS domain I; Region: MutS_I; pfam01624 1069642004652 MutS domain III; Region: MutS_III; pfam05192 1069642004653 MutS domain V; Region: MutS_V; pfam00488 1069642004654 Walker A/P-loop; other site 1069642004655 ATP binding site [chemical binding]; other site 1069642004656 Q-loop/lid; other site 1069642004657 ABC transporter signature motif; other site 1069642004658 Walker B; other site 1069642004659 D-loop; other site 1069642004660 H-loop/switch region; other site 1069642004661 [Protein-PII] uridylyltransferase; Region: UTase_glnD; TIGR01693 1069642004662 RelA- and SpoT-like ppGpp Synthetases and Hydrolases, catalytic domain; Region: Rel-Spo_like; cl11966 1069642004663 metal binding triad [ion binding]; metal-binding site 1069642004664 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 1069642004665 HD domain; Region: HD; pfam01966 1069642004666 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 1069642004667 ACT domains of the bacterial signal-transducing uridylyltransferase /uridylyl-removing (UUR) enzyme, GlnD; Region: ACT_UUR-ACR-like; cd04873 1069642004668 Uncharacterized conserved protein (DUF2183); Region: DUF2183; pfam09949 1069642004669 Cysteine desulfurase SufE subunit [Posttranslational modification, protein turnover, chaperones]; Region: sufE; COG2166 1069642004670 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 1069642004671 active site 1069642004672 hypothetical protein; Provisional; Region: PRK12378 1069642004673 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cd00657 1069642004674 dinuclear metal binding motif [ion binding]; other site 1069642004675 Uncharacterized protein conserved in bacteria (DUF2219); Region: DUF2219; pfam09982 1069642004676 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 1069642004677 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 1069642004678 RNA binding surface [nucleotide binding]; other site 1069642004679 Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi); Region: PseudoU_synth; cl00130 1069642004680 active site 1069642004681 6-pyruvoyl tetrahydropterin synthase; Region: PTPS; pfam01242 1069642004682 active site 1069642004683 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK07231 1069642004684 classical (c) SDRs; Region: SDR_c; cd05233 1069642004685 NAD(P) binding site [chemical binding]; other site 1069642004686 active site 1069642004687 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 1069642004688 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 1069642004689 ligand binding site [chemical binding]; other site 1069642004690 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 1069642004691 The substrate-binding component of an ABC-type oligopetide import system contains the type 2 periplasmic binding fold; Region: PBP2_OppA; cd08504 1069642004692 peptide binding site [polypeptide binding]; other site 1069642004693 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 1069642004694 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 1069642004695 Short chain acyl-CoA dehydrogenases and eukaryotic short/branched chain acyl-CoA dehydrogenases; Region: SCAD_SBCAD; cd01158 1069642004696 FAD binding site [chemical binding]; other site 1069642004697 homotetramer interface [polypeptide binding]; other site 1069642004698 substrate binding pocket [chemical binding]; other site 1069642004699 catalytic base [active] 1069642004700 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 1069642004701 Peptidase family M50; Region: Peptidase_M50; pfam02163 1069642004702 active site 1069642004703 putative substrate binding region [chemical binding]; other site 1069642004704 ScpA/B protein; Region: ScpA_ScpB; cl00598 1069642004705 Putative transcriptional regulators (Ypuh-like); Region: DUF387; pfam04079 1069642004706 Vitamin K-dependent gamma-carboxylase; Region: VKG_Carbox; cl02773 1069642004707 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 1069642004708 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 1069642004709 catalytic residues [active] 1069642004710 Ribonucleotide Reductase, R2/beta subunit, ferritin-like diiron-binding domain; Region: RNRR2; cd01049 1069642004711 dimer interface [polypeptide binding]; other site 1069642004712 putative radical transfer pathway; other site 1069642004713 diiron center [ion binding]; other site 1069642004714 tyrosyl radical; other site 1069642004715 ribonucleoside--diphosphate reductase large subunit; Region: PLN02437 1069642004716 ATP cone domain; Region: ATP-cone; pfam03477 1069642004717 Class I ribonucleotide reductase; Region: RNR_I; cd01679 1069642004718 active site 1069642004719 dimer interface [polypeptide binding]; other site 1069642004720 catalytic residues [active] 1069642004721 effector binding site; other site 1069642004722 R2 peptide binding site; other site 1069642004723 Predicted Fe-S oxidoreductase [General function prediction only]; Region: COG1242 1069642004724 S-adenosyl-L-methionine-dependent methyltransferase; Region: Methyltransf_30; cl17711 1069642004725 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 1069642004726 substrate binding pocket [chemical binding]; other site 1069642004727 membrane-bound complex binding site; other site 1069642004728 hinge residues; other site 1069642004729 The Ntn hydrolases (N-terminal nucleophile) are a diverse superfamily of of enzymes that are activated autocatalytically via an N-terminally lcated nucleophilic amino acid. N-terminal nucleophile (NTN-) hydrolase superfamily, which contains a...; Region: Ntn_hydrolase; cl00467 1069642004730 active site 1069642004731 Acyl-coenzyme A:6-aminopenicillanic acid acyl-transferase; Region: AAT; pfam03417 1069642004732 GH3 auxin-responsive promoter; Region: GH3; pfam03321 1069642004733 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1069642004734 Predicted exporters of the RND superfamily [General function prediction only]; Region: COG1033 1069642004735 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 1069642004736 Protein of unknown function (DUF1329); Region: DUF1329; pfam07044 1069642004737 PilZ domain; Region: PilZ; pfam07238 1069642004738 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 1069642004739 Predicted flavoprotein [General function prediction only]; Region: COG0431 1069642004740 potassium uptake protein; Region: kup; TIGR00794 1069642004741 K+ transporter [Inorganic ion transport and metabolism]; Region: Kup; COG3158 1069642004742 Hypothetical patatin similar to Z1214 protein of Escherichia coli; Region: Pat_hypo_Ecoli_Z1214_like; cd07209 1069642004743 nucleophile elbow; other site 1069642004744 YceI-like domain; Region: YceI; pfam04264 1069642004745 Bestrophin, RFP-TM, chloride channel; Region: Bestrophin; pfam01062 1069642004746 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 1069642004747 Peptidase family M23; Region: Peptidase_M23; pfam01551 1069642004748 serine hydroxymethyltransferase; Reviewed; Region: glyA; PRK00011 1069642004749 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 1069642004750 dimer interface [polypeptide binding]; other site 1069642004751 active site 1069642004752 glycine-pyridoxal phosphate binding site [chemical binding]; other site 1069642004753 folate binding site [chemical binding]; other site 1069642004754 Ribose/Galactose Isomerase; Region: LacAB_rpiB; pfam02502 1069642004755 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 1069642004756 beta-ketoacyl-acyl-carrier-protein synthase II; Region: fabF; TIGR03150 1069642004757 dimer interface [polypeptide binding]; other site 1069642004758 active site 1069642004759 acyl carrier protein; Provisional; Region: acpP; PRK00982 1069642004760 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 1069642004761 3-oxoacyl-(acyl-carrier-protein) reductase; Region: 3oxo_ACP_reduc; TIGR01830 1069642004762 NAD(P) binding site [chemical binding]; other site 1069642004763 homotetramer interface [polypeptide binding]; other site 1069642004764 homodimer interface [polypeptide binding]; other site 1069642004765 active site 1069642004766 (acyl-carrier-protein) S-malonyltransferase [Lipid metabolism]; Region: FabD; COG0331 1069642004767 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 1069642004768 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK09352 1069642004769 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 1069642004770 dimer interface [polypeptide binding]; other site 1069642004771 active site 1069642004772 CoA binding pocket [chemical binding]; other site 1069642004773 50S ribosomal protein L32; Validated; Region: rpmF; PRK01110 1069642004774 Uncharacterized ACR, COG1399; Region: DUF177; pfam02620 1069642004775 3-oxoadipate enol-lactonase; Region: protocat_pcaD; TIGR02427 1069642004776 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 1069642004777 Alcaligenes xylosoxidans NreA and related domains; this domain family was previously known as part of DUF156; Region: NreA-like_DUF156; cd10154 1069642004778 putative homodimer interface [polypeptide binding]; other site 1069642004779 putative homotetramer interface [polypeptide binding]; other site 1069642004780 putative metal binding site [ion binding]; other site 1069642004781 putative homodimer-homodimer interface [polypeptide binding]; other site 1069642004782 putative allosteric switch controlling residues; other site 1069642004783 Ferroportin1 (FPN1); Region: FPN1; pfam06963 1069642004784 H+ Antiporter protein; Region: 2A0121; TIGR00900 1069642004785 NMT1/THI5 like; Region: NMT1; pfam09084 1069642004786 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 1069642004787 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 1069642004788 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 1069642004789 dimer interface [polypeptide binding]; other site 1069642004790 conserved gate region; other site 1069642004791 putative PBP binding loops; other site 1069642004792 ABC-ATPase subunit interface; other site 1069642004793 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 1069642004794 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 1069642004795 Walker A/P-loop; other site 1069642004796 ATP binding site [chemical binding]; other site 1069642004797 Q-loop/lid; other site 1069642004798 ABC transporter signature motif; other site 1069642004799 Walker B; other site 1069642004800 D-loop; other site 1069642004801 H-loop/switch region; other site 1069642004802 conserved hypothetical protein; Region: TIGR02466 1069642004803 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 1069642004804 active site 1069642004805 catalytic residues [active] 1069642004806 DNA binding site [nucleotide binding] 1069642004807 Int/Topo IB signature motif; other site 1069642004808 Arginyl-tRNA synthetase [Translation, ribosomal structure and biogenesis]; Region: ArgS; COG0018 1069642004809 Arginyl tRNA synthetase N terminal dom; Region: Arg_tRNA_synt_N; smart01016 1069642004810 catalytic core domain of arginyl-tRNA synthetases; Region: ArgRS_core; cd00671 1069642004811 active site 1069642004812 HIGH motif; other site 1069642004813 KMSK motif region; other site 1069642004814 Anticodon-binding domain of arginyl tRNA synthetases; Region: Anticodon_Ia_Arg; cd07956 1069642004815 tRNA binding surface [nucleotide binding]; other site 1069642004816 anticodon binding site; other site 1069642004817 Glu/Leu/Phe/Val dehydrogenase, dimerisation domain; Region: ELFV_dehydrog_N; pfam02812 1069642004818 Glutamate/Leucine/Phenylalanine/Valine dehydrogenase; Region: ELFV_dehydrog; pfam00208 1069642004819 NAD(P) binding domain of leucine dehydrogenase, phenylalanine dehydrogenase, and valine dehydrogenase; Region: NAD_bind_Leu_Phe_Val_DH; cd01075 1069642004820 NAD binding site [chemical binding]; other site 1069642004821 Phe binding site; other site 1069642004822 PQQ-dependent dehydrogenases and related proteins; Region: PQQ_DH_like; cl11493 1069642004823 Trp docking motif [polypeptide binding]; other site 1069642004824 active site 1069642004825 PQQ-like domain; Region: PQQ_2; pfam13360 1069642004826 Fic/DOC family; Region: Fic; pfam02661 1069642004827 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 1069642004828 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 1069642004829 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1069642004830 catalytic residue [active] 1069642004831 Domain of unknown function (DUF1768); Region: DUF1768; cl01271 1069642004832 Predicted exonuclease of the beta-lactamase fold involved in RNA processing [Translation, ribosomal structure and biogenesis]; Region: YSH1; COG1236 1069642004833 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 1069642004834 Beta-Casp domain; Region: Beta-Casp; smart01027 1069642004835 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 1069642004836 Bleomycin binding protein (BLMA) and similar proteins; BLMA confers bleomycin (Bm) resistance by directly binding to Bm; Region: BLMA_like; cd08349 1069642004837 dimer interface [polypeptide binding]; other site 1069642004838 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 1069642004839 ligand binding site [chemical binding]; other site 1069642004840 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 1069642004841 active site 1069642004842 motif I; other site 1069642004843 motif II; other site 1069642004844 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 1069642004845 D-alanyl-D-alanine carboxypeptidase; Region: Peptidase_S11; pfam00768 1069642004846 Phosphotransferase enzyme family; Region: APH; pfam01636 1069642004847 Aminoglycoside 3'-phosphotransferase (APH) and Choline Kinase (ChoK) family. The APH/ChoK family is part of a larger superfamily that includes the catalytic domains of other kinases, such as the typical serine/threonine/tyrosine protein kinases (PKs)...; Region: APH_ChoK_like; cl17270 1069642004848 active site 1069642004849 substrate binding site [chemical binding]; other site 1069642004850 ATP binding site [chemical binding]; other site 1069642004851 Predicted RNA-binding protein (contains KH domain) [General function prediction only]; Region: COG1837 1069642004852 KH domain; Region: KH_4; pfam13083 1069642004853 Putative esterase; Region: Esterase; pfam00756 1069642004854 Predicted hydrolase of the alpha/beta superfamily [General function prediction only]; Region: COG2819 1069642004855 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 1069642004856 tol-pal system beta propeller repeat protein TolB; Region: propeller_TolB; TIGR02800 1069642004857 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 1069642004858 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 1069642004859 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 1069642004860 Zinc peptidases M18, M20, M28, and M42; Region: Zinc_peptidase_like; cl14876 1069642004861 PA: Protease-associated (PA) domain. The PA domain is an insert domain in a diverse fraction of proteases. The significance of the PA domain to many of the proteins in which it is inserted is undetermined. It may be a protein-protein interaction domain; Region: PA; cl08238 1069642004862 PA/protease or protease-like domain interface [polypeptide binding]; other site 1069642004863 M28 Zn-Peptidases containing a PA domain insert and associated with a PDZ domain; Region: M28_like_PA_PDZ_associated; cd05663 1069642004864 Peptidase family M28; Region: Peptidase_M28; pfam04389 1069642004865 metal binding site [ion binding]; metal-binding site 1069642004866 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 1069642004867 tRNA (Uracil-5-)-methyltransferase; Region: tRNA_U5-meth_tr; pfam05958 1069642004868 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 1069642004869 S-adenosylmethionine binding site [chemical binding]; other site 1069642004870 PilZ domain; Region: PilZ; pfam07238 1069642004871 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 1069642004872 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 1069642004873 Mechanosensitive ion channel; Region: MS_channel; pfam00924 1069642004874 tRNA 2-thiocytidine biosynthesis protein TtcA; Provisional; Region: PRK10696 1069642004875 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 1069642004876 Ligand Binding Site [chemical binding]; other site 1069642004877 Reeler-like domain of YcnI and similar proteins; Region: YcnI_like; cd08545 1069642004878 GSH-dependent disulfide bond oxidoreductase; Provisional; Region: PRK13972 1069642004879 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 1069642004880 C-terminal domain interface [polypeptide binding]; other site 1069642004881 GSH binding site (G-site) [chemical binding]; other site 1069642004882 dimer interface [polypeptide binding]; other site 1069642004883 C-terminal, alpha helical domain of Ure2p and related Glutathione S-transferase-like proteins; Region: GST_C_Ure2p_like; cd03178 1069642004884 dimer interface [polypeptide binding]; other site 1069642004885 N-terminal domain interface [polypeptide binding]; other site 1069642004886 Peptidase family M48; Region: Peptidase_M48; pfam01435 1069642004887 acetyl-CoA acetyltransferase; Provisional; Region: PRK09268 1069642004888 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 1069642004889 dimer interface [polypeptide binding]; other site 1069642004890 active site 1069642004891 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1069642004892 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1069642004893 Domain of unknown function (DUF4105); Region: DUF4105; pfam13387 1069642004894 luciferase family oxidoreductase, group 1; Region: oxido_grp_1; TIGR03558 1069642004895 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 1069642004896 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 1069642004897 ligand binding site [chemical binding]; other site 1069642004898 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 1069642004899 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 1069642004900 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 1069642004901 substrate binding pocket [chemical binding]; other site 1069642004902 membrane-bound complex binding site; other site 1069642004903 hinge residues; other site 1069642004904 DNA polymerase III subunit alpha; Validated; Region: dnaE; PRK05673 1069642004905 Polymerase and Histidinol Phosphatase domain; Region: PHP; cl17102 1069642004906 active site 1069642004907 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 1069642004908 generic binding surface II; other site 1069642004909 generic binding surface I; other site 1069642004910 adenylosuccinate synthase; Region: purA; TIGR00184 1069642004911 GMP synthase; Reviewed; Region: guaA; PRK00074 1069642004912 Type 1 glutamine amidotransferase (GATase1) domain found in GMP synthetase; Region: GATase1_GMP_Synthase; cd01742 1069642004913 AMP/PPi binding site [chemical binding]; other site 1069642004914 candidate oxyanion hole; other site 1069642004915 catalytic triad [active] 1069642004916 potential glutamine specificity residues [chemical binding]; other site 1069642004917 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 1069642004918 ATP Binding subdomain [chemical binding]; other site 1069642004919 Ligand Binding sites [chemical binding]; other site 1069642004920 Dimerization subdomain; other site 1069642004921 inosine 5'-monophosphate dehydrogenase; Reviewed; Region: PRK05567 1069642004922 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 1069642004923 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 1069642004924 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 1069642004925 active site 1069642004926 Carbonic anhydrases/acetyltransferases, isoleucine patch superfamily [General function prediction only]; Region: PaaY; COG0663 1069642004927 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 1069642004928 trimer interface [polypeptide binding]; other site 1069642004929 putative metal binding site [ion binding]; other site 1069642004930 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: RssA; COG1752 1069642004931 Hypothetical patatin similar to Z1214 protein of Escherichia coli; Region: Pat_hypo_Ecoli_Z1214_like; cd07209 1069642004932 active site 1069642004933 nucleophile elbow; other site 1069642004934 Sodium/hydrogen exchanger family; Region: Na_H_Exchanger; pfam00999 1069642004935 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; COG0475 1069642004936 TrkA-C domain; Region: TrkA_C; pfam02080 1069642004937 TrkA-C domain; Region: TrkA_C; pfam02080 1069642004938 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional; Region: PRK14325 1069642004939 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 1069642004940 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 1069642004941 FeS/SAM binding site; other site 1069642004942 TRAM domain; Region: TRAM; pfam01938 1069642004943 Chaperone of endosialidase; Region: Peptidase_S74; pfam13884 1069642004944 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 1069642004945 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 1069642004946 substrate binding pocket [chemical binding]; other site 1069642004947 membrane-bound complex binding site; other site 1069642004948 hinge residues; other site 1069642004949 Lyase class I_like superfamily: contains the lyase class I family, histidine ammonia-lyase and phenylalanine ammonia-lyase, which catalyze similar beta-elimination reactions; Region: Lyase_I_like; cl00013 1069642004950 Domain of unknown function (DUF4098); Region: DUF4098; pfam13345 1069642004951 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 1069642004952 putative acyltransferase; Provisional; Region: PRK05790 1069642004953 dimer interface [polypeptide binding]; other site 1069642004954 active site 1069642004955 Acyl CoA:acetate/3-ketoacid CoA transferase, alpha subunit [Lipid metabolism]; Region: AtoD; COG1788 1069642004956 3-oxoacid CoA-transferase, B subunit; Region: pcaJ_scoB_fam; TIGR02428 1069642004957 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 1069642004958 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 1069642004959 ligand binding site [chemical binding]; other site 1069642004960 flexible hinge region; other site 1069642004961 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 1069642004962 pyruvate kinase; Provisional; Region: PRK05826 1069642004963 active site 1069642004964 domain interfaces; other site 1069642004965 Chromosome segregation ATPases [Cell division and chromosome partitioning]; Region: Smc; COG1196 1069642004966 tol-pal system protein YbgF; Region: tol_pal_ybgF; TIGR02795 1069642004967 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 1069642004968 IHF dimer interface [polypeptide binding]; other site 1069642004969 IHF - DNA interface [nucleotide binding]; other site 1069642004970 Domain of unknown function (DUF4339); Region: DUF4339; pfam14237 1069642004971 Domain of unknown function (DUF4339); Region: DUF4339; pfam14237 1069642004972 Protein of unknown function, DUF399; Region: DUF399; cl01139 1069642004973 Vitamin K epoxide reductase family in bacteria; Region: VKOR_3; cd12920 1069642004974 putative active site [active] 1069642004975 redox center [active] 1069642004976 Thioredoxin; Region: Thioredoxin_4; cl17273 1069642004977 DSBA-like thioredoxin domain; Region: DSBA; pfam01323 1069642004978 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 1069642004979 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 1069642004980 anti sigma factor interaction site; other site 1069642004981 regulatory phosphorylation site [posttranslational modification]; other site 1069642004982 Organic solvent tolerance protein OstA [Cell envelope biogenesis, outer membrane]; Region: Imp; COG1452 1069642004983 OstA-like protein; Region: OstA; cl00844 1069642004984 Organic solvent tolerance protein; Region: OstA_C; pfam04453 1069642004985 Uncharacterized protein family UPF0102; Region: UPF0102; cl00516 1069642004986 bacterial Ribonuclease HII-like; Region: RNase_HII_bacteria_HII_like; cd07182 1069642004987 RNA/DNA hybrid binding site [nucleotide binding]; other site 1069642004988 active site 1069642004989 50S ribosomal protein L19; Provisional; Region: rplS; PRK05338 1069642004990 SAM-dependent RNA methyltransferase; Region: Methyltrn_RNA_4; pfam09936 1069642004991 tRNA (guanine-N(1)-)-methyltransferase; Reviewed; Region: trmD; PRK00026 1069642004992 16S rRNA-processing protein RimM; Provisional; Region: rimM; PRK00122 1069642004993 RimM N-terminal domain; Region: RimM; pfam01782 1069642004994 KH-II (K homology RNA-binding domain, type II). KH binds single-stranded RNA or DNA. It is found in a wide variety of proteins including ribosomal proteins (e.g. ribosomal protein S3), transcription factors (e.g. NusA_K), and post-transcriptional...; Region: KH-II; cl00098 1069642004995 Predicted RNA-binding protein (contains KH domain) [General function prediction only]; Region: COG1837 1069642004996 Ribosomal protein S16; Region: Ribosomal_S16; cl00368 1069642004997 signal recognition particle protein; Provisional; Region: PRK10867 1069642004998 SRP54-type protein, helical bundle domain; Region: SRP54_N; smart00963 1069642004999 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 1069642005000 P loop; other site 1069642005001 GTP binding site [chemical binding]; other site 1069642005002 Signal peptide binding domain; Region: SRP_SPB; pfam02978 1069642005003 ABC-2 type transporter; Region: ABC2_membrane; cl17235 1069642005004 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 1069642005005 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 1069642005006 ATP-binding cassette domain of the lipid transporters, subfamily A; Region: ABC_subfamily_A; cd03263 1069642005007 Walker A/P-loop; other site 1069642005008 ATP binding site [chemical binding]; other site 1069642005009 Q-loop/lid; other site 1069642005010 ABC transporter signature motif; other site 1069642005011 Walker B; other site 1069642005012 D-loop; other site 1069642005013 H-loop/switch region; other site 1069642005014 peptide chain release factor 3; Provisional; Region: prfC; PRK00741 1069642005015 Release Factor 3 (RF3) protein involved in the terminal step of translocation in bacteria; Region: RF3; cd04169 1069642005016 G1 box; other site 1069642005017 putative GEF interaction site [polypeptide binding]; other site 1069642005018 GTP/Mg2+ binding site [chemical binding]; other site 1069642005019 Switch I region; other site 1069642005020 G2 box; other site 1069642005021 G3 box; other site 1069642005022 Switch II region; other site 1069642005023 G4 box; other site 1069642005024 G5 box; other site 1069642005025 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 1069642005026 Predicted sulfurtransferase [General function prediction only]; Region: COG1054 1069642005027 Member of the Rhodanese Homology Domain superfamily. This CD includes Escherichia coli YceA, Bacillus subtilis YbfQ, and similar uncharacterized proteins; Region: RHOD_YceA; cd01518 1069642005028 active site residue [active] 1069642005029 Ca2+/H+ antiporter [Inorganic ion transport and metabolism]; Region: ChaA; COG0387 1069642005030 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 1069642005031 SlyX; Region: SlyX; pfam04102 1069642005032 RNase HI family found mainly in prokaryotes; Region: RNase_HI_prokaryote_like; cd09278 1069642005033 RNA/DNA hybrid binding site [nucleotide binding]; other site 1069642005034 active site 1069642005035 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 1069642005036 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 1069642005037 active site 1069642005038 phosphorylation site [posttranslational modification] 1069642005039 intermolecular recognition site; other site 1069642005040 dimerization interface [polypeptide binding]; other site 1069642005041 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 1069642005042 DNA binding residues [nucleotide binding] 1069642005043 dimerization interface [polypeptide binding]; other site 1069642005044 DNA polymerase III subunit epsilon; Validated; Region: PRK09182 1069642005045 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 1069642005046 active site 1069642005047 catalytic site [active] 1069642005048 substrate binding site [chemical binding]; other site 1069642005049 GAF domain; Region: GAF; pfam01590 1069642005050 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1069642005051 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 1069642005052 dimer interface [polypeptide binding]; other site 1069642005053 phosphorylation site [posttranslational modification] 1069642005054 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 1069642005055 ATP binding site [chemical binding]; other site 1069642005056 Mg2+ binding site [ion binding]; other site 1069642005057 G-X-G motif; other site 1069642005058 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 1069642005059 Response regulator receiver domain; Region: Response_reg; pfam00072 1069642005060 active site 1069642005061 phosphorylation site [posttranslational modification] 1069642005062 intermolecular recognition site; other site 1069642005063 dimerization interface [polypeptide binding]; other site 1069642005064 ATP-dependent Lon protease, bacterial type [Posttranslational modification, protein turnover, chaperones]; Region: Lon; COG0466 1069642005065 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 1069642005066 Walker A motif; other site 1069642005067 ATP binding site [chemical binding]; other site 1069642005068 Walker B motif; other site 1069642005069 arginine finger; other site 1069642005070 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 1069642005071 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cl17221 1069642005072 TrkA-C domain; Region: TrkA_C; pfam02080 1069642005073 TrkA-C domain; Region: TrkA_C; pfam02080 1069642005074 Permease SLC13 (solute carrier 13). The sodium/dicarboxylate cotransporter NaDC-1 has been shown to translocate Krebs cycle intermediates such as succinate, citrate, and alpha-ketoglutarate across plasma membranes rabbit, human, and rat kidney. It is...; Region: SLC13_permease; cd01115 1069642005075 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 1069642005076 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 1069642005077 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 1069642005078 active site 1069642005079 phosphorylation site [posttranslational modification] 1069642005080 intermolecular recognition site; other site 1069642005081 dimerization interface [polypeptide binding]; other site 1069642005082 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 1069642005083 Walker A motif; other site 1069642005084 ATP binding site [chemical binding]; other site 1069642005085 Walker B motif; other site 1069642005086 arginine finger; other site 1069642005087 Bacterial regulatory protein, Fis family; Region: HTH_8; cl17420 1069642005088 CsbD-like; Region: CsbD; cl17424 1069642005089 Predicted membrane protein [Function unknown]; Region: COG2261 1069642005090 Virulence factor BrkB; Region: Virul_fac_BrkB; cl07918 1069642005091 Histidine Phosphotransfer domain, involved in signalling through a two part component systems in which an autophosphorylating histidine protein kinase serves as a phosphoryl donor to a response regulator protein; the response regulator protein is...; Region: HPT; cl00086 1069642005092 CHASE domain; Region: CHASE; pfam03924 1069642005093 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1069642005094 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 1069642005095 dimer interface [polypeptide binding]; other site 1069642005096 phosphorylation site [posttranslational modification] 1069642005097 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 1069642005098 ATP binding site [chemical binding]; other site 1069642005099 Mg2+ binding site [ion binding]; other site 1069642005100 G-X-G motif; other site 1069642005101 Response regulator receiver domain; Region: Response_reg; pfam00072 1069642005102 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 1069642005103 active site 1069642005104 phosphorylation site [posttranslational modification] 1069642005105 intermolecular recognition site; other site 1069642005106 dimerization interface [polypeptide binding]; other site 1069642005107 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 1069642005108 dimer interface [polypeptide binding]; other site 1069642005109 FMN binding site [chemical binding]; other site 1069642005110 Proteins of this family catalyze the reduction of flavin or nitrocompounds using NAD(P)H as electron donor in a obligatory two-electron transfer, utilizing FMN or FAD as cofactor. They are often found to be homodimers. Enzymes of this family are...; Region: Nitro_FMN_reductase; cl00514 1069642005111 dimer interface [polypeptide binding]; other site 1069642005112 Domain of unknown function DUF20; Region: UPF0118; pfam01594 1069642005113 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 1069642005114 fumarate hydratase; Provisional; Region: PRK15389 1069642005115 Fumarate hydratase (Fumerase); Region: Fumerase; pfam05681 1069642005116 Fumarase C-terminus; Region: Fumerase_C; pfam05683 1069642005117 phosphoglycerate transporter family protein; Region: 2A0104; TIGR00881 1069642005118 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 1069642005119 Ligand Binding Site [chemical binding]; other site 1069642005120 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 1069642005121 Ligand Binding Site [chemical binding]; other site 1069642005122 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 1069642005123 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 1069642005124 DNA binding residues [nucleotide binding] 1069642005125 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1069642005126 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1069642005127 Dioxygenases related to 2-nitropropane dioxygenase [General function prediction only]; Region: COG2070 1069642005128 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 1069642005129 FMN binding site [chemical binding]; other site 1069642005130 substrate binding site [chemical binding]; other site 1069642005131 putative catalytic residue [active] 1069642005132 Protein of unknown function (DUF1634); Region: DUF1634; pfam07843 1069642005133 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 1069642005134 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 1069642005135 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 1069642005136 putative substrate translocation pore; other site 1069642005137 hypothetical protein; Provisional; Region: PRK09256 1069642005138 Predicted redox protein, regulator of disulfide bond formation [Posttranslational modification, protein turnover, chaperones]; Region: COG1765 1069642005139 Domain of unknown function (DUF3552); Region: DUF3552; pfam12072 1069642005140 Predicted HD superfamily hydrolase [General function prediction only]; Region: COG1418 1069642005141 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 1069642005142 Zn2+ binding site [ion binding]; other site 1069642005143 Mg2+ binding site [ion binding]; other site 1069642005144 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 1069642005145 phosphorylation site [posttranslational modification] 1069642005146 intermolecular recognition site; other site 1069642005147 Domain of unknown function DUF21; Region: DUF21; pfam01595 1069642005148 FOG: CBS domain [General function prediction only]; Region: COG0517 1069642005149 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 1069642005150 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1069642005151 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cl00080 1069642005152 dimer interface [polypeptide binding]; other site 1069642005153 phosphorylation site [posttranslational modification] 1069642005154 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 1069642005155 ATP binding site [chemical binding]; other site 1069642005156 Mg2+ binding site [ion binding]; other site 1069642005157 G-X-G motif; other site 1069642005158 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1069642005159 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 1069642005160 active site 1069642005161 phosphorylation site [posttranslational modification] 1069642005162 intermolecular recognition site; other site 1069642005163 dimerization interface [polypeptide binding]; other site 1069642005164 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 1069642005165 DNA binding site [nucleotide binding] 1069642005166 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; cl02915 1069642005167 Chloride channel protein EriC [Inorganic ion transport and metabolism]; Region: EriC; COG0038 1069642005168 Cl- selectivity filter; other site 1069642005169 Cl- binding residues [ion binding]; other site 1069642005170 pore gating glutamate residue; other site 1069642005171 dimer interface [polypeptide binding]; other site 1069642005172 acyl-CoA dehydrogenase; Reviewed; Region: fadE; PRK09463 1069642005173 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 1069642005174 active site 1069642005175 Domain of unknown function (DUF1974); Region: DUF1974; pfam09317 1069642005176 formamidopyrimidine/5-formyluracil/ 5-hydroxymethyluracil DNA glycosylase; Validated; Region: PRK01103 1069642005177 N-terminal domain of Escherichia coli Fpg1/MutM and related bacterial DNA glycosylases; Region: EcFpg-like_N; cd08966 1069642005178 DNA binding site [nucleotide binding] 1069642005179 catalytic residue [active] 1069642005180 H2TH interface [polypeptide binding]; other site 1069642005181 putative catalytic residues [active] 1069642005182 turnover-facilitating residue; other site 1069642005183 intercalation triad [nucleotide binding]; other site 1069642005184 8OG recognition residue [nucleotide binding]; other site 1069642005185 putative reading head residues; other site 1069642005186 Formamidopyrimidine-DNA glycosylase H2TH domain; Region: H2TH; pfam06831 1069642005187 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 1069642005188 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1069642005189 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 1069642005190 ATP binding site [chemical binding]; other site 1069642005191 Mg2+ binding site [ion binding]; other site 1069642005192 G-X-G motif; other site 1069642005193 Peptidase family S49 N-terminal; Region: Peptidase_S49_N; pfam08496 1069642005194 putative inner membrane peptidase; Provisional; Region: PRK11778 1069642005195 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 1069642005196 tandem repeat interface [polypeptide binding]; other site 1069642005197 oligomer interface [polypeptide binding]; other site 1069642005198 active site residues [active] 1069642005199 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 1069642005200 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1069642005201 Walker A/P-loop; other site 1069642005202 ATP binding site [chemical binding]; other site 1069642005203 Q-loop/lid; other site 1069642005204 ABC transporter signature motif; other site 1069642005205 Walker B; other site 1069642005206 D-loop; other site 1069642005207 H-loop/switch region; other site 1069642005208 oligopeptide/dipeptide ABC transporter, ATP-binding protein, C-terminal domain; Region: oligo_HPY; TIGR01727 1069642005209 dipeptide transporter ATP-binding subunit; Provisional; Region: dppF; PRK11308 1069642005210 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1069642005211 Walker A/P-loop; other site 1069642005212 ATP binding site [chemical binding]; other site 1069642005213 Q-loop/lid; other site 1069642005214 ABC transporter signature motif; other site 1069642005215 Walker B; other site 1069642005216 D-loop; other site 1069642005217 H-loop/switch region; other site 1069642005218 oligopeptide/dipeptide ABC transporter, ATP-binding protein, C-terminal domain; Region: oligo_HPY; TIGR01727 1069642005219 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 1069642005220 The substrate-binding component of ABC-type thermophilic oligopeptide-binding protein Hb8-like import systems, contains the type 2 periplasmic binding fold; Region: PBP2_thermophilic_Hb8_like; cd08513 1069642005221 peptide binding site [polypeptide binding]; other site 1069642005222 dimer interface [polypeptide binding]; other site 1069642005223 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 1069642005224 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 1069642005225 dimer interface [polypeptide binding]; other site 1069642005226 conserved gate region; other site 1069642005227 putative PBP binding loops; other site 1069642005228 ABC-ATPase subunit interface; other site 1069642005229 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 1069642005230 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 1069642005231 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 1069642005232 dimer interface [polypeptide binding]; other site 1069642005233 conserved gate region; other site 1069642005234 putative PBP binding loops; other site 1069642005235 ABC-ATPase subunit interface; other site 1069642005236 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 1069642005237 substrate binding pocket [chemical binding]; other site 1069642005238 membrane-bound complex binding site; other site 1069642005239 hinge residues; other site 1069642005240 twin arginine-targeting protein translocase, TatA/E family; Region: tatAE; TIGR01411 1069642005241 Alkane hydroxylase is a bacterial, integral-membrane di-iron enzyme that shares a requirement for iron and oxygen for activity similar to that of the non-heme integral-membrane acyl coenzyme A (CoA) desaturases and acyl lipid desaturases. The alk genes...; Region: Alkane-hydroxylase; cd03512 1069642005242 Fatty acid desaturase; Region: FA_desaturase; pfam00487 1069642005243 Di-iron ligands [ion binding]; other site 1069642005244 Glycerophosphodiester phosphodiesterase domain as found in prokaryota and eukaryota, and similar proteins; Region: GDPD; cd08556 1069642005245 Glycerophosphoryl diester phosphodiesterase family; Region: GDPD; pfam03009 1069642005246 active site 1069642005247 catalytic site [active] 1069642005248 metal binding site [ion binding]; metal-binding site 1069642005249 transcription elongation factor GreA; Reviewed; Region: greA; PRK00226 1069642005250 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 1069642005251 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 1069642005252 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; pfam04324 1069642005253 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; pfam04324 1069642005254 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 1069642005255 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1069642005256 Predicted nucleoside-diphosphate sugar epimerase [General function prediction only]; Region: COG1090 1069642005257 NAD(P) binding site [chemical binding]; other site 1069642005258 active site 1069642005259 Ligand-binding SRPBCC domain of an uncharacterized subfamily of proteins; Region: SRPBCC_3; cd07820 1069642005260 putative hydrophobic ligand binding site [chemical binding]; other site 1069642005261 Deoxyribodipyrimidine photolyase [DNA replication, recombination, and repair]; Region: PhrB; COG0415 1069642005262 DNA photolyase; Region: DNA_photolyase; pfam00875 1069642005263 Predicted unusual protein kinase [General function prediction only]; Region: AarF; COG0661 1069642005264 ABC1 family; Region: ABC1; cl17513 1069642005265 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 1069642005266 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 1069642005267 catalytic residues [active] 1069642005268 Co/Zn/Cd efflux system component [Inorganic ion transport and metabolism]; Region: CzcD; COG1230 1069642005269 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 1069642005270 Cytochrome oxidase assembly protein; Region: COX15-CtaA; pfam02628 1069642005271 ATP-dependent protease La (LON) domain; Region: LON; pfam02190 1069642005272 Predicted thiol-disulfide oxidoreductase [General function prediction only]; Region: COG3011 1069642005273 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 1069642005274 active site 1069642005275 8-oxo-dGMP binding site [chemical binding]; other site 1069642005276 nudix motif; other site 1069642005277 metal binding site [ion binding]; metal-binding site 1069642005278 Na+/phosphate symporter [Inorganic ion transport and metabolism]; Region: NptA; COG1283 1069642005279 Na+/Pi-cotransporter; Region: Na_Pi_cotrans; pfam02690 1069642005280 Na+/Pi-cotransporter; Region: Na_Pi_cotrans; pfam02690 1069642005281 PhoU domain; Region: PhoU; pfam01895 1069642005282 PhoU domain; Region: PhoU; pfam01895 1069642005283 Protein of unknown function, DUF486; Region: DUF486; cl01236 1069642005284 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 1069642005285 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 1069642005286 metal-binding site [ion binding] 1069642005287 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 1069642005288 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 1069642005289 motif II; other site 1069642005290 Transcriptional regulators CsoR (copper-sensitive operon repressor), RcnR, and FrmR, and related domains; this domain superfamily was previously known as DUF156; Region: CsoR-like_DUF156; cd10148 1069642005291 putative homotetramer interface [polypeptide binding]; other site 1069642005292 putative homodimer interface [polypeptide binding]; other site 1069642005293 putative allosteric switch controlling residues; other site 1069642005294 putative metal binding site [ion binding]; other site 1069642005295 putative homodimer-homodimer interface [polypeptide binding]; other site 1069642005296 Putative silver efflux pump [Inorganic ion transport and metabolism]; Region: COG3696 1069642005297 Protein export membrane protein; Region: SecD_SecF; cl14618 1069642005298 type I secretion outer membrane protein, TolC family; Region: type_I_sec_TolC; TIGR01844 1069642005299 Domain of unknown function (DUF366); Region: DUF366; pfam04017 1069642005300 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 1069642005301 Ligand Binding Site [chemical binding]; other site 1069642005302 single-stranded-DNA-specific exonuclease RecJ; Region: recJ; TIGR00644 1069642005303 DHH family; Region: DHH; pfam01368 1069642005304 preprotein translocase subunit SecF; Reviewed; Region: secF; PRK13022 1069642005305 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 1069642005306 Protein export membrane protein; Region: SecD_SecF; pfam02355 1069642005307 Preprotein translocase subunit SecD [Intracellular trafficking and secretion]; Region: SecD; COG0342 1069642005308 protein-export membrane protein, SecD/SecF family; Region: 2A0604s01; TIGR00916 1069642005309 Preprotein translocase subunit; Region: YajC; pfam02699 1069642005310 queuine tRNA-ribosyltransferase; Provisional; Region: tgt; PRK00112 1069642005311 Queuine/archaeosine tRNA-ribosyltransferase [Translation, ribosomal structure and biogenesis]; Region: Tgt; COG0343 1069642005312 Queuosine biosynthesis protein; Region: Queuosine_synth; pfam02547 1069642005313 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Region: queA; TIGR00113 1069642005314 phosphonate utilization associated putative membrane protein; Region: phn_DUF6; TIGR03340 1069642005315 Small Multidrug Resistance protein; Region: Multi_Drug_Res; cl00910 1069642005316 Glutamate synthase domain 2 [Amino acid transport and metabolism]; Region: GltB; COG0069 1069642005317 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 1069642005318 active site 1069642005319 FMN binding site [chemical binding]; other site 1069642005320 substrate binding site [chemical binding]; other site 1069642005321 3Fe-4S cluster binding site [ion binding]; other site 1069642005322 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; pfam13505 1069642005323 OmpA family; Region: OmpA; pfam00691 1069642005324 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cl02931 1069642005325 Virulence factor BrkB; Region: Virul_fac_BrkB; pfam03631 1069642005326 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 1069642005327 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 1069642005328 YhfW family, C-terminal Rieske domain; YhfW is a protein of unknown function with an N-terminal DadA-like (glycine/D-amino acid dehydrogenase) domain and a C-terminal Rieske domain. The Rieske domain is a [2Fe-2S] cluster binding domain involved in...; Region: Rieske_YhfW_C; cd03477 1069642005329 Rieske Fe-S protein [Energy production and conversion]; Region: QcrA; COG0723 1069642005330 [2Fe-2S] cluster binding site [ion binding]; other site 1069642005331 Predicted periplasmic or secreted lipoprotein [General function prediction only]; Region: OsmY; COG2823 1069642005332 BON domain; Region: BON; pfam04972 1069642005333 BON domain; Region: BON; pfam04972 1069642005334 A type 1 glutamine amidotransferase (GATase1)-like domain found in PfpI from Pyrococcus furiosus; Region: GATase1_PfpI_like; cd03134 1069642005335 intracellular protease, PfpI family; Region: PfpI; TIGR01382 1069642005336 proposed catalytic triad [active] 1069642005337 conserved cys residue [active] 1069642005338 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 1069642005339 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 1069642005340 inhibitor-cofactor binding pocket; inhibition site 1069642005341 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1069642005342 catalytic residue [active] 1069642005343 ATP-dependent DNA ligase; Reviewed; Region: ligD; PRK05972 1069642005344 DNA ligase D, 3'-phosphoesterase domain; Region: LigD_PE_dom; TIGR02777 1069642005345 Adenylation domain of Mycobacterium tuberculosis LigD and LigC-like ATP-dependent DNA ligases; Region: Adenylation_DNA_ligase_LigD_LigC; cd07906 1069642005346 active site 1069642005347 DNA binding site [nucleotide binding] 1069642005348 The Oligonucleotide/oligosaccharide binding (OB)-fold domain of ATP-dependent DNA ligase LigD is a DNA-binding module that is part of the catalytic core unit; Region: OBF_DNA_ligase_LigD; cd07971 1069642005349 DNA binding site [nucleotide binding] 1069642005350 PaeLigD_Pol_like: Polymerase (Pol) domain of bacterial LigD proteins similar to Pseudomonas aeruginosa (Pae) LigD. The LigD Pol domain belongs to the archaeal/eukaryal primase (AEP) superfamily. In prokaryotes, LigD along with Ku is required for...; Region: PaeLigD_Pol_like; cd04862 1069642005351 nucleotide binding site [chemical binding]; other site 1069642005352 Ku-core domain, Ku-like subfamily; composed of prokaryotic homologs of the eukaryotic DNA binding protein Ku. The alignment includes the core domain shared by the prokaryotic YkoV-like proteins and the eukaryotic Ku70 and Ku80. The prokaryotic Ku...; Region: KU_like; cd00789 1069642005353 Ku protein, prokaryotic; Region: Ku_bact; TIGR02772 1069642005354 putative DNA binding site [nucleotide binding]; other site 1069642005355 putative homodimer interface [polypeptide binding]; other site 1069642005356 Domain of unknown function (DUF1989); Region: DUF1989; pfam09347 1069642005357 YqcI/YcgG family; Region: YqcI_YcgG; cl01349 1069642005358 2-dehydro-3-deoxyphosphooctonate aldolase; Provisional; Region: PRK05198 1069642005359 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 1069642005360 Escherichia coli YaeB and related proteins; Region: UPF0066; cd09281 1069642005361 homodimer interaction site [polypeptide binding]; other site 1069642005362 cofactor binding site; other site 1069642005363 Isoleucyl-tRNA synthetase [Translation, ribosomal structure and biogenesis]; Region: IleS; COG0060 1069642005364 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 1069642005365 HIGH motif; other site 1069642005366 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 1069642005367 active site 1069642005368 KMSKS motif; other site 1069642005369 Anticodon-binding domain of archaeal, bacterial, and eukaryotic cytoplasmic isoleucyl tRNA synthetases; Region: Anticodon_Ia_Ile_ABEc; cd07961 1069642005370 tRNA binding surface [nucleotide binding]; other site 1069642005371 anticodon binding site; other site 1069642005372 Carbonic anhydrases (CA) are zinc-containing enzymes that catalyze the reversible hydration of carbon dioxide in a two-step mechanism in which the nucleophilic attack of a zinc-bound hydroxide ion on carbon dioxide is followed by the regeneration of an...; Region: beta_CA_cladeB; cd00884 1069642005373 active site clefts [active] 1069642005374 zinc binding site [ion binding]; other site 1069642005375 dimer interface [polypeptide binding]; other site 1069642005376 Glutamate-cysteine ligase family 2(GCS2); Region: GCS2; cl00954 1069642005377 Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GAT_1; cl00020 1069642005378 conserved cys residue [active] 1069642005379 aldehyde dehydrogenase family protein; Provisional; Region: PTZ00381 1069642005380 Pseudomonas putida Aldehyde dehydrogenase AlkH-like; Region: ALDH_AlkH-like; cd07134 1069642005381 NAD(P) binding site [chemical binding]; other site 1069642005382 catalytic residues [active] 1069642005383 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; COG0475 1069642005384 Sodium/hydrogen exchanger family; Region: Na_H_Exchanger; pfam00999 1069642005385 TrkA-C domain; Region: TrkA_C; pfam02080 1069642005386 TrkA-C domain; Region: TrkA_C; pfam02080 1069642005387 Peptidase S8 family domain in Subtilisin proteins; Region: Peptidases_S8_Subtilisin_subset; cd07477 1069642005388 active site 1069642005389 catalytic residues [active] 1069642005390 PA_C5a_like: Protease-associated domain containing proteins like Streptococcus pyogenes C5a peptidase. This group contains various PA domain-containing proteins similar to S. pyogenes C5a, including, i) Vpr, a minor extracellular serine protease from...; Region: PA_C5a_like; cd02133 1069642005391 PA/protease domain interface [polypeptide binding]; other site 1069642005392 putative integrin binding motif; other site 1069642005393 Subtilisin-like serine proteases [Posttranslational modification, protein turnover, chaperones]; Region: AprE; COG1404 1069642005394 Peptidase domain in the S8 and S53 families; Region: Peptidases_S8_S53; cl10459 1069642005395 catalytic residues [active] 1069642005396 DPG_synthase is involved in protein N-linked glycosylation; Region: DPG_synthase; cd04188 1069642005397 Ligand binding site; other site 1069642005398 Ligand binding site; other site 1069642005399 Ligand binding site; other site 1069642005400 Putative Catalytic site; other site 1069642005401 DXD motif; other site 1069642005402 Site-specific recombinase; Region: SpecificRecomb; pfam10136 1069642005403 Peroxiredoxin (PRX)-like 1 family; hypothetical proteins that show sequence similarity to PRXs. Members of this group contain a conserved cysteine that aligns to the first cysteine in the CXXC motif of TRX. This does not correspond to the peroxidatic...; Region: PRX_like1; cd02969 1069642005404 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 1069642005405 putative catalytic residue [active] 1069642005406 YtkA-like; Region: YtkA; pfam13115 1069642005407 YtkA-like; Region: YtkA; pfam13115 1069642005408 KH domain; Region: KH_4; pfam13083 1069642005409 HutD; Region: HutD; pfam05962 1069642005410 alpha,alpha-phosphotrehalase; Region: trehalose_treC; TIGR02403 1069642005411 Alpha amylase catalytic domain found in Sucrose isomerases, oligo-1,6-glucosidase (also called isomaltase; sucrase-isomaltase; alpha-limit dextrinase), dextran glucosidase (also called glucan 1,6-alpha-glucosidase), and related proteins; Region: AmyAc_SI_OligoGlu_DGase; cd11333 1069642005412 Ca binding site [ion binding]; other site 1069642005413 active site 1069642005414 catalytic site [active] 1069642005415 Multiple resistance and pH regulation protein F (MrpF / PhaF); Region: MrpF_PhaF; cl09154 1069642005416 Na+/H+ ion antiporter subunit; Region: MNHE; pfam01899 1069642005417 putative monovalent cation/H+ antiporter subunit D; Reviewed; Region: PRK12663 1069642005418 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 1069642005419 Multisubunit Na+/H+ antiporter, MnhC subunit [Inorganic ion transport and metabolism]; Region: MnhC; COG1006 1069642005420 putative monovalent cation/H+ antiporter subunit A; Reviewed; Region: PRK12649 1069642005421 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 1069642005422 Domain of unknown function (DUF4040); Region: DUF4040; cl00676 1069642005423 putative monovalent cation/H+ antiporter subunit B; Reviewed; Region: PRK12509 1069642005424 sn-glycerol-3-phosphate transporter; Provisional; Region: glpT; PRK11273 1069642005425 Domain of unknown function (DUF3943); Region: DUF3943; pfam13084 1069642005426 Haloacid dehalogenase-like hydrolase; Region: HAD_2; pfam13419 1069642005427 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 1069642005428 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 1069642005429 S-adenosylmethionine binding site [chemical binding]; other site 1069642005430 Isochorismatase family; Region: Isochorismatase; pfam00857 1069642005431 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 1069642005432 catalytic triad [active] 1069642005433 conserved cis-peptide bond; other site 1069642005434 Glutathione-dependent formaldehyde dehydrogenase related proteins, child 1; Region: FDH_like_1; cd08283 1069642005435 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 1069642005436 NAD binding site [chemical binding]; other site 1069642005437 catalytic Zn binding site [ion binding]; other site 1069642005438 structural Zn binding site [ion binding]; other site 1069642005439 START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC (SRPBCC) ligand-binding domain superfamily; Region: SRPBCC; cl14643 1069642005440 hydrophobic ligand binding site; other site 1069642005441 Predicted ATPase with chaperone activity [Posttranslational modification, protein turnover, chaperones]; Region: COG0606 1069642005442 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 1069642005443 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 1069642005444 Walker A motif; other site 1069642005445 ATP binding site [chemical binding]; other site 1069642005446 Walker B motif; other site 1069642005447 tyrosine recombinase XerD; Region: recomb_XerD; TIGR02225 1069642005448 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 1069642005449 active site 1069642005450 Int/Topo IB signature motif; other site 1069642005451 DNA binding site [nucleotide binding] 1069642005452 Stage II sporulation protein; Region: SpoIID; pfam08486 1069642005453 SpoIID/LytB domain; Region: SpoIID_LytB; TIGR02669 1069642005454 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 1069642005455 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 1069642005456 Membrane-bound serine protease (ClpP class) [Posttranslational modification, protein turnover, chaperones]; Region: NfeD; COG1030 1069642005457 Nodulation formation efficiency D (NfeD) is a membrane-bound ClpP-class protease; Region: Clp_protease_NfeD_1; cd07020 1069642005458 active site residues [active] 1069642005459 dimer interface [polypeptide binding]; other site 1069642005460 NfeD-like C-terminal, partner-binding; Region: NfeD; pfam01957 1069642005461 Uracil-DNA glycosylases (UDG) and related enzymes; Region: UDG_like; cl00483 1069642005462 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 1069642005463 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1069642005464 putative substrate translocation pore; other site 1069642005465 Uncharacterized membrane protein, putative virulence factor [General function prediction only]; Region: MviN; COG0728 1069642005466 MurJ/MviN, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_MurJ_like; cd13123 1069642005467 excinuclease ABC subunit C; Validated; Region: uvrC; PRK00558 1069642005468 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 1069642005469 GIY-YIG motif/motif A; other site 1069642005470 active site 1069642005471 catalytic site [active] 1069642005472 putative DNA binding site [nucleotide binding]; other site 1069642005473 metal binding site [ion binding]; metal-binding site 1069642005474 UvrB/uvrC motif; Region: UVR; pfam02151 1069642005475 UvrC Helix-hairpin-helix N-terminal; Region: UvrC_HhH_N; pfam08459 1069642005476 excinuclease ABC subunit B; Provisional; Region: PRK05298 1069642005477 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 1069642005478 ATP binding site [chemical binding]; other site 1069642005479 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 1069642005480 nucleotide binding region [chemical binding]; other site 1069642005481 ATP-binding site [chemical binding]; other site 1069642005482 Ultra-violet resistance protein B; Region: UvrB; pfam12344 1069642005483 UvrB/uvrC motif; Region: UVR; pfam02151 1069642005484 Penicillin amidase; Region: Penicil_amidase; pfam01804 1069642005485 Penicillin G acylase (PGA) belongs to a family of beta-lactam acylases that includes cephalosporin acylase (CA) and aculeacin A acylase. PGA and CA are crucial for the production of backbone chemicals like 6-aminopenicillanic acid and...; Region: Ntn_PGA_like; cd03747 1069642005486 active site 1069642005487 Protein of unknown function (DUF3617); Region: DUF3617; pfam12276 1069642005488 Domain of unknown function (DUF333); Region: DUF333; pfam03891 1069642005489 cysteinyl-tRNA synthetase; Validated; Region: cysS; PRK00260 1069642005490 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 1069642005491 active site 1069642005492 HIGH motif; other site 1069642005493 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 1069642005494 KMSKS motif; other site 1069642005495 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 1069642005496 tRNA binding surface [nucleotide binding]; other site 1069642005497 anticodon binding site; other site 1069642005498 glutamyl-tRNA synthetase; Reviewed; Region: gltX; PRK01406 1069642005499 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 1069642005500 HIGH motif; other site 1069642005501 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 1069642005502 active site 1069642005503 KMSKS motif; other site 1069642005504 CarD-like/TRCF domain; Region: CarD_CdnL_TRCF; cl00588 1069642005505 Subtilisin-like serine proteases [Posttranslational modification, protein turnover, chaperones]; Region: AprE; COG1404 1069642005506 Peptidase S8 family domain in Kp43 proteases; Region: Peptidases_S8_Kp43_protease; cd04842 1069642005507 active site 1069642005508 catalytic triad [active] 1069642005509 Regulator of chromosome condensation (RCC1) repeat; Region: RCC1; pfam00415 1069642005510 Alpha-tubulin suppressor and related RCC1 domain-containing proteins [Cell division and chromosome partitioning / Cytoskeleton]; Region: ATS1; COG5184 1069642005511 Regulator of chromosome condensation (RCC1) repeat; Region: RCC1; pfam00415 1069642005512 Regulator of chromosome condensation (RCC1) repeat; Region: RCC1_2; pfam13540 1069642005513 Alpha-tubulin suppressor and related RCC1 domain-containing proteins [Cell division and chromosome partitioning / Cytoskeleton]; Region: ATS1; COG5184 1069642005514 Regulator of chromosome condensation (RCC1) repeat; Region: RCC1; pfam00415 1069642005515 Regulator of chromosome condensation (RCC1) repeat; Region: RCC1; pfam00415 1069642005516 Regulator of chromosome condensation (RCC1) repeat; Region: RCC1; pfam00415 1069642005517 ATP-dependent DNA helicase RecG; Provisional; Region: PRK10917 1069642005518 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 1069642005519 ssDNA binding site; other site 1069642005520 generic binding surface II; other site 1069642005521 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 1069642005522 ATP binding site [chemical binding]; other site 1069642005523 putative Mg++ binding site [ion binding]; other site 1069642005524 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 1069642005525 nucleotide binding region [chemical binding]; other site 1069642005526 ATP-binding site [chemical binding]; other site 1069642005527 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 1069642005528 S-adenosylmethionine binding site [chemical binding]; other site 1069642005529 Lactonase, 7-bladed beta-propeller; Region: Lactonase; pfam10282 1069642005530 40-residue YVTN family beta-propeller repeat; Region: beta_rpt_yvtn; TIGR02276 1069642005531 c-di-GMP phosphodiesterase class II (HD-GYP domain) [Signal transduction mechanisms]; Region: COG2206 1069642005532 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 1069642005533 Zn2+ binding site [ion binding]; other site 1069642005534 Mg2+ binding site [ion binding]; other site 1069642005535 Drosophila ACP53EA protein; Region: ACP53EA; pfam06313 1069642005536 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 1069642005537 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 1069642005538 P-loop; other site 1069642005539 Magnesium ion binding site [ion binding]; other site 1069642005540 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 1069642005541 Magnesium ion binding site [ion binding]; other site 1069642005542 Trypsin-like serine protease; Many of these are synthesized as inactive precursor zymogens that are cleaved during limited proteolysis to generate their active forms. Alignment contains also inactive enzymes that have substitutions of the catalytic triad...; Region: Tryp_SPc; cd00190 1069642005543 cleavage site 1069642005544 active site 1069642005545 substrate binding sites [chemical binding]; other site 1069642005546 Protein of unknown function (DUF3465); Region: DUF3465; pfam11948 1069642005547 Trypsin; Region: Trypsin; pfam00089 1069642005548 active site 1069642005549 substrate binding sites [chemical binding]; other site 1069642005550 MASE1; Region: MASE1; cl17823 1069642005551 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 1069642005552 dimer interface [polypeptide binding]; other site 1069642005553 phosphorylation site [posttranslational modification] 1069642005554 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 1069642005555 ATP binding site [chemical binding]; other site 1069642005556 Mg2+ binding site [ion binding]; other site 1069642005557 G-X-G motif; other site 1069642005558 Response regulator receiver domain; Region: Response_reg; pfam00072 1069642005559 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 1069642005560 active site 1069642005561 phosphorylation site [posttranslational modification] 1069642005562 intermolecular recognition site; other site 1069642005563 dimerization interface [polypeptide binding]; other site 1069642005564 Rhodanese Homology Domain; Region: RHOD; smart00450 1069642005565 active site residue [active] 1069642005566 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 1069642005567 active site residue [active] 1069642005568 lysyl-tRNA synthetase; Reviewed; Region: lysS; PRK00484 1069642005569 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 1069642005570 dimer interface [polypeptide binding]; other site 1069642005571 putative anticodon binding site; other site 1069642005572 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 1069642005573 motif 1; other site 1069642005574 active site 1069642005575 motif 2; other site 1069642005576 motif 3; other site 1069642005577 fructose-bisphosphate aldolase; Provisional; Region: PRK09250 1069642005578 Class I fructose-1,6-bisphosphate (FBP) aldolases of the archaeal type (DhnA homologs); Region: DhnA; cd00958 1069642005579 putative active site; other site 1069642005580 catalytic residue [active] 1069642005581 Scaffold protein Nfu/NifU N terminal; Region: Nfu_N; pfam08712 1069642005582 Thioredoxin-like proteins and domains [Posttranslational modification, protein turnover, chaperones]; Region: COG0694 1069642005583 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Vibrio cholerae NorM; Region: MATE_NorM_like; cd13131 1069642005584 multidrug efflux protein; Reviewed; Region: PRK01766 1069642005585 cation binding site [ion binding]; other site 1069642005586 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 1069642005587 metabolite-proton symporter; Region: 2A0106; TIGR00883 1069642005588 putative substrate translocation pore; other site 1069642005589 Predicted unusual protein kinase [General function prediction only]; Region: AarF; COG0661 1069642005590 ABC1 family; Region: ABC1; cl17513 1069642005591 Uncharacterized BCR, YaiI/YqxD family COG1671; Region: DUF188; pfam02639 1069642005592 Uncharacterized Fe-S protein [General function prediction only]; Region: COG3217 1069642005593 MOSC N-terminal beta barrel domain; Region: MOSC_N; pfam03476 1069642005594 MOSC domain; Region: MOSC; pfam03473 1069642005595 deoxyhypusine synthase; Region: dhys; TIGR00321 1069642005596 Deoxyhypusine synthase; Region: DS; cl00826 1069642005597 Methyltransferase domain; Region: Methyltransf_23; pfam13489 1069642005598 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 1069642005599 S-adenosylmethionine binding site [chemical binding]; other site 1069642005600 Dinucleotide-utilizing enzymes involved in molybdopterin and thiamine biosynthesis family 1 [Coenzyme metabolism]; Region: COG1179 1069642005601 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 1069642005602 putative ATP binding site [chemical binding]; other site 1069642005603 putative substrate interface [chemical binding]; other site 1069642005604 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 1069642005605 active site 1069642005606 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 1069642005607 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 1069642005608 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 1069642005609 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 1069642005610 active site 1069642005611 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 1069642005612 putative phosphate binding site [ion binding]; other site 1069642005613 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5304 1069642005614 THUMP domain associated with S-adenosylmethionine-dependent methyltransferases; Region: THUMP_AdoMetMT; cd11715 1069642005615 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 1069642005616 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 1069642005617 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 1069642005618 putative active site [active] 1069642005619 3-deoxy-D-manno-octulosonic-acid transferase; Reviewed; Region: PRK05749 1069642005620 3-Deoxy-D-manno-octulosonic-acid transferase (kdotransferase); Region: Glycos_transf_N; pfam04413 1069642005621 Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b para-rossmann type of...; Region: vWFA; cl00057 1069642005622 metal ion-dependent adhesion site (MIDAS); other site 1069642005623 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; pfam13505 1069642005624 Biopolymer transport protein ExbD/TolR; Region: ExbD; pfam02472 1069642005625 Biopolymer transport protein ExbD/TolR; Region: ExbD; pfam02472 1069642005626 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 1069642005627 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 1069642005628 Chloride channel protein EriC [Inorganic ion transport and metabolism]; Region: EriC; COG0038 1069642005629 Cl- selectivity filter; other site 1069642005630 Cl- binding residues [ion binding]; other site 1069642005631 pore gating glutamate residue; other site 1069642005632 dimer interface [polypeptide binding]; other site 1069642005633 Restriction endonuclease [Defense mechanisms]; Region: McrA; COG1403 1069642005634 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 1069642005635 active site 1069642005636 pyrroloquinoline quinone biosynthesis protein PqqE; Provisional; Region: PRK05301 1069642005637 Bacillus subtilis PhoD and related proteins, metallophosphatase domain; Region: MPP_PhoD; cd07389 1069642005638 putative active site [active] 1069642005639 putative metal binding site [ion binding]; other site 1069642005640 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 1069642005641 ABC-type Fe3+-hydroxamate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: FepB; COG0614 1069642005642 intersubunit interface [polypeptide binding]; other site 1069642005643 lysozyme_like domain. This contains several members including Soluble Lytic Transglycosylases (SLT), Goose Egg-White Lysozymes (GEWL), Hen Egg-White Lysozymes (HEWL), chitinases, bacteriophage lambda lysozymes, endolysins, autolysins, and chitosanases; Region: lysozyme_like; cl00222 1069642005644 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 1069642005645 PLD-like domain; Region: PLDc_2; pfam13091 1069642005646 Catalytic domain, repeat 1, of bacterial cardiolipin synthase and similar proteins; Region: PLDc_CLS_1; cd09110 1069642005647 putative active site [active] 1069642005648 catalytic site [active] 1069642005649 Catalytic domain, repeat 2, of Escherichia coli cardiolipin synthase ybhO and similar proteins; Region: PLDc_ybhO_like_2; cd09159 1069642005650 PLD-like domain; Region: PLDc_2; pfam13091 1069642005651 putative active site [active] 1069642005652 catalytic site [active] 1069642005653 Predicted ATPase [General function prediction only]; Region: COG3911 1069642005654 AAA domain; Region: AAA_28; pfam13521 1069642005655 SGNH_hydrolase, or GDSL_hydrolase, is a diverse family of lipases and esterases. The tertiary fold of the enzyme is substantially different from that of the alpha/beta hydrolase family and unique among all known hydrolases; its active site closely...; Region: SGNH_hydrolase; cd00229 1069642005656 active site 1069642005657 catalytic triad [active] 1069642005658 oxyanion hole [active] 1069642005659 polycystic kidney disease I (PKD) domain; similar to other cell-surface modules, with an IG-like fold; domain probably functions as a ligand binding site in protein-protein or protein-carbohydrate interactions; a single instance of the repeat is...; Region: PKD; cd00146 1069642005660 Repeats in polycystic kidney disease 1 (PKD1) and other proteins; Region: PKD; smart00089 1069642005661 Hedgehog/Intein domain, found in Hedgehog proteins as well as proteins which contain inteins and undergo protein splicing (e.g. DnaB, RIR1-2, GyrA and Pol). In protein splicing an intervening polypeptide sequence - the intein - is excised from a protein; Region: Hint; cd00081 1069642005662 thioester formation/cholesterol transfer; other site 1069642005663 Response regulator receiver domain; Region: Response_reg; pfam00072 1069642005664 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 1069642005665 active site 1069642005666 phosphorylation site [posttranslational modification] 1069642005667 intermolecular recognition site; other site 1069642005668 dimerization interface [polypeptide binding]; other site 1069642005669 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 1069642005670 dimerization interface [polypeptide binding]; other site 1069642005671 Serine phosphatase RsbU, regulator of sigma subunit [Signal transduction mechanisms / Transcription]; Region: RsbU; COG2208 1069642005672 Stage II sporulation protein E (SpoIIE); Region: SpoIIE; pfam07228 1069642005673 FecR protein; Region: FecR; pfam04773 1069642005674 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 1069642005675 PAS domain; Region: PAS_9; pfam13426 1069642005676 putative active site [active] 1069642005677 heme pocket [chemical binding]; other site 1069642005678 PAS fold; Region: PAS_4; pfam08448 1069642005679 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 1069642005680 putative binding surface; other site 1069642005681 active site 1069642005682 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 1069642005683 ATP binding site [chemical binding]; other site 1069642005684 Mg2+ binding site [ion binding]; other site 1069642005685 G-X-G motif; other site 1069642005686 superoxide dismutase; Provisional; Region: PRK10543 1069642005687 Iron/manganese superoxide dismutases, alpha-hairpin domain; Region: Sod_Fe_N; pfam00081 1069642005688 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 1069642005689 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 1069642005690 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 1069642005691 non-specific DNA binding site [nucleotide binding]; other site 1069642005692 salt bridge; other site 1069642005693 sequence-specific DNA binding site [nucleotide binding]; other site 1069642005694 Cupin domain; Region: Cupin_2; pfam07883 1069642005695 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 1069642005696 Response regulator receiver domain; Region: Response_reg; pfam00072 1069642005697 active site 1069642005698 phosphorylation site [posttranslational modification] 1069642005699 intermolecular recognition site; other site 1069642005700 dimerization interface [polypeptide binding]; other site 1069642005701 Protein of unknown function, DUF399; Region: DUF399; pfam04187 1069642005702 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 1069642005703 trimer interface [polypeptide binding]; other site 1069642005704 active site 1069642005705 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 1069642005706 Peptidase M14-like domain; uncharacterized subfamily; Region: M14-like_7; cd03862 1069642005707 putative active site [active] 1069642005708 Zn binding site [ion binding]; other site 1069642005709 Domain of unknown function (DUF1338); Region: DUF1338; pfam07063 1069642005710 c-di-GMP phosphodiesterase class II (HD-GYP domain) [Signal transduction mechanisms]; Region: COG2206 1069642005711 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 1069642005712 Zn2+ binding site [ion binding]; other site 1069642005713 Mg2+ binding site [ion binding]; other site 1069642005714 Membrane associated serine protease [Amino acid transport and metabolism]; Region: COG0705 1069642005715 Peptidase S8 family domain in Subtilisin-like proteins; Region: Peptidases_S8_Subtilisin_like; cd07473 1069642005716 catalytic triad [active] 1069642005717 putative active site [active] 1069642005718 PAP2_like_5 proteins. PAP2 is a super-family of phosphatases and haloperoxidases. This subgroup, which is specific to bacteria, lacks functional characterization and may act as a membrane-associated lipid phosphatase; Region: PAP2_like_5; cd03394 1069642005719 active site 1069642005720 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 1069642005721 PAP2_like_4 proteins. PAP2 is a super-family of phosphatases and haloperoxidases. This subgroup, which is specific to bacteria, lacks functional characterization and may act as a membrane-associated lipid phosphatase; Region: PAP2_like_4; cd03395 1069642005722 active site 1069642005723 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 1069642005724 Domain of unknown function (DUF3943); Region: DUF3943; pfam13084 1069642005725 Ferredoxin reductase (FNR), an FAD and NAD(P) binding protein, was intially identified as a chloroplast reductase activity, catalyzing the electron transfer from reduced iron-sulfur protein ferredoxin to NADP+ as the final step in the electron transport...; Region: FNR_like; cl06868 1069642005726 FMN reductase; Validated; Region: fre; PRK08051 1069642005727 FAD binding pocket [chemical binding]; other site 1069642005728 conserved FAD binding motif [chemical binding]; other site 1069642005729 phosphate binding motif [ion binding]; other site 1069642005730 beta-alpha-beta structure motif; other site 1069642005731 NAD binding pocket [chemical binding]; other site 1069642005732 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 1069642005733 EamA-like transporter family; Region: EamA; pfam00892 1069642005734 EamA-like transporter family; Region: EamA; pfam00892 1069642005735 hypothetical protein; Provisional; Region: PRK14013 1069642005736 Excinuclease ATPase subunit [DNA replication, recombination, and repair]; Region: UvrA; COG0178 1069642005737 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 1069642005738 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 1069642005739 ATP-binding cassette domain II of the excision repair protein UvrA; Region: ABC_UvrA_II; cd03271 1069642005740 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 1069642005741 metal binding site 2 [ion binding]; metal-binding site 1069642005742 putative DNA binding helix; other site 1069642005743 metal binding site 1 [ion binding]; metal-binding site 1069642005744 dimer interface [polypeptide binding]; other site 1069642005745 structural Zn2+ binding site [ion binding]; other site 1069642005746 putative GTP cyclohydrolase; Provisional; Region: PRK13674 1069642005747 Maf-like protein; Region: Maf; pfam02545 1069642005748 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 1069642005749 active site 1069642005750 dimer interface [polypeptide binding]; other site 1069642005751 Cytidine deaminase zinc-binding domain. These enzymes are Zn dependent. The zinc ion in the active site plays a central role in the proposed catalytic mechanism, activating a water molecule to form a hydroxide ion that performs a nucleophilic attack on...; Region: cytidine_deaminase; cd01283 1069642005752 active site 1069642005753 catalytic motif [active] 1069642005754 Zn binding site [ion binding]; other site 1069642005755 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 1069642005756 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 1069642005757 substrate binding pocket [chemical binding]; other site 1069642005758 membrane-bound complex binding site; other site 1069642005759 hinge residues; other site 1069642005760 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 1069642005761 putative catalytic site [active] 1069642005762 putative metal binding site [ion binding]; other site 1069642005763 putative phosphate binding site [ion binding]; other site 1069642005764 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 1069642005765 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 1069642005766 substrate binding pocket [chemical binding]; other site 1069642005767 membrane-bound complex binding site; other site 1069642005768 hinge residues; other site 1069642005769 ABC-type amino acid transport/signal transduction systems, periplasmic component/domain [Amino acid transport and metabolism / Signal transduction mechanisms]; Region: HisJ; COG0834 1069642005770 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 1069642005771 substrate binding pocket [chemical binding]; other site 1069642005772 membrane-bound complex binding site; other site 1069642005773 hinge residues; other site 1069642005774 SurA N-terminal domain; Region: SurA_N_3; cl07813 1069642005775 rod shape-determining protein MreC; Provisional; Region: PRK13922 1069642005776 rod shape-determining protein MreC; Region: MreC; pfam04085 1069642005777 penicillin-binding protein 2; Region: pbp2_mrdA; TIGR03423 1069642005778 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 1069642005779 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 1069642005780 rod shape-determining protein RodA; Region: rodA_shape; TIGR02210 1069642005781 Bacterial Ig-like domain (group 3); Region: Big_3_4; pfam13754 1069642005782 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 1069642005783 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 1069642005784 N-acetyl-D-glucosamine binding site [chemical binding]; other site 1069642005785 catalytic residue [active] 1069642005786 Protein of unknown function (DUF3798); Region: DUF3798; pfam12683 1069642005787 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 1069642005788 catalytic residues [active] 1069642005789 Predicted permeases [General function prediction only]; Region: COG0795 1069642005790 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 1069642005791 DNA recombination-mediator protein A; Region: DNA_processg_A; pfam02481 1069642005792 DNA protecting protein DprA; Region: dprA; TIGR00732 1069642005793 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 1069642005794 tol-pal system protein YbgF; Region: tol_pal_ybgF; TIGR02795 1069642005795 Competence protein; Region: Competence; pfam03772 1069642005796 Predicted hydrolase (metallo-beta-lactamase superfamily) [General function prediction only]; Region: ComEC; COG2333 1069642005797 G8 domain; Region: G8; pfam10162 1069642005798 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 1069642005799 Cu(I) binding site [ion binding]; other site 1069642005800 Alanine dehydrogenase [Amino acid transport and metabolism]; Region: Ald; COG0686 1069642005801 Alanine dehydrogenase NAD-binding and catalytic domains; Region: L-AlaDH; cd05305 1069642005802 hexamer interface [polypeptide binding]; other site 1069642005803 ligand binding site [chemical binding]; other site 1069642005804 putative active site [active] 1069642005805 NAD(P) binding site [chemical binding]; other site 1069642005806 Predicted amidohydrolase [General function prediction only]; Region: COG0388 1069642005807 Uncharacterized subgroup of the nitrilase superfamily; some members of this subgroup have an N-terminal RimI domain (class 12 nitrilases); Region: nitrilase_Rim1_like; cd07574 1069642005808 putative active site [active] 1069642005809 catalytic triad [active] 1069642005810 putative dimer interface [polypeptide binding]; other site 1069642005811 UDP-3-O-[3-hydroxymyristoyl] N-acetylglucosamine deacetylase; Reviewed; Region: lpxC; PRK13186 1069642005812 UDP-3-O-acyl N-acetylglycosamine deacetylase; Region: LpxC; pfam03331 1069642005813 L-asparaginase II; Region: Asparaginase_II; pfam06089 1069642005814 Calx-beta domain; Region: Calx-beta; cl02522 1069642005815 Alpha-tubulin suppressor and related RCC1 domain-containing proteins [Cell division and chromosome partitioning / Cytoskeleton]; Region: ATS1; COG5184 1069642005816 Alpha-tubulin suppressor and related RCC1 domain-containing proteins [Cell division and chromosome partitioning / Cytoskeleton]; Region: ATS1; COG5184 1069642005817 Regulator of chromosome condensation (RCC1) repeat; Region: RCC1_2; pfam13540 1069642005818 Regulator of chromosome condensation (RCC1) repeat; Region: RCC1_2; pfam13540 1069642005819 Regulator of chromosome condensation (RCC1) repeat; Region: RCC1_2; pfam13540 1069642005820 Holliday junction DNA helicase RuvB; Reviewed; Region: ruvB; PRK00080 1069642005821 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 1069642005822 Walker A motif; other site 1069642005823 ATP binding site [chemical binding]; other site 1069642005824 Walker B motif; other site 1069642005825 arginine finger; other site 1069642005826 Holliday junction DNA helicase ruvB C-terminus; Region: RuvB_C; pfam05491 1069642005827 Holliday junction DNA helicase RuvA; Reviewed; Region: ruvA; PRK00116 1069642005828 RuvA N terminal domain; Region: RuvA_N; pfam01330 1069642005829 RuvA, C-terminal domain; Region: RuvA_C; pfam07499 1069642005830 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 1069642005831 active site 1069642005832 putative DNA-binding cleft [nucleotide binding]; other site 1069642005833 dimer interface [polypeptide binding]; other site 1069642005834 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 1069642005835 TPR motif; other site 1069642005836 binding surface 1069642005837 elongation factor P; Validated; Region: PRK00529 1069642005838 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 1069642005839 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 1069642005840 RNA binding site [nucleotide binding]; other site 1069642005841 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 1069642005842 RNA binding site [nucleotide binding]; other site 1069642005843 AsmA-like C-terminal region; Region: AsmA_2; pfam13502 1069642005844 Family of unknown function (DUF490); Region: DUF490; pfam04357 1069642005845 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 1069642005846 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 1069642005847 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 1069642005848 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 1069642005849 Surface antigen; Region: Bac_surface_Ag; pfam01103 1069642005850 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 1069642005851 active site 1069642005852 The hotdog fold was initially identified in the E. coli FabA (beta-hydroxydecanoyl-acyl carrier protein (ACP)-dehydratase) structure and subsequently in 4HBT (4-hydroxybenzoyl-CoA thioesterase) from Pseudomonas. A number of other seemingly unrelated...; Region: hot_dog; cl00509 1069642005853 active site 2 [active] 1069642005854 Domon-like domain of UDP-N-acetylenolpyruvoylglucosamine reductase; Region: DOMON_murB_like; cd09627 1069642005855 putative heme binding site [chemical binding]; other site 1069642005856 Uncharacterized protein involved in propionate catabolism [General function prediction only]; Region: PrpD; COG2079 1069642005857 Phosphoenolpyruvate phosphomutase; Region: PEP_mutase; pfam13714 1069642005858 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 1069642005859 tetramer interface [polypeptide binding]; other site 1069642005860 active site 1069642005861 Mg2+/Mn2+ binding site [ion binding]; other site 1069642005862 Cache domain; Region: Cache_1; pfam02743 1069642005863 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 1069642005864 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1069642005865 dimer interface [polypeptide binding]; other site 1069642005866 putative CheW interface [polypeptide binding]; other site 1069642005867 Cache domain; Region: Cache_1; pfam02743 1069642005868 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 1069642005869 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1069642005870 dimer interface [polypeptide binding]; other site 1069642005871 putative CheW interface [polypeptide binding]; other site 1069642005872 Small Multidrug Resistance protein; Region: Multi_Drug_Res; cl00910 1069642005873 lipoate-protein ligase A; Provisional; Region: lplA; PRK03822 1069642005874 Lipoate-protein ligase A [Coenzyme metabolism]; Region: LplA; COG0095 1069642005875 Bacterial lipoate protein ligase C-terminus; Region: Lip_prot_lig_C; pfam10437 1069642005876 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 1069642005877 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 1069642005878 active site 1069642005879 metal binding site [ion binding]; metal-binding site 1069642005880 Protein of unknown function (DUF1304); Region: DUF1304; pfam06993 1069642005881 citrate synthase; Provisional; Region: PRK14033 1069642005882 Cold-active citrate synthase (CS) from an Antarctic bacterial strain DS2-3R (Ds)-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...; Region: DsCS_like; cd06111 1069642005883 dimer interface [polypeptide binding]; other site 1069642005884 active site 1069642005885 citrylCoA binding site [chemical binding]; other site 1069642005886 oxalacetate/citrate binding site [chemical binding]; other site 1069642005887 coenzyme A binding site [chemical binding]; other site 1069642005888 catalytic triad [active] 1069642005889 Bacillus subtilis PhoD and related proteins, metallophosphatase domain; Region: MPP_PhoD; cd07389 1069642005890 putative active site [active] 1069642005891 putative metal binding site [ion binding]; other site 1069642005892 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 1069642005893 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 1069642005894 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 1069642005895 apolar tunnel; other site 1069642005896 heme binding site [chemical binding]; other site 1069642005897 dimerization interface [polypeptide binding]; other site 1069642005898 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1069642005899 DNA-binding transcriptional regulator OxyR; Provisional; Region: PRK11151 1069642005900 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 1069642005901 dimerization interface [polypeptide binding]; other site 1069642005902 peroxiredoxin; Region: AhpC; TIGR03137 1069642005903 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 1069642005904 dimer interface [polypeptide binding]; other site 1069642005905 decamer (pentamer of dimers) interface [polypeptide binding]; other site 1069642005906 catalytic triad [active] 1069642005907 peroxidatic and resolving cysteines [active] 1069642005908 alkyl hydroperoxide reductase subunit F; Region: AhpF; TIGR03140 1069642005909 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 1069642005910 catalytic residue [active] 1069642005911 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 1069642005912 catalytic residues [active] 1069642005913 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 1069642005914 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1069642005915 Dipeptidyl aminopeptidases/acylaminoacyl-peptidases [Amino acid transport and metabolism]; Region: DAP2; COG1506 1069642005916 WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions including adaptor/regulatory modules in signal transduction, pre-mRNA processing and cytoskeleton assembly; typically contains a GH dipeptide 11-24 residues from...; Region: WD40; cl02567 1069642005917 structural tetrad; other site 1069642005918 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 1069642005919 This domain superfamily is found in a variety of structurally related metalloproteins, including the type I extradiol dioxygenases, glyoxalase I and a group of antibiotic resistance proteins; Region: Glo_EDI_BRP_like; cd06587 1069642005920 active site 1069642005921 Peptidase M1 family containing Aminopeptidase N; Region: M1_APN_1; cd09600 1069642005922 aminopeptidase N, Escherichia coli type; Region: pepN_proteo; TIGR02414 1069642005923 active site 1069642005924 Zn binding site [ion binding]; other site 1069642005925 GTP cyclohydrolase I; Provisional; Region: folE; PRK09347 1069642005926 GTP cyclohydrolase I; Provisional; Region: PLN03044 1069642005927 active site 1069642005928 PilZ domain; Region: PilZ; pfam07238 1069642005929 YceI-like domain; Region: YceI; cl01001 1069642005930 Cytochrome c; Region: Cytochrom_C; pfam00034 1069642005931 Trypsin-like serine protease; Many of these are synthesized as inactive precursor zymogens that are cleaved during limited proteolysis to generate their active forms. Alignment contains also inactive enzymes that have substitutions of the catalytic triad...; Region: Tryp_SPc; cd00190 1069642005932 cleavage site 1069642005933 active site 1069642005934 substrate binding sites [chemical binding]; other site 1069642005935 Protein of unknown function (DUF2785); Region: DUF2785; pfam10978 1069642005936 Flavin containing amine oxidoreductase; Region: Amino_oxidase; pfam01593 1069642005937 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy_3; pfam13640 1069642005938 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 1069642005939 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 1069642005940 ATP-binding cassette domain 1 of multidrug resistance-associated protein, subfamily C; Region: ABCC_MRP_domain1; cd03250 1069642005941 Walker A/P-loop; other site 1069642005942 ATP binding site [chemical binding]; other site 1069642005943 Q-loop/lid; other site 1069642005944 ABC transporter signature motif; other site 1069642005945 Walker B; other site 1069642005946 D-loop; other site 1069642005947 H-loop/switch region; other site 1069642005948 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 1069642005949 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 1069642005950 ATP-binding cassette domain 2 of multidrug resistance-associated protein; Region: ABCC_MRP_domain2; cd03244 1069642005951 Mg/Co/Ni transporter MgtE (contains CBS domain) [Inorganic ion transport and metabolism]; Region: MgtE; COG2239 1069642005952 MgtE intracellular N domain; Region: MgtE_N; pfam03448 1069642005953 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domain in the magnesium transporter, MgtE. MgtE and its homologs are found in eubacteria, archaebacteria, and eukaryota. Members of this family transport Mg2+ or other...; Region: CBS_pair_Mg_transporter; cd04606 1069642005954 Divalent cation transporter; Region: MgtE; pfam01769 1069642005955 Peptidase inhibitor I9; Region: Inhibitor_I9; pfam05922 1069642005956 Peptidase S8 family domain in Subtilisin-like proteins; Region: Peptidases_S8_Subtilisin_like; cd07473 1069642005957 catalytic triad [active] 1069642005958 putative active site [active] 1069642005959 PilZ domain; Region: PilZ; pfam07238 1069642005960 Protein of unknown function (DUF502); Region: DUF502; cl01107 1069642005961 Protein of unknown function (DUF1275); Region: DUF1275; pfam06912 1069642005962 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 1069642005963 lipoyl attachment site [posttranslational modification]; other site 1069642005964 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 1069642005965 metal binding site 2 [ion binding]; metal-binding site 1069642005966 putative DNA binding helix; other site 1069642005967 metal binding site 1 [ion binding]; metal-binding site 1069642005968 dimer interface [polypeptide binding]; other site 1069642005969 structural Zn2+ binding site [ion binding]; other site 1069642005970 multifunctional aminopeptidase A; Provisional; Region: PRK00913 1069642005971 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 1069642005972 interface (dimer of trimers) [polypeptide binding]; other site 1069642005973 Substrate-binding/catalytic site; other site 1069642005974 Zn-binding sites [ion binding]; other site 1069642005975 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 1069642005976 putative catalytic site [active] 1069642005977 putative metal binding site [ion binding]; other site 1069642005978 putative phosphate binding site [ion binding]; other site 1069642005979 CO2+/MG2+ efflux protein ApaG; Reviewed; Region: apaG; PRK05461 1069642005980 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 1069642005981 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 1069642005982 Cupredoxin-like domain; Region: Cupredoxin_1; cl17234 1069642005983 pyridoxamine-phosphate oxidase; Region: pdxH; TIGR00558 1069642005984 Pyridoxamine 5'-phosphate oxidase; Region: Pyridox_oxidase; pfam01243 1069642005985 Pyridoxine 5'-phosphate oxidase C-terminal dimerisation region; Region: PNPOx_C; pfam10590 1069642005986 Domain amino terminal to FKBP-type peptidyl-prolyl isomerase; Region: FKBP_N; pfam01346 1069642005987 FKBP-type peptidyl-prolyl cis-trans isomerases 1 [Posttranslational modification, protein turnover, chaperones]; Region: FkpA; COG0545 1069642005988 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 1069642005989 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 1069642005990 tRNA 2-selenouridine synthase; Provisional; Region: PRK11784 1069642005991 active site residue [active] 1069642005992 AAA domain; Region: AAA_17; pfam13207 1069642005993 selenophosphate synthetase; Provisional; Region: PRK00943 1069642005994 Selenophosphate synthetase (SelD) catalyzes the conversion of selenium to selenophosphate which is required by a number of bacterial, archaeal and eukaryotic organisms for synthesis of Secys-tRNA, the precursor of selenocysteine in selenoenzymes. The...; Region: SelD; cd02195 1069642005995 dimerization interface [polypeptide binding]; other site 1069642005996 putative ATP binding site [chemical binding]; other site 1069642005997 Sec-independent protein secretion pathway components [Intracellular trafficking and secretion]; Region: TatA; COG1826 1069642005998 Sulfatase; Region: Sulfatase; cl17466 1069642005999 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1069642006000 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 1069642006001 active site 1069642006002 phosphorylation site [posttranslational modification] 1069642006003 intermolecular recognition site; other site 1069642006004 dimerization interface [polypeptide binding]; other site 1069642006005 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 1069642006006 DNA binding site [nucleotide binding] 1069642006007 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1069642006008 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 1069642006009 dimerization interface [polypeptide binding]; other site 1069642006010 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 1069642006011 dimer interface [polypeptide binding]; other site 1069642006012 phosphorylation site [posttranslational modification] 1069642006013 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 1069642006014 ATP binding site [chemical binding]; other site 1069642006015 Mg2+ binding site [ion binding]; other site 1069642006016 G-X-G motif; other site 1069642006017 Fibrinogen-related domains (FReDs); C terminal globular domain of fibrinogen. Fibrinogen is involved in blood clotting, being activated by thrombin to assemble into fibrin clots. The N-termini of 2 times 3 chains come together to form a globular...; Region: FReD; cl00085 1069642006018 Fibrinogen-related domains (FReDs); C terminal globular domain of fibrinogen. Fibrinogen is involved in blood clotting, being activated by thrombin to assemble into fibrin clots. The N-termini of 2 times 3 chains come together to form a globular...; Region: FReD; cl00085 1069642006019 Fibrinogen-related domains (FReDs); C terminal globular domain of fibrinogen. Fibrinogen is involved in blood clotting, being activated by thrombin to assemble into fibrin clots. The N-termini of 2 times 3 chains come together to form a globular...; Region: FReD; cl00085 1069642006020 Fibrinogen-related domains (FReDs); C terminal globular domain of fibrinogen. Fibrinogen is involved in blood clotting, being activated by thrombin to assemble into fibrin clots. The N-termini of 2 times 3 chains come together to form a globular...; Region: FReD; cl00085 1069642006021 Chaperone of endosialidase; Region: Peptidase_S74; pfam13884 1069642006022 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 1069642006023 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 1069642006024 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 1069642006025 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 1069642006026 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 1069642006027 ATP-binding cassette domain 1 of multidrug resistance-associated protein, subfamily C; Region: ABCC_MRP_domain1; cd03250 1069642006028 Walker A/P-loop; other site 1069642006029 ATP binding site [chemical binding]; other site 1069642006030 Q-loop/lid; other site 1069642006031 ABC transporter signature motif; other site 1069642006032 Walker B; other site 1069642006033 D-loop; other site 1069642006034 H-loop/switch region; other site 1069642006035 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 1069642006036 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1069642006037 ABC-type Mn/Zn transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: ZnuC; COG1121 1069642006038 Walker A/P-loop; other site 1069642006039 ATP binding site [chemical binding]; other site 1069642006040 Q-loop/lid; other site 1069642006041 ABC transporter signature motif; other site 1069642006042 Walker B; other site 1069642006043 D-loop; other site 1069642006044 H-loop/switch region; other site 1069642006045 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 1069642006046 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 1069642006047 putative active site [active] 1069642006048 heme pocket [chemical binding]; other site 1069642006049 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 1069642006050 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 1069642006051 putative active site [active] 1069642006052 heme pocket [chemical binding]; other site 1069642006053 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 1069642006054 dimer interface [polypeptide binding]; other site 1069642006055 phosphorylation site [posttranslational modification] 1069642006056 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 1069642006057 ATP binding site [chemical binding]; other site 1069642006058 Mg2+ binding site [ion binding]; other site 1069642006059 G-X-G motif; other site 1069642006060 Protein of unknown function (DUF1504); Region: DUF1504; pfam07399 1069642006061 Protein of unknown function (DUF1524); Region: DUF1524; pfam07510 1069642006062 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 1069642006063 global nitrogen regulator NtcA, cyanobacterial; Region: NtcA_cyano; TIGR03697 1069642006064 ligand binding site [chemical binding]; other site 1069642006065 flexible hinge region; other site 1069642006066 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 1069642006067 putative switch regulator; other site 1069642006068 non-specific DNA interactions [nucleotide binding]; other site 1069642006069 DNA binding site [nucleotide binding] 1069642006070 sequence specific DNA binding site [nucleotide binding]; other site 1069642006071 putative cAMP binding site [chemical binding]; other site 1069642006072 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 1069642006073 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 1069642006074 ligand binding site [chemical binding]; other site 1069642006075 flexible hinge region; other site 1069642006076 Crp-like helix-turn-helix domain; Region: HTH_Crp_2; pfam13545 1069642006077 anaerobic ribonucleoside-triphosphate reductase activating protein; Region: RNR_activ_nrdG3; TIGR02826 1069642006078 4Fe-4S single cluster domain; Region: Fer4_12; pfam13353 1069642006079 anaerobic ribonucleoside-triphosphate reductase; Region: RNR_anaer_Bdell; TIGR02827 1069642006080 Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL; cl09939 1069642006081 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 1069642006082 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 1069642006083 ligand binding site [chemical binding]; other site 1069642006084 flexible hinge region; other site 1069642006085 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 1069642006086 putative switch regulator; other site 1069642006087 non-specific DNA interactions [nucleotide binding]; other site 1069642006088 DNA binding site [nucleotide binding] 1069642006089 sequence specific DNA binding site [nucleotide binding]; other site 1069642006090 putative cAMP binding site [chemical binding]; other site 1069642006091 Uncharacterized conserved protein (DUF2249); Region: DUF2249; pfam10006 1069642006092 Uncharacterized protein SCO1/SenC/PrrC, involved in biogenesis of respiratory and photosynthetic systems [General function prediction only]; Region: COG1999 1069642006093 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 1069642006094 Cu(I) binding site [ion binding]; other site 1069642006095 Uncharacterized conserved protein [Function unknown]; Region: COG1262 1069642006096 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; pfam03781 1069642006097 nitrite reductase, copper-containing; Region: Cu_nitrite_red; TIGR02376 1069642006098 Multicopper oxidase; Region: Cu-oxidase_3; pfam07732 1069642006099 Multicopper oxidase; Region: Cu-oxidase; pfam00394 1069642006100 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 1069642006101 Cytochrome c; Region: Cytochrom_C; pfam00034 1069642006102 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 1069642006103 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 1069642006104 metal-binding site [ion binding] 1069642006105 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 1069642006106 Soluble P-type ATPase [General function prediction only]; Region: COG4087 1069642006107 putative bifunctional cbb3-type cytochrome c oxidase subunit I/II; Provisional; Region: PRK14485 1069642006108 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 1069642006109 Low-spin heme binding site [chemical binding]; other site 1069642006110 Putative water exit pathway; other site 1069642006111 Binuclear center (active site) [active] 1069642006112 Putative proton exit pathway; other site 1069642006113 Cytochrome C oxidase, mono-heme subunit/FixO; Region: FixO; cl01130 1069642006114 cytochrome c oxidase, cbb3-type, subunit III; Region: ccoP; TIGR00782 1069642006115 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 1069642006116 cytochrome c oxidase accessory protein FixG; Region: ccoG_rdxA_fixG; TIGR02745 1069642006117 4Fe-4S binding domain; Region: Fer4_5; pfam12801 1069642006118 4Fe-4S binding domain; Region: Fer4; pfam00037 1069642006119 Ubp3 associated protein Bre5; Region: Bre5; pfam11614 1069642006120 Family description; Region: DsbD_2; pfam13386 1069642006121 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 1069642006122 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 1069642006123 ligand binding site [chemical binding]; other site 1069642006124 protein-L-isoaspartate O-methyltransferase; Reviewed; Region: pcm; PRK00312 1069642006125 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 1069642006126 S-adenosylmethionine binding site [chemical binding]; other site 1069642006127 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1069642006128 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 1069642006129 dimerization interface [polypeptide binding]; other site 1069642006130 Ferritin-like domain; Region: Ferritin; pfam00210 1069642006131 DPS protein, ferritin-like diiron-binding domain; Region: DPS; cd01043 1069642006132 dimerization interface [polypeptide binding]; other site 1069642006133 DPS ferroxidase diiron center [ion binding]; other site 1069642006134 ion pore; other site 1069642006135 Predicted divalent heavy-metal cations transporter [Inorganic ion transport and metabolism]; Region: COG0428 1069642006136 Na+/glutamate symporter [Amino acid transport and metabolism]; Region: GltS; COG0786 1069642006137 Domain of unknown function (DUF4423); Region: DUF4423; pfam14394 1069642006138 KH domain; Region: KH_4; pfam13083 1069642006139 Predicted RNA-binding protein (contains KH domain) [General function prediction only]; Region: COG1837 1069642006140 V8-like Glu-specific endopeptidase [Amino acid transport and metabolism]; Region: COG3591 1069642006141 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 1069642006142 iron-sulfur cluster [ion binding]; other site 1069642006143 [2Fe-2S] cluster binding site [ion binding]; other site 1069642006144 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 1069642006145 Multimeric flavodoxin WrbA [General function prediction only]; Region: WrbA; COG0655 1069642006146 Trypsin-like serine protease; Many of these are synthesized as inactive precursor zymogens that are cleaved during limited proteolysis to generate their active forms. Alignment contains also inactive enzymes that have substitutions of the catalytic triad...; Region: Tryp_SPc; cd00190 1069642006147 cleavage site 1069642006148 active site 1069642006149 substrate binding sites [chemical binding]; other site 1069642006150 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 1069642006151 Carboxylesterase family; Region: COesterase; pfam00135 1069642006152 substrate binding pocket [chemical binding]; other site 1069642006153 catalytic triad [active] 1069642006154 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 1069642006155 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 1069642006156 N-acetyl-D-glucosamine binding site [chemical binding]; other site 1069642006157 xanthine dehydrogenase, small subunit; Region: xanthine_xdhA; TIGR02963 1069642006158 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 1069642006159 CO dehydrogenase flavoprotein C-terminal domain; Region: CO_deh_flav_C; pfam03450 1069642006160 xanthine dehydrogenase, molybdopterin binding subunit; Region: xanthine_xdhB; TIGR02965 1069642006161 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 1069642006162 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 1069642006163 XdhC and CoxI family; Region: XdhC_CoxI; pfam02625 1069642006164 xanthine dehydrogenase accessory protein XdhC; Region: xanthine_xdhC; TIGR02964 1069642006165 XdhC Rossmann domain; Region: XdhC_C; pfam13478 1069642006166 cryptic adenine deaminase; Provisional; Region: PRK10027 1069642006167 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 1069642006168 Adenine deaminase (AdeC) directly deaminates adenine to form hypoxanthine. This reaction is part of one of the adenine salvage pathways, as well as the degradation pathway. It is important for adenine utilization as a purine, as well as a nitrogen source...; Region: AdeC; cd01295 1069642006169 active site 1069642006170 Adenine deaminase C-terminal domain; Region: Adenine_deam_C; pfam13382 1069642006171 Esterase PHB depolymerase; Region: Esterase_phd; pfam10503 1069642006172 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 1069642006173 apolar tunnel; other site 1069642006174 heme binding site [chemical binding]; other site 1069642006175 dimerization interface [polypeptide binding]; other site 1069642006176 CHASE2 is an extracellular sensory domain, which is present in various classes of transmembrane receptors that are parts of signal transduction pathways in bacteria; Region: CHASE2; smart01080 1069642006177 CHASE2 domain; Region: CHASE2; pfam05226 1069642006178 Adenylate cyclase, family 3 (some proteins contain HAMP domain) [Signal transduction mechanisms]; Region: CyaA; COG2114 1069642006179 cyclase homology domain; Region: CHD; cd07302 1069642006180 nucleotidyl binding site; other site 1069642006181 metal binding site [ion binding]; metal-binding site 1069642006182 dimer interface [polypeptide binding]; other site 1069642006183 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 1069642006184 binding surface 1069642006185 TPR motif; other site 1069642006186 tol-pal system protein YbgF; Region: tol_pal_ybgF; TIGR02795 1069642006187 FecR protein; Region: FecR; pfam04773 1069642006188 Alpha-tubulin suppressor and related RCC1 domain-containing proteins [Cell division and chromosome partitioning / Cytoskeleton]; Region: ATS1; COG5184 1069642006189 Regulator of chromosome condensation (RCC1) repeat; Region: RCC1; pfam00415 1069642006190 Regulator of chromosome condensation (RCC1) repeat; Region: RCC1_2; pfam13540 1069642006191 Regulator of chromosome condensation (RCC1) repeat; Region: RCC1; pfam00415 1069642006192 Uridine kinase [Nucleotide transport and metabolism]; Region: Udk; COG0572 1069642006193 Uridine monophosphate kinase (UMPK, EC 2.7.1.48), also known as uridine kinase or uridine-cytidine kinase (UCK), catalyzes the reversible phosphoryl transfer from ATP to uridine or cytidine to yield UMP or CMP. In the primidine nucleotide-salvage pathway; Region: UMPK; cd02023 1069642006194 ATP-binding site [chemical binding]; other site 1069642006195 Sugar specificity; other site 1069642006196 Pyrimidine base specificity; other site 1069642006197 Choline dehydrogenase and related flavoproteins [Amino acid transport and metabolism]; Region: BetA; COG2303 1069642006198 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 1069642006199 Choline dehydrogenase and related flavoproteins [Amino acid transport and metabolism]; Region: BetA; COG2303 1069642006200 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 1069642006201 Predicted periplasmic lipoprotein [General function prediction only]; Region: COG5633 1069642006202 META domain; Region: META; pfam03724 1069642006203 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 1069642006204 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 1069642006205 substrate binding pocket [chemical binding]; other site 1069642006206 membrane-bound complex binding site; other site 1069642006207 hinge residues; other site 1069642006208 PhnA Zinc-Ribbon; Region: PhnA_Zn_Ribbon; pfam08274 1069642006209 Uncharacterized Zn-ribbon-containing protein involved in phosphonate metabolism [Inorganic ion transport and metabolism]; Region: PhnA; COG2824 1069642006210 PhnA protein; Region: PhnA; pfam03831 1069642006211 Phosphorylase superfamily; Region: PNP_UDP_1; pfam01048 1069642006212 5'-methylthioadenosine/S-adenosylhomocysteine nucleosidase; Region: MTA/SAH-Nsdase; TIGR01704 1069642006213 bacteriophage N4 adsorption protein B; Provisional; Region: PRK14716 1069642006214 Glycosyl transferase family group 2; Region: Glyco_trans_2_3; pfam13632 1069642006215 UDP-N-acetylglucosamine 2-epimerase; Region: Epimerase_2; pfam02350 1069642006216 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 1069642006217 homodimer interface [polypeptide binding]; other site 1069642006218 active site 1069642006219 START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC (SRPBCC) ligand-binding domain superfamily; Region: SRPBCC; cl14643 1069642006220 hydrophobic ligand binding site; other site 1069642006221 D-ala-D-ala dipeptidase; Region: Peptidase_M15; cl00813 1069642006222 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; cl11986 1069642006223 domain II; other site 1069642006224 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 1069642006225 active site 1069642006226 phosphorylation site [posttranslational modification] 1069642006227 intermolecular recognition site; other site 1069642006228 dimerization interface [polypeptide binding]; other site 1069642006229 Old yellow enzyme (OYE)-related FMN binding domain, group 5. Each monomer of OYE contains FMN as a non-covalently bound cofactor, uses NADPH as a reducing agent with oxygens, quinones, and alpha,beta-unsaturated aldehydes and ketones, and can act as...; Region: OYE_like_5_FMN; cd04747 1069642006230 putative active site [active] 1069642006231 putative FMN binding site [chemical binding]; other site 1069642006232 putative substrate binding site [chemical binding]; other site 1069642006233 putative catalytic residue [active] 1069642006234 glutathionine S-transferase; Provisional; Region: PRK10542 1069642006235 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 1069642006236 C-terminal domain interface [polypeptide binding]; other site 1069642006237 GSH binding site (G-site) [chemical binding]; other site 1069642006238 dimer interface [polypeptide binding]; other site 1069642006239 C-terminal, alpha helical domain of Class Beta Glutathione S-transferases; Region: GST_C_Beta; cd03188 1069642006240 dimer interface [polypeptide binding]; other site 1069642006241 N-terminal domain interface [polypeptide binding]; other site 1069642006242 substrate binding pocket (H-site) [chemical binding]; other site 1069642006243 transport protein sec23; Provisional; Region: PLN00162 1069642006244 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1069642006245 Leucine Rich repeats (2 copies); Region: LRR_4; pfam12799 1069642006246 Leucine rich repeat; Region: LRR_8; pfam13855 1069642006247 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3214 1069642006248 Protein of unknown function (DUF1006); Region: DUF1006; pfam06224 1069642006249 AAA domain; Region: AAA_11; pfam13086 1069642006250 Part of AAA domain; Region: AAA_19; pfam13245 1069642006251 Superfamily I DNA and RNA helicases and helicase subunits [DNA replication, recombination, and repair]; Region: COG1112 1069642006252 AAA domain; Region: AAA_12; pfam13087 1069642006253 Superfamily of nucleases including Short Patch Repair (Vsr) Endonucleases, archaeal Holliday junction resolvases, MutH methy-directed DNA mismatch-repair endonucleases, and catalytic domains of many restriction endonucleases, such as EcoRI, BamHI, and...; Region: Restriction_endonuclease_like; cl00277 1069642006254 putative active site [active] 1069642006255 insertion element IS2 transposase InsD; Provisional; Region: PRK14702 1069642006256 HTH-like domain; Region: HTH_21; pfam13276 1069642006257 Integrase core domain; Region: rve; pfam00665 1069642006258 Integrase core domain; Region: rve_3; pfam13683 1069642006259 SH3 domain protein; Region: SH3_and_anchor; TIGR04211 1069642006260 SH3 domain protein; Region: SH3_and_anchor; TIGR04211 1069642006261 insertion element IS2 transposase InsD; Provisional; Region: PRK14702 1069642006262 HTH-like domain; Region: HTH_21; pfam13276 1069642006263 Integrase core domain; Region: rve; pfam00665 1069642006264 Integrase core domain; Region: rve_3; pfam13683 1069642006265 The hotdog fold was initially identified in the E. coli FabA (beta-hydroxydecanoyl-acyl carrier protein (ACP)-dehydratase) structure and subsequently in 4HBT (4-hydroxybenzoyl-CoA thioesterase) from Pseudomonas. A number of other seemingly unrelated...; Region: hot_dog; cl00509 1069642006266 active site 2 [active] 1069642006267 active site 1 [active] 1069642006268 HEAT repeats; Region: HEAT_2; pfam13646 1069642006269 dihydroorotase; Validated; Region: PRK09060 1069642006270 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 1069642006271 Dihydroorotase (DHOase), subgroup IIb; DHOases catalyze the reversible interconversion of carbamoyl aspartate to dihydroorotate, a key reaction in pyrimidine biosynthesis. This group contains the archeal members of the DHOase family; Region: DHOase_IIb; cd01318 1069642006272 active site 1069642006273 Intracellular septation protein A; Region: IspA; cl01098 1069642006274 enoyl-CoA hydratase; Provisional; Region: PRK09245 1069642006275 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 1069642006276 substrate binding site [chemical binding]; other site 1069642006277 oxyanion hole (OAH) forming residues; other site 1069642006278 trimer interface [polypeptide binding]; other site 1069642006279 Peptidase S8 family domain in Subtilisin-like proteins; Region: Peptidases_S8_Subtilisin_like; cd07473 1069642006280 catalytic triad [active] 1069642006281 putative active site [active] 1069642006282 Bacitracin resistance protein BacA; Region: BacA; pfam02673 1069642006283 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 1069642006284 Mechanosensitive ion channel; Region: MS_channel; pfam00924 1069642006285 hypothetical protein; Provisional; Region: PRK12472 1069642006286 N-acetylmuramoyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: AmiC; COG0860 1069642006287 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 1069642006288 active site 1069642006289 metal binding site [ion binding]; metal-binding site 1069642006290 ribonuclease PH; Reviewed; Region: rph; PRK00173 1069642006291 Ribonuclease PH; Region: RNase_PH_bact; cd11362 1069642006292 hexamer interface [polypeptide binding]; other site 1069642006293 active site 1069642006294 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 1069642006295 active site 1069642006296 dimerization interface [polypeptide binding]; other site 1069642006297 GTPase RsgA; Reviewed; Region: PRK01889 1069642006298 S1_like: Ribosomal protein S1-like RNA-binding domain. Found in a wide variety of RNA-associated proteins. Originally identified in S1 ribosomal protein. This superfamily also contains the Cold Shock Domain (CSD), which is a homolog of the S1 domain; Region: S1_like; cl09927 1069642006299 RNA binding site [nucleotide binding]; other site 1069642006300 Ribosomal interacting GTPase YjeQ/EngC, a circularly permuted subfamily of the Ras GTPases; Region: YjeQ_EngC; cd01854 1069642006301 GTPase/Zn-binding domain interface [polypeptide binding]; other site 1069642006302 GTP/Mg2+ binding site [chemical binding]; other site 1069642006303 G4 box; other site 1069642006304 G5 box; other site 1069642006305 G1 box; other site 1069642006306 Switch I region; other site 1069642006307 G2 box; other site 1069642006308 G3 box; other site 1069642006309 Switch II region; other site 1069642006310 ribose-phosphate pyrophosphokinase; Provisional; Region: PRK01259 1069642006311 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 1069642006312 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1069642006313 active site 1069642006314 50S ribosomal protein L25/general stress protein Ctc; Reviewed; Region: PRK05618 1069642006315 Ribosomal L25/TL5/CTC N-terminal 5S rRNA binding domain; Region: Ribosomal_L25_TL5_CTC; cd00495 1069642006316 5S rRNA interface [nucleotide binding]; other site 1069642006317 CTC domain interface [polypeptide binding]; other site 1069642006318 L16 interface [polypeptide binding]; other site 1069642006319 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 1069642006320 putative active site [active] 1069642006321 catalytic residue [active] 1069642006322 GTP-binding protein YchF; Reviewed; Region: PRK09601 1069642006323 YchF GTPase; Region: YchF; cd01900 1069642006324 G1 box; other site 1069642006325 GTP/Mg2+ binding site [chemical binding]; other site 1069642006326 Switch I region; other site 1069642006327 G2 box; other site 1069642006328 Switch II region; other site 1069642006329 G3 box; other site 1069642006330 G4 box; other site 1069642006331 G5 box; other site 1069642006332 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 1069642006333 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 1069642006334 Amidase; Region: Amidase; pfam01425 1069642006335 nickel ABC transporter, permease subunit NikC; Region: nickel_nikC; TIGR02790 1069642006336 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 1069642006337 dimer interface [polypeptide binding]; other site 1069642006338 conserved gate region; other site 1069642006339 putative PBP binding loops; other site 1069642006340 ABC-ATPase subunit interface; other site 1069642006341 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 1069642006342 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 1069642006343 dimer interface [polypeptide binding]; other site 1069642006344 conserved gate region; other site 1069642006345 putative PBP binding loops; other site 1069642006346 ABC-ATPase subunit interface; other site 1069642006347 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 1069642006348 binding surface 1069642006349 Tetratricopeptide repeat; Region: TPR_16; pfam13432 1069642006350 TPR motif; other site 1069642006351 Tetratricopeptide repeat; Region: TPR_16; pfam13432 1069642006352 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 1069642006353 N-acetyl-D-glucosamine binding site [chemical binding]; other site 1069642006354 catalytic residue [active] 1069642006355 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 1069642006356 AAA domain; Region: AAA_25; pfam13481 1069642006357 Walker A motif; other site 1069642006358 ATP binding site [chemical binding]; other site 1069642006359 Walker B motif; other site 1069642006360 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 1069642006361 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 1069642006362 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 1069642006363 ligand binding site [chemical binding]; other site 1069642006364 flexible hinge region; other site 1069642006365 Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems; Region: PBP1_ABC_sugar_binding_like_6; cd06315 1069642006366 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 1069642006367 putative ligand binding site [chemical binding]; other site 1069642006368 PilZ domain; Region: PilZ; pfam07238 1069642006369 glycerol kinase; Provisional; Region: glpK; PRK00047 1069642006370 Escherichia coli glycerol kinase-like proteins; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_EcGK_like; cd07786 1069642006371 N- and C-terminal domain interface [polypeptide binding]; other site 1069642006372 active site 1069642006373 MgATP binding site [chemical binding]; other site 1069642006374 catalytic site [active] 1069642006375 metal binding site [ion binding]; metal-binding site 1069642006376 glycerol binding site [chemical binding]; other site 1069642006377 homotetramer interface [polypeptide binding]; other site 1069642006378 homodimer interface [polypeptide binding]; other site 1069642006379 FBP binding site [chemical binding]; other site 1069642006380 protein IIAGlc interface [polypeptide binding]; other site 1069642006381 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 1069642006382 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: MGAT-like; Region: LPLAT_MGAT-like; cd07987 1069642006383 putative acyl-acceptor binding pocket; other site 1069642006384 imidazolonepropionase; Validated; Region: PRK09356 1069642006385 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 1069642006386 active site 1069642006387 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 1069642006388 Alpha-crystallin domain (ACD) of alpha-crystallin-type small(s) heat shock proteins (Hsps). sHsps are small stress induced proteins with monomeric masses between 12 -43 kDa, whose common feature is the Alpha-crystallin domain (ACD). sHsps are generally...; Region: ACD_sHsps-like; cd06464 1069642006389 putative dimer interface [polypeptide binding]; other site 1069642006390 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 1069642006391 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 1069642006392 2-oxoglutarate dehydrogenase E1 component; Reviewed; Region: sucA; PRK09404 1069642006393 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 1069642006394 TPP-binding site [chemical binding]; other site 1069642006395 Transketolase, pyrimidine binding domain; Region: Transket_pyr; pfam02779 1069642006396 dihydrolipoamide succinyltransferase; Validated; Region: PRK05704 1069642006397 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 1069642006398 E3 interaction surface; other site 1069642006399 lipoyl attachment site [posttranslational modification]; other site 1069642006400 e3 binding domain; Region: E3_binding; pfam02817 1069642006401 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 1069642006402 dihydrolipoamide dehydrogenase; Validated; Region: PRK06327 1069642006403 Anaerobic glycerol-3-phosphate dehydrogenase [Amino acid transport and metabolism]; Region: GlpB; cl17730 1069642006404 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1069642006405 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 1069642006406 Domain of unknown function (DUF4421); Region: DUF4421; pfam14391 1069642006407 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 1069642006408 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 1069642006409 Walker A/P-loop; other site 1069642006410 ATP binding site [chemical binding]; other site 1069642006411 Q-loop/lid; other site 1069642006412 ABC transporter signature motif; other site 1069642006413 Walker B; other site 1069642006414 D-loop; other site 1069642006415 H-loop/switch region; other site 1069642006416 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 1069642006417 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 1069642006418 putative PBP binding loops; other site 1069642006419 dimer interface [polypeptide binding]; other site 1069642006420 ABC-ATPase subunit interface; other site 1069642006421 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 1069642006422 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 1069642006423 urocanate hydratase; Provisional; Region: PRK05414 1069642006424 Phenylalanine ammonia-lyase (PAL) and histidine ammonia-lyase (HAL); Region: PAL-HAL; cd00332 1069642006425 active sites [active] 1069642006426 tetramer interface [polypeptide binding]; other site 1069642006427 Pentose-5-phosphate-3-epimerase [Carbohydrate transport and metabolism]; Region: Rpe; COG0036 1069642006428 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 1069642006429 substrate binding site [chemical binding]; other site 1069642006430 hexamer interface [polypeptide binding]; other site 1069642006431 metal binding site [ion binding]; metal-binding site 1069642006432 methionyl-tRNA formyltransferase; Reviewed; Region: fmt; PRK00005 1069642006433 Methionyl-tRNA formyltransferase, N-terminal hydrolase domain; Region: FMT_core_Met-tRNA-FMT_N; cd08646 1069642006434 putative active site [active] 1069642006435 substrate binding site [chemical binding]; other site 1069642006436 putative cosubstrate binding site; other site 1069642006437 catalytic site [active] 1069642006438 C-terminal domain of Formyltransferase and other enzymes; Region: Met_tRNA_FMT_C; cd08704 1069642006439 substrate binding site [chemical binding]; other site 1069642006440 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 1069642006441 active site 1069642006442 catalytic residues [active] 1069642006443 metal binding site [ion binding]; metal-binding site 1069642006444 Predicted permeases [General function prediction only]; Region: COG0795 1069642006445 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 1069642006446 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 1069642006447 Response regulator receiver domain; Region: Response_reg; pfam00072 1069642006448 active site 1069642006449 phosphorylation site [posttranslational modification] 1069642006450 intermolecular recognition site; other site 1069642006451 dimerization interface [polypeptide binding]; other site 1069642006452 Nicotinate-nucleotide pyrophosphorylase [Coenzyme metabolism]; Region: NadC; COG0157 1069642006453 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 1069642006454 dimerization interface [polypeptide binding]; other site 1069642006455 active site 1069642006456 Biotin-(acetyl-CoA carboxylase) ligase [Coenzyme metabolism]; Region: BirA; COG0340 1069642006457 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; pfam03099 1069642006458 Peroxiredoxin (PRX)-like 1 family; hypothetical proteins that show sequence similarity to PRXs. Members of this group contain a conserved cysteine that aligns to the first cysteine in the CXXC motif of TRX. This does not correspond to the peroxidatic...; Region: PRX_like1; cd02969 1069642006459 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 1069642006460 putative catalytic residue [active] 1069642006461 Bacterial transcription activator, effector binding domain; Region: AraC_E_bind; smart00871 1069642006462 Cell Wall Hydrolase; Region: Hydrolase_2; pfam07486 1069642006463 Protein of unknown function (DUF541); Region: SIMPL; pfam04402 1069642006464 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 1069642006465 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 1069642006466 ligand binding site [chemical binding]; other site 1069642006467 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 1069642006468 catalytic core [active] 1069642006469 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 1069642006470 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 1069642006471 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1069642006472 Walker A/P-loop; other site 1069642006473 ATP binding site [chemical binding]; other site 1069642006474 Q-loop/lid; other site 1069642006475 ABC transporter signature motif; other site 1069642006476 Walker B; other site 1069642006477 D-loop; other site 1069642006478 H-loop/switch region; other site 1069642006479 Putative catalytic domain of uncharacterized bacterial proteins from the carbohydrate esterase 4 superfamily; Region: CE4_u4; cd10928 1069642006480 NodB motif; other site 1069642006481 putative active site [active] 1069642006482 putative catalytic site [active] 1069642006483 putative Zn binding site [ion binding]; other site 1069642006484 Predicted glycosyl transferase [General function prediction only]; Region: COG4671 1069642006485 This is a family of GT1 glycosyltransferases found specifically in certain bacteria. amsK in Erwinia amylovora, has been reported to be involved in the biosynthesis of amylovoran, a exopolysaccharide acting as a virulence factor; Region: GT1_amsK_like; cd03799 1069642006486 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1069642006487 putative ADP-binding pocket [chemical binding]; other site 1069642006488 Predicted glycosyl transferase [General function prediction only]; Region: COG4671 1069642006489 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 1069642006490 Polysaccharide lyase; Region: Polysacc_lyase; pfam14099 1069642006491 macrolide transporter ATP-binding /permease protein; Provisional; Region: PRK10535 1069642006492 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 1069642006493 Walker A/P-loop; other site 1069642006494 ATP binding site [chemical binding]; other site 1069642006495 Q-loop/lid; other site 1069642006496 ABC transporter signature motif; other site 1069642006497 Walker B; other site 1069642006498 D-loop; other site 1069642006499 H-loop/switch region; other site 1069642006500 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 1069642006501 FtsX-like permease family; Region: FtsX; pfam02687 1069642006502 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 1069642006503 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 1069642006504 carboxyltransferase (CT) interaction site; other site 1069642006505 biotinylation site [posttranslational modification]; other site 1069642006506 HlyD family secretion protein; Region: HlyD_3; pfam13437 1069642006507 type I secretion outer membrane protein, TolC family; Region: type_I_sec_TolC; TIGR01844 1069642006508 Predicted UDP-glucose 6-dehydrogenase [Cell envelope biogenesis, outer membrane]; Region: Ugd; COG1004 1069642006509 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 1069642006510 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 1069642006511 UDP-glucose/GDP-mannose dehydrogenase family, UDP binding domain; Region: UDPG_MGDP_dh_C; pfam03720 1069642006512 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 1069642006513 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1069642006514 NAD(P) binding site [chemical binding]; other site 1069642006515 active site 1069642006516 HD domain; Region: HD_3; cl17350 1069642006517 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 1069642006518 Flavin containing amine oxidoreductase; Region: Amino_oxidase; pfam01593 1069642006519 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 1069642006520 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 1069642006521 substrate binding pocket [chemical binding]; other site 1069642006522 membrane-bound complex binding site; other site 1069642006523 hinge residues; other site 1069642006524 DNA repair photolyase [DNA replication, recombination, and repair]; Region: SplB; COG1533 1069642006525 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 1069642006526 FeS/SAM binding site; other site 1069642006527 aconitate hydratase, mitochondrial; Region: aconitase_mito; TIGR01340 1069642006528 Aconitase catalytic domain; Aconitase catalyzes the reversible isomerization of citrate and isocitrate as part of the TCA cycle; Region: Aconitase; cl00285 1069642006529 substrate binding site [chemical binding]; other site 1069642006530 ligand binding site [chemical binding]; other site 1069642006531 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 1069642006532 substrate binding site [chemical binding]; other site 1069642006533 NAD-dependent deacetylase; Provisional; Region: PRK00481 1069642006534 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 1069642006535 NAD+ binding site [chemical binding]; other site 1069642006536 substrate binding site [chemical binding]; other site 1069642006537 Zn binding site [ion binding]; other site 1069642006538 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 1069642006539 non-specific DNA binding site [nucleotide binding]; other site 1069642006540 salt bridge; other site 1069642006541 sequence-specific DNA binding site [nucleotide binding]; other site 1069642006542 Conserved domain frequently associated with peptide methionine sulfoxide reductase [Posttranslational modification, protein turnover, chaperones]; Region: COG0229; cl15841 1069642006543 Phage Tail Collar Domain; Region: Collar; pfam07484 1069642006544 Phage Tail Collar Domain; Region: Collar; pfam07484 1069642006545 Oxygen tolerance; Region: BatD; pfam13584 1069642006546 Oxygen tolerance; Region: BatD; pfam13584 1069642006547 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 1069642006548 binding surface 1069642006549 TPR motif; other site 1069642006550 Tetratricopeptide repeat; Region: TPR_12; pfam13424 1069642006551 von Willebrand factor type A domain; Region: VWA_2; pfam13519 1069642006552 metal ion-dependent adhesion site (MIDAS); other site 1069642006553 Aerotolerance regulator N-terminal; Region: BatA; pfam07584 1069642006554 VWA BatA type: Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b...; Region: vWA_BatA_type; cd01467 1069642006555 metal ion-dependent adhesion site (MIDAS); other site 1069642006556 Uncharacterized conserved protein (some members contain a von Willebrand factor type A (vWA) domain) [General function prediction only]; Region: COG1721 1069642006557 Protein of unknown function DUF58; Region: DUF58; pfam01882 1069642006558 von Willebrand factor (vWF) type A domain; Region: VWA; smart00327 1069642006559 MoxR-like ATPases [General function prediction only]; Region: COG0714 1069642006560 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 1069642006561 Walker A motif; other site 1069642006562 ATP binding site [chemical binding]; other site 1069642006563 Walker B motif; other site 1069642006564 arginine finger; other site 1069642006565 Peptidase family M48; Region: Peptidase_M48; cl12018 1069642006566 Domain of unknown function (DUF1844); Region: DUF1844; pfam08899 1069642006567 periplasmic serine protease, Do/DeqQ family; Region: degP_htrA_DO; TIGR02037 1069642006568 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 1069642006569 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 1069642006570 protein binding site [polypeptide binding]; other site 1069642006571 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 1069642006572 protein binding site [polypeptide binding]; other site 1069642006573 regulatory protein SpoVG; Reviewed; Region: PRK13259 1069642006574 TIGR02147 family protein; Region: Fsuc_second 1069642006575 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1069642006576 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1069642006577 methyl viologen resistance protein SmvA; Provisional; Region: PRK14995 1069642006578 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 1069642006579 TPR repeat; Region: TPR_11; pfam13414 1069642006580 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 1069642006581 TPR motif; other site 1069642006582 binding surface 1069642006583 Tetratricopeptide repeat; Region: TPR_16; pfam13432 1069642006584 Tetratricopeptide repeat; Region: TPR_16; pfam13432 1069642006585 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 1069642006586 TPR motif; other site 1069642006587 binding surface 1069642006588 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 1069642006589 TPR motif; other site 1069642006590 binding surface 1069642006591 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 1069642006592 binding surface 1069642006593 TPR motif; other site 1069642006594 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 1069642006595 binding surface 1069642006596 TPR motif; other site 1069642006597 Putative flagellar system-associated repeat; Region: SWM_repeat; pfam13753 1069642006598 Regulator of chromosome condensation (RCC1) repeat; Region: RCC1_2; pfam13540 1069642006599 Regulator of chromosome condensation (RCC1) repeat; Region: RCC1; pfam00415 1069642006600 Regulator of chromosome condensation (RCC1) repeat; Region: RCC1_2; pfam13540 1069642006601 Regulator of chromosome condensation (RCC1) repeat; Region: RCC1; pfam00415 1069642006602 Regulator of chromosome condensation (RCC1) repeat; Region: RCC1_2; pfam13540 1069642006603 Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GAT_1; cl00020 1069642006604 conserved cys residue [active] 1069642006605 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 1069642006606 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1069642006607 Predicted Zn-dependent hydrolases of the beta-lactamase fold [General function prediction only]; Region: COG2220 1069642006608 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 1069642006609 fructose-1-P/6-phosphogluconate phosphatase; Provisional; Region: PRK10725 1069642006610 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 1069642006611 motif II; other site 1069642006612 Predicted membrane protein [Function unknown]; Region: COG4270 1069642006613 Nitric oxide reductase large subunit [Inorganic ion transport and metabolism]; Region: NorB; COG3256 1069642006614 Zn-dependent alcohol dehydrogenases [General function prediction only]; Region: AdhP; COG1064 1069642006615 6-hydroxycyclohex-1-ene-1-carboxyl-CoA dehydrogenase, N-benzyl-3-pyrrolidinol dehydrogenase, and other MDR family members; Region: hydroxyacyl_CoA_DH; cd08254 1069642006616 putative NAD(P) binding site [chemical binding]; other site 1069642006617 catalytic Zn binding site [ion binding]; other site 1069642006618 structural Zn binding site [ion binding]; other site 1069642006619 Methylase involved in ubiquinone/menaquinone biosynthesis [Coenzyme metabolism]; Region: UbiE; COG2226 1069642006620 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 1069642006621 S-adenosylmethionine binding site [chemical binding]; other site 1069642006622 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 1069642006623 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 1069642006624 non-specific DNA binding site [nucleotide binding]; other site 1069642006625 salt bridge; other site 1069642006626 sequence-specific DNA binding site [nucleotide binding]; other site 1069642006627 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1069642006628 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 1069642006629 active site 1069642006630 phosphorylation site [posttranslational modification] 1069642006631 intermolecular recognition site; other site 1069642006632 dimerization interface [polypeptide binding]; other site 1069642006633 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 1069642006634 DNA binding site [nucleotide binding] 1069642006635 Predicted methyltransferase [General function prediction only]; Region: COG4798 1069642006636 Methyltransferase domain; Region: Methyltransf_23; pfam13489 1069642006637 Mechanosensitive ion channel; Region: MS_channel; pfam00924 1069642006638 Glycerophosphoryl diester phosphodiesterase [Energy production and conversion]; Region: UgpQ; COG0584 1069642006639 Catalytic domain of phosphoinositide-specific phospholipase C-like phosphodiesterases superfamily; Region: PI-PLCc_GDPD_SF; cl14615 1069642006640 active site 1069642006641 catalytic site [active] 1069642006642 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 1069642006643 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 1069642006644 active site 1069642006645 Domain of unknown function (DUF4423); Region: DUF4423; pfam14394 1069642006646 Sugar-specific transcriptional regulator TrmB; Region: TrmB; cl17775 1069642006647 cytochrome c nitrate reductase, small subunit; Region: cytochr_NrfH; TIGR03153 1069642006648 cytochrome c-type protein NapC; Provisional; Region: PRK10617; cl17554 1069642006649 Cytochrome c552; Region: Cytochrom_C552; pfam02335 1069642006650 ResB-like family; Region: ResB; pfam05140 1069642006651 Domain of Unknown Function (DUF748); Region: DUF748; pfam05359 1069642006652 Domain of Unknown Function (DUF748); Region: DUF748; pfam05359 1069642006653 Chemotaxis signal transduction protein [Cell motility and secretion / Signal transduction mechanisms]; Region: CheW; COG0835 1069642006654 Chemotaxis signal transduction protein [Cell motility and secretion / Signal transduction mechanisms]; Region: CheW; COG0835 1069642006655 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 1069642006656 CheD chemotactic sensory transduction; Region: CheD; cl00810 1069642006657 Methylase of chemotaxis methyl-accepting proteins [Cell motility and secretion / Signal transduction mechanisms]; Region: CheR; COG1352 1069642006658 CheR methyltransferase, all-alpha domain; Region: CheR_N; pfam03705 1069642006659 CheR methyltransferase, SAM binding domain; Region: CheR; pfam01739 1069642006660 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 1069642006661 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 1069642006662 putative active site [active] 1069642006663 heme pocket [chemical binding]; other site 1069642006664 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 1069642006665 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 1069642006666 putative active site [active] 1069642006667 heme pocket [chemical binding]; other site 1069642006668 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 1069642006669 putative active site [active] 1069642006670 heme pocket [chemical binding]; other site 1069642006671 HAMP (Histidine kinases, Adenylyl cyclases, Methyl binding proteins, Phosphatases) domain; Region: HAMP; smart00304 1069642006672 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 1069642006673 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1069642006674 dimer interface [polypeptide binding]; other site 1069642006675 putative CheW interface [polypeptide binding]; other site 1069642006676 Peptidase domain in the S8 and S53 families; Region: Peptidases_S8_S53; cd00306 1069642006677 active site 1069642006678 catalytic residues [active] 1069642006679 Peptidase domain in the S8 and S53 families; Region: Peptidases_S8_S53; cd00306 1069642006680 active site 1069642006681 catalytic residues [active] 1069642006682 7TMR-DISM extracellular 2; Region: 7TMR-DISMED2; pfam07696 1069642006683 7TM diverse intracellular signalling; Region: 7TMR-DISM_7TM; pfam07695 1069642006684 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1069642006685 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 1069642006686 ATP binding site [chemical binding]; other site 1069642006687 Mg2+ binding site [ion binding]; other site 1069642006688 G-X-G motif; other site 1069642006689 malate dehydrogenase; Provisional; Region: PRK13529 1069642006690 Malic enzyme, N-terminal domain; Region: malic; pfam00390 1069642006691 NAD(P) binding domain of malic enzyme (ME), subgroup 1; Region: NAD_bind_1_malic_enz; cd05312 1069642006692 NAD(P) binding site [chemical binding]; other site 1069642006693 Orthopoxvirus protein of unknown function (DUF830); Region: DUF830; cl13998 1069642006694 Predicted acetyltransferase [General function prediction only]; Region: COG2388 1069642006695 Uncharacterized conserved protein [Function unknown]; Region: COG2353 1069642006696 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 1069642006697 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 1069642006698 active site 1069642006699 phosphorylation site [posttranslational modification] 1069642006700 intermolecular recognition site; other site 1069642006701 dimerization interface [polypeptide binding]; other site 1069642006702 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 1069642006703 DNA binding residues [nucleotide binding] 1069642006704 dimerization interface [polypeptide binding]; other site 1069642006705 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 1069642006706 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 1069642006707 ATP binding site [chemical binding]; other site 1069642006708 Mg2+ binding site [ion binding]; other site 1069642006709 G-X-G motif; other site 1069642006710 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2828 1069642006711 putative transporter; Provisional; Region: PRK10504 1069642006712 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 1069642006713 putative substrate translocation pore; other site 1069642006714 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 1069642006715 GAF domain; Region: GAF; pfam01590 1069642006716 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1069642006717 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 1069642006718 dimer interface [polypeptide binding]; other site 1069642006719 phosphorylation site [posttranslational modification] 1069642006720 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 1069642006721 ATP binding site [chemical binding]; other site 1069642006722 Mg2+ binding site [ion binding]; other site 1069642006723 G-X-G motif; other site 1069642006724 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 1069642006725 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 1069642006726 active site 1069642006727 phosphorylation site [posttranslational modification] 1069642006728 intermolecular recognition site; other site 1069642006729 dimerization interface [polypeptide binding]; other site 1069642006730 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 1069642006731 putative deacylase active site [active] 1069642006732 Bacterial capsule synthesis protein PGA_cap; Region: PGA_cap; smart00854 1069642006733 CapA and related proteins, metallophosphatase domain; Region: MPP_CapA; cd07381 1069642006734 putative active site [active] 1069642006735 putative metal binding site [ion binding]; other site 1069642006736 Predicted membrane protein [Function unknown]; Region: COG3748 1069642006737 Transglycosylase; Region: Transgly; cl17702 1069642006738 monofunctional biosynthetic peptidoglycan transglycosylase; Provisional; Region: mtgA; PRK00056 1069642006739 Glyoxalase I catalyzes the isomerization of the hemithioacetal, formed by a 2-oxoaldehyde and glutathione, to S-D-lactoylglutathione; Region: Glyoxalase_I; cd07233 1069642006740 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 1069642006741 dimer interface [polypeptide binding]; other site 1069642006742 active site 1069642006743 metal binding site [ion binding]; metal-binding site 1069642006744 glutathione binding site [chemical binding]; other site 1069642006745 MASE1; Region: MASE1; pfam05231 1069642006746 This domain is found in the extracellular portion of receptor-like proteins - such as serine/threonine kinases and adenylyl cyclases; Region: CHASE; smart01079 1069642006747 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 1069642006748 dimer interface [polypeptide binding]; other site 1069642006749 phosphorylation site [posttranslational modification] 1069642006750 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 1069642006751 ATP binding site [chemical binding]; other site 1069642006752 Mg2+ binding site [ion binding]; other site 1069642006753 G-X-G motif; other site 1069642006754 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 1069642006755 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 1069642006756 active site 1069642006757 phosphorylation site [posttranslational modification] 1069642006758 intermolecular recognition site; other site 1069642006759 dimerization interface [polypeptide binding]; other site 1069642006760 Domain of unknown function (DUF4360); Region: DUF4360; pfam14273 1069642006761 Domain of unknown function (DUF4360); Region: DUF4360; pfam14273 1069642006762 hypothetical protein; Reviewed; Region: PRK09588 1069642006763 Uncharacterized protein family UPF0027; Region: UPF0027; pfam01139 1069642006764 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 1069642006765 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 1069642006766 substrate binding pocket [chemical binding]; other site 1069642006767 membrane-bound complex binding site; other site 1069642006768 hinge residues; other site 1069642006769 Sulfatase; Region: Sulfatase; cl17466 1069642006770 Fusaric acid resistance protein-like; Region: FUSC_2; pfam13515 1069642006771 aspartate ammonia-lyase; Provisional; Region: aspA; PRK12273 1069642006772 Aspartase; Region: Aspartase; cd01357 1069642006773 active sites [active] 1069642006774 tetramer interface [polypeptide binding]; other site 1069642006775 Predicted Zn-dependent hydrolases of the beta-lactamase fold [General function prediction only]; Region: COG2220 1069642006776 Beta-lactamase superfamily domain; Region: Lactamase_B_2; pfam12706 1069642006777 4-amino-4-deoxy-L-arabinose transferase and related glycosyltransferases of PMT family [Cell envelope biogenesis, outer membrane]; Region: ArnT; COG1807 1069642006778 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; pfam13231 1069642006779 Periplasmic protein TonB, links inner and outer membranes [Cell envelope biogenesis, outer membrane]; Region: TonB; COG0810 1069642006780 Gram-negative bacterial tonB protein; Region: TonB; pfam03544 1069642006781 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 1069642006782 S-adenosylmethionine binding site [chemical binding]; other site 1069642006783 DNA topoisomerase VI subunit A; Provisional; Region: PRK04342 1069642006784 Type IIB DNA topoisomerase; Region: TP6A_N; pfam04406 1069642006785 TOPRIM_TopoIIB_SPO: topoisomerase-primase (TOPRIM) nucleotidyl transferase/hydrolase domain of the type found in the type IIB family of DNA topoisomerases and Spo11. This subgroup contains proteins similar to Sulfolobus shibatae topoisomerase VI (TopoVI)...; Region: TOPRIM_TopoIIB_SPO; cd00223 1069642006786 active site 1069642006787 metal binding site [ion binding]; metal-binding site 1069642006788 interdomain interaction site; other site 1069642006789 DNA topoisomerase VI subunit B; Validated; Region: PRK04184 1069642006790 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 1069642006791 ATP binding site [chemical binding]; other site 1069642006792 Mg2+ binding site [ion binding]; other site 1069642006793 G-X-G motif; other site 1069642006794 TopoIIB_Trans: Transducer domain, having a ribosomal S5 domain 2-like fold, of the type found in proteins of the type IIB family of DNA topoisomerases similar to Sulfolobus shibatae topoisomerase VI (topoVI). The sole representative of the Type IIB...; Region: TopoIIB_Trans; cd00823 1069642006795 anchoring element; other site 1069642006796 dimer interface [polypeptide binding]; other site 1069642006797 ATP binding site [chemical binding]; other site 1069642006798 Dystroglycan-type cadherin-like domains; Region: CADG; smart00736 1069642006799 Pentapeptide repeats (9 copies); Region: Pentapeptide_4; pfam13599 1069642006800 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 1069642006801 Polyferredoxin [Energy production and conversion]; Region: NapH; COG0348 1069642006802 PQQ-dependent dehydrogenases and related proteins; Region: PQQ_DH_like; cl11493 1069642006803 Trp docking motif [polypeptide binding]; other site 1069642006804 active site 1069642006805 PQQ-like domain; Region: PQQ_2; pfam13360 1069642006806 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 1069642006807 ABC-type amino acid transport/signal transduction systems, periplasmic component/domain [Amino acid transport and metabolism / Signal transduction mechanisms]; Region: HisJ; COG0834 1069642006808 Restriction endonuclease [Defense mechanisms]; Region: McrA; COG1403 1069642006809 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 1069642006810 active site 1069642006811 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 1069642006812 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 1069642006813 ligand binding site [chemical binding]; other site 1069642006814 flexible hinge region; other site 1069642006815 Double zinc ribbon; Region: DZR; pfam12773 1069642006816 zinc-ribbon domain; Region: zf-ribbon_3; pfam13248 1069642006817 PilZ domain; Region: PilZ; pfam07238 1069642006818 Domain of unknown function (DUF4337); Region: DUF4337; pfam14235 1069642006819 FOG: CBS domain [General function prediction only]; Region: COG0517 1069642006820 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 1069642006821 Sulfatase; Region: Sulfatase; pfam00884 1069642006822 BolA-like protein; Region: BolA; pfam01722 1069642006823 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 1069642006824 putative GSH binding site [chemical binding]; other site 1069642006825 catalytic residues [active] 1069642006826 Protein of unknown function (DUF2892); Region: DUF2892; pfam11127 1069642006827 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 1069642006828 FAD binding domain; Region: FAD_binding_4; pfam01565 1069642006829 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 1069642006830 Interdomain contacts; other site 1069642006831 Cytokine receptor motif; other site 1069642006832 Fibronectin type 3 domain; Region: FN3; smart00060 1069642006833 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 1069642006834 Interdomain contacts; other site 1069642006835 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 1069642006836 Interdomain contacts; other site 1069642006837 Alpha-L-arabinofuranosidase B, catalytic; Region: ArabFuran-catal; pfam09206 1069642006838 D-3-phosphoglycerate dehydrogenase; Provisional; Region: PRK11790 1069642006839 Phosphoglycerate dehydrogenases, NAD-binding and catalytic domains; Region: PGDH_3; cd12176 1069642006840 ligand binding site [chemical binding]; other site 1069642006841 NAD binding site [chemical binding]; other site 1069642006842 tetramer interface [polypeptide binding]; other site 1069642006843 catalytic site [active] 1069642006844 C-terminal ACT (regulatory) domain of D-3-Phosphoglycerate Dehydrogenase (3PGDH) found in fungi and bacteria; Region: ACT_3PGDH; cd04901 1069642006845 L-serine binding site [chemical binding]; other site 1069642006846 ACT domain interface; other site 1069642006847 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 1069642006848 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 1069642006849 active site 1069642006850 phosphorylation site [posttranslational modification] 1069642006851 intermolecular recognition site; other site 1069642006852 dimerization interface [polypeptide binding]; other site 1069642006853 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 1069642006854 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 1069642006855 Walker A motif; other site 1069642006856 ATP binding site [chemical binding]; other site 1069642006857 Walker B motif; other site 1069642006858 arginine finger; other site 1069642006859 Bacterial regulatory protein, Fis family; Region: HTH_8; cl17420 1069642006860 CDP-diglyceride synthetase [Lipid metabolism]; Region: CdsA; COG0575 1069642006861 Cytidylyltransferase family; Region: CTP_transf_1; cl17467 1069642006862 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 1069642006863 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 1069642006864 putative acyl-acceptor binding pocket; other site 1069642006865 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 1069642006866 Virulence factor BrkB; Region: Virul_fac_BrkB; pfam03631 1069642006867 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 1069642006868 putative DNA binding site [nucleotide binding]; other site 1069642006869 dimerization interface [polypeptide binding]; other site 1069642006870 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1069642006871 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1069642006872 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 1069642006873 putative effector binding pocket; other site 1069642006874 putative dimerization interface [polypeptide binding]; other site 1069642006875 Hydrolases of the alpha/beta superfamily [General function prediction only]; Region: COG1073 1069642006876 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 1069642006877 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 1069642006878 short chain dehydrogenase; Provisional; Region: PRK08263 1069642006879 17beta hydroxysteroid dehydrogenase-like, classical (c) SDRs; Region: 17beta-HSD-like_SDR_c; cd05374 1069642006880 NADP binding site [chemical binding]; other site 1069642006881 active site 1069642006882 steroid binding site; other site 1069642006883 Di- and tripeptidases [Amino acid transport and metabolism]; Region: PepD; COG2195 1069642006884 M20 Peptidase T specifically cleaves tripeptides; Region: M20_peptT; cd03892 1069642006885 metal binding site [ion binding]; metal-binding site 1069642006886 dimer interface [polypeptide binding]; other site 1069642006887 Fascin-like domain; members include actin-bundling/crosslinking proteins facsin, histoactophilin and singed; identified in sea urchin, Drosophila, Xenopus, rodents, and humans; The fascin-like domain adopts a beta-trefoil topology and contains an...; Region: Fascin; cl00187 1069642006888 PKC phosphorylation site [posttranslational modification]; other site 1069642006889 Peptidase family M54, also called archaemetzincins or archaelysins; Region: Peptidase_M54; cl17349 1069642006890 DNA-binding transcriptional repressor PurR; Provisional; Region: PRK10703 1069642006891 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2989 1069642006892 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 1069642006893 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 1069642006894 Uncharacterized conserved protein [Function unknown]; Region: HdeD; COG3247 1069642006895 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 1069642006896 S-adenosylmethionine binding site [chemical binding]; other site 1069642006897 MutS domain III; Region: MutS_III; cl17822 1069642006898 ATP-binding cassette domain of MutS-like homolog; Region: ABC_MutS-like; cd03283 1069642006899 Walker A/P-loop; other site 1069642006900 ATP binding site [chemical binding]; other site 1069642006901 Q-loop/lid; other site 1069642006902 ABC transporter signature motif; other site 1069642006903 Walker B; other site 1069642006904 D-loop; other site 1069642006905 H-loop/switch region; other site 1069642006906 Domain of unknown function (DUF4382); Region: DUF4382; pfam14321 1069642006907 Sugar phosphate permease [Carbohydrate transport and metabolism]; Region: UhpC; COG2271 1069642006908 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 1069642006909 putative substrate translocation pore; other site 1069642006910 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 1069642006911 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 1069642006912 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1069642006913 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; cl00183 1069642006914 dimerization interface [polypeptide binding]; other site 1069642006915 putative active cleft [active] 1069642006916 GMP synthase - Glutamine amidotransferase domain [Nucleotide transport and metabolism]; Region: GuaA; COG0518 1069642006917 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_1; cd01741 1069642006918 catalytic triad [active] 1069642006919 Ferric iron reductase FhuF-like transporter; Region: FhuF; pfam06276 1069642006920 Trypsin-like serine protease; Many of these are synthesized as inactive precursor zymogens that are cleaved during limited proteolysis to generate their active forms. Alignment contains also inactive enzymes that have substitutions of the catalytic triad...; Region: Tryp_SPc; cl00149 1069642006921 active site 1069642006922 substrate binding sites [chemical binding]; other site 1069642006923 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 1069642006924 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 1069642006925 active site 1069642006926 Horizontally Transferred TransMembrane Domain; Region: HTTM; smart00752 1069642006927 Vitamin K-dependent gamma-carboxylase; Region: VKG_Carbox; cl02773 1069642006928 L,D-transpeptidase catalytic domain; Region: YkuD_2; pfam13645 1069642006929 GDP-M1P_Guanylyltransferase catalyzes the formation of GDP-Mannose; Region: GDP-M1P_Guanylyltransferase; cd02509 1069642006930 Cupin domain; Region: Cupin_2; cl17218 1069642006931 Uncharacterized protein family (UPF0104); Region: UPF0104; pfam03706 1069642006932 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 1069642006933 D,D-heptose 1,7-bisphosphate phosphatase; Validated; Region: PRK08942 1069642006934 active site 1069642006935 motif I; other site 1069642006936 motif II; other site 1069642006937 TIGR03546 family protein; Region: TIGR03546 1069642006938 TIGR03545 family protein; Region: TIGR03545 1069642006939 ligand binding domain of Tar- and Tsr-related chemoreceptors; Region: Tar_Tsr_LBD; cl00144 1069642006940 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 1069642006941 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 1069642006942 catalytic residues [active] 1069642006943 50S ribosomal protein L17; Validated; Region: rplQ; PRK05591 1069642006944 DNA-directed RNA polymerase subunit alpha; Provisional; Region: PRK05182 1069642006945 N-terminal domain of the Alpha subunit of Bacterial RNA polymerase; Region: RNAP_alpha_NTD; cd06928 1069642006946 alphaNTD homodimer interface [polypeptide binding]; other site 1069642006947 alphaNTD - beta interaction site [polypeptide binding]; other site 1069642006948 alphaNTD - beta' interaction site [polypeptide binding]; other site 1069642006949 Bacterial RNA polymerase, alpha chain C terminal domain; Region: RNA_pol_A_CTD; pfam03118 1069642006950 30S ribosomal protein S4; Validated; Region: rpsD; PRK05327 1069642006951 Ribosomal protein S4/S9 N-terminal domain; Region: Ribosomal_S4; pfam00163 1069642006952 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 1069642006953 RNA binding surface [nucleotide binding]; other site 1069642006954 30S ribosomal protein S13; Validated; Region: rpsM; PRK05179 1069642006955 Ribosomal protein S13/S18; Region: Ribosomal_S13; cl00331 1069642006956 adenylate kinase; Reviewed; Region: adk; PRK00279 1069642006957 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 1069642006958 AMP-binding site [chemical binding]; other site 1069642006959 ATP-AMP (Ap5A)-binding site [chemical binding]; other site 1069642006960 preprotein translocase subunit SecY; Reviewed; Region: secY; PRK09204 1069642006961 SecY translocase; Region: SecY; pfam00344 1069642006962 50S ribosomal protein L15; Reviewed; Region: rplO; PRK05592 1069642006963 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 1069642006964 23S rRNA interface [nucleotide binding]; other site 1069642006965 L21e interface [polypeptide binding]; other site 1069642006966 5S rRNA interface [nucleotide binding]; other site 1069642006967 L27 interface [polypeptide binding]; other site 1069642006968 L5 interface [polypeptide binding]; other site 1069642006969 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 1069642006970 50S ribosomal protein L6; Validated; Region: rplF; PRK05498 1069642006971 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 1069642006972 30S ribosomal protein S8; Validated; Region: rpsH; PRK00136 1069642006973 50S ribosomal protein L5; Validated; Region: rplE; PRK00010 1069642006974 Ribosomal protein L5; Region: Ribosomal_L5; pfam00281 1069642006975 ribosomal L5P family C-terminus; Region: Ribosomal_L5_C; pfam00673 1069642006976 50S ribosomal protein L14; Validated; Region: rplN; PRK05483 1069642006977 30S ribosomal protein S17; Reviewed; Region: rpsQ; PRK05610 1069642006978 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 1069642006979 putative translocon interaction site; other site 1069642006980 23S rRNA interface [nucleotide binding]; other site 1069642006981 signal recognition particle (SRP54) interaction site; other site 1069642006982 L23 interface [polypeptide binding]; other site 1069642006983 trigger factor interaction site; other site 1069642006984 30S ribosomal protein S3; Reviewed; Region: rpsC; PRK00310 1069642006985 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 1069642006986 G-X-X-G motif; other site 1069642006987 Ribosomal protein S3, C-terminal domain; Region: Ribosomal_S3_C; pfam00189 1069642006988 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 1069642006989 putative translocon binding site; other site 1069642006990 protein-rRNA interface [nucleotide binding]; other site 1069642006991 30S ribosomal protein S19; Reviewed; Region: rpsS; PRK00357 1069642006992 50S ribosomal protein L2; Validated; Region: rplB; PRK09374 1069642006993 Ribosomal Proteins L2, RNA binding domain; Region: Ribosomal_L2; pfam00181 1069642006994 Ribosomal Proteins L2, C-terminal domain; Region: Ribosomal_L2_C; pfam03947 1069642006995 50S ribosomal protein L4; Provisional; Region: rplD; PRK05319 1069642006996 50S ribosomal protein L3, bacterial; Region: L3_bact; TIGR03625 1069642006997 Ribosomal protein S10p/S20e; Region: Ribosomal_S10; cl00314 1069642006998 elongation factor G; Reviewed; Region: PRK00007 1069642006999 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 1069642007000 G1 box; other site 1069642007001 putative GEF interaction site [polypeptide binding]; other site 1069642007002 GTP/Mg2+ binding site [chemical binding]; other site 1069642007003 Switch I region; other site 1069642007004 G2 box; other site 1069642007005 G3 box; other site 1069642007006 Switch II region; other site 1069642007007 G4 box; other site 1069642007008 G5 box; other site 1069642007009 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 1069642007010 Elongation factor G, domain IV; Region: EFG_IV; smart00889 1069642007011 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 1069642007012 30S ribosomal protein S7; Validated; Region: PRK05302 1069642007013 DNA-directed RNA polymerase, beta' subunit/160 kD subunit [Transcription]; Region: RpoC; COG0086 1069642007014 RNA polymerase Rpb1, domain 1; Region: RNA_pol_Rpb1_1; pfam04997 1069642007015 RNA polymerase I subunit A N-terminus; Region: RPOLA_N; smart00663 1069642007016 RNA polymerase Rpb1, domain 3; Region: RNA_pol_Rpb1_3; pfam04983 1069642007017 RNA polymerase Rpb1, domain 4; Region: RNA_pol_Rpb1_4; pfam05000 1069642007018 RNA polymerase Rpb1, domain 5; Region: RNA_pol_Rpb1_5; pfam04998 1069642007019 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 1069642007020 Rpb1 - Rpb6 interaction site [polypeptide binding]; other site 1069642007021 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 1069642007022 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 1069642007023 DNA binding site [nucleotide binding] 1069642007024 Rpb1 (beta') - Rpb2 (beta) interaction site [polypeptide binding]; other site 1069642007025 DNA-directed RNA polymerase subunit beta; Reviewed; Region: rpoB; PRK00405 1069642007026 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 1069642007027 RNA polymerase Rpb2, domain 2; Region: RNA_pol_Rpb2_2; pfam04561 1069642007028 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 1069642007029 RPB12 interaction site [polypeptide binding]; other site 1069642007030 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 1069642007031 RPB11 interaction site [polypeptide binding]; other site 1069642007032 RPB12 interaction site [polypeptide binding]; other site 1069642007033 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 1069642007034 RPB3 interaction site [polypeptide binding]; other site 1069642007035 RPB1 interaction site [polypeptide binding]; other site 1069642007036 RPB11 interaction site [polypeptide binding]; other site 1069642007037 RPB10 interaction site [polypeptide binding]; other site 1069642007038 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 1069642007039 core dimer interface [polypeptide binding]; other site 1069642007040 peripheral dimer interface [polypeptide binding]; other site 1069642007041 L10 interface [polypeptide binding]; other site 1069642007042 L11 interface [polypeptide binding]; other site 1069642007043 putative EF-Tu interaction site [polypeptide binding]; other site 1069642007044 putative EF-G interaction site [polypeptide binding]; other site 1069642007045 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 1069642007046 23S rRNA interface [nucleotide binding]; other site 1069642007047 Interface with L7/L12 ribosomal proteins [polypeptide binding]; other site 1069642007048 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 1069642007049 mRNA/rRNA interface [nucleotide binding]; other site 1069642007050 Ribosomal protein L11, RNA binding domain; Region: Ribosomal_L11; pfam00298 1069642007051 23S rRNA interface [nucleotide binding]; other site 1069642007052 L25 interface [polypeptide binding]; other site 1069642007053 transcription antitermination protein NusG; Validated; Region: nusG; PRK05609 1069642007054 Bacterial N-Utilization Substance G (NusG) N-terminal (NGN) domain, subgroup 1; Region: NGN_Bact_1; cd09891 1069642007055 putative homodimer interface [polypeptide binding]; other site 1069642007056 NusG contains an NGN domain at its N-terminus and KOW motif at its C-terminus; Region: KOW_NusG; cd06091 1069642007057 heterodimer interface [polypeptide binding]; other site 1069642007058 homodimer interface [polypeptide binding]; other site 1069642007059 SecE/Sec61-gamma subunits of protein translocation complex; Region: SecE; pfam00584 1069642007060 elongation factor Tu; Reviewed; Region: PRK00049 1069642007061 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 1069642007062 G1 box; other site 1069642007063 GEF interaction site [polypeptide binding]; other site 1069642007064 GTP/Mg2+ binding site [chemical binding]; other site 1069642007065 Switch I region; other site 1069642007066 G2 box; other site 1069642007067 G3 box; other site 1069642007068 Switch II region; other site 1069642007069 G4 box; other site 1069642007070 G5 box; other site 1069642007071 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 1069642007072 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 1069642007073 Antibiotic Binding Site [chemical binding]; other site 1069642007074 rRNA methylases [Translation, ribosomal structure and biogenesis]; Region: SpoU; COG0566 1069642007075 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; cl06870 1069642007076 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 1069642007077 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 1069642007078 active site 1069642007079 dimer interface [polypeptide binding]; other site 1069642007080 Acetyl-CoA hydrolase [Energy production and conversion]; Region: ACH1; COG0427 1069642007081 Acetyl-CoA hydrolase/transferase C-terminal domain; Region: AcetylCoA_hyd_C; pfam13336 1069642007082 HAMP domain; Region: HAMP; pfam00672 1069642007083 phosphoribosylaminoimidazole synthetase; Provisional; Region: PRK05385 1069642007084 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 1069642007085 dimerization interface [polypeptide binding]; other site 1069642007086 putative ATP binding site [chemical binding]; other site 1069642007087 bifunctional phosphoribosylaminoimidazolecarboxamide formyltransferase/IMP cyclohydrolase; Provisional; Region: purH; PRK00881 1069642007088 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 1069642007089 purine monophosphate binding site [chemical binding]; other site 1069642007090 dimer interface [polypeptide binding]; other site 1069642007091 putative catalytic residues [active] 1069642007092 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; smart00798 1069642007093 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; cl03362 1069642007094 CobB/CobQ-like glutamine amidotransferase domain; Region: GATase_5; pfam13507 1069642007095 Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GAT_1; cl00020 1069642007096 conserved cys residue [active] 1069642007097 Phosphoribosylformylglycinamidine (FGAM) synthase, synthetase domain [Nucleotide transport and metabolism]; Region: PurL; COG0046 1069642007098 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 1069642007099 dimerization interface [polypeptide binding]; other site 1069642007100 ATP binding site [chemical binding]; other site 1069642007101 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 1069642007102 dimerization interface [polypeptide binding]; other site 1069642007103 ATP binding site [chemical binding]; other site 1069642007104 Folate-dependent phosphoribosylglycinamide formyltransferase PurN [Nucleotide transport and metabolism]; Region: PurN; COG0299 1069642007105 Phosphoribosylglycinamide formyltransferase (GAR transformylase, GART); Region: FMT_core_GART; cd08645 1069642007106 active site 1069642007107 substrate binding site [chemical binding]; other site 1069642007108 cosubstrate binding site; other site 1069642007109 catalytic site [active] 1069642007110 phosphoribosylamine--glycine ligase; Provisional; Region: PRK00885 1069642007111 Phosphoribosylglycinamide synthetase, N domain; Region: GARS_N; pfam02844 1069642007112 ATP-grasp domain; Region: ATP-grasp_4; cl17255 1069642007113 Phosphoribosylglycinamide synthetase, C domain; Region: GARS_C; pfam02843 1069642007114 non-metazoan 5-aminoimidazole-4-(N-succinylcarboxamide) ribonucleotide (SAICAR) synthase; Region: SAICAR_synt_Sc; cd01414 1069642007115 ATP binding site [chemical binding]; other site 1069642007116 active site 1069642007117 substrate binding site [chemical binding]; other site 1069642007118 AIR carboxylase; Region: AIRC; cl00310 1069642007119 amidophosphoribosyltransferase; Provisional; Region: PRK09246 1069642007120 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 1069642007121 active site 1069642007122 tetramer interface [polypeptide binding]; other site 1069642007123 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1069642007124 active site 1069642007125 Domain of unknown function (DUF4344); Region: DUF4344; pfam14247 1069642007126 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 1069642007127 Serine phosphatase RsbU, regulator of sigma subunit [Signal transduction mechanisms / Transcription]; Region: RsbU; COG2208 1069642007128 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 1069642007129 dimerization interface [polypeptide binding]; other site 1069642007130 Stage II sporulation protein E (SpoIIE); Region: SpoIIE; pfam07228 1069642007131 Flagellar motor switch protein [Cell motility and secretion]; Region: FliG; COG1536 1069642007132 FliG C-terminal domain; Region: FliG_C; pfam01706 1069642007133 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 1069642007134 Tetratricopeptide repeat; Region: TPR_16; pfam13432 1069642007135 TPR motif; other site 1069642007136 binding surface 1069642007137 Membrane MotB of proton-channel complex MotA/MotB; Region: MotB_plug; pfam13677 1069642007138 flagellar motor protein MotS; Reviewed; Region: PRK06925 1069642007139 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 1069642007140 ligand binding site [chemical binding]; other site 1069642007141 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 1069642007142 Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b para-rossmann type of...; Region: vWFA; cl00057 1069642007143 metal ion-dependent adhesion site (MIDAS); other site 1069642007144 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 1069642007145 FG-GAP repeat; Region: FG-GAP; cl15299 1069642007146 Integrin alpha (beta-propellor repeats); Region: Int_alpha; smart00191 1069642007147 Family description; Region: VCBS; pfam13517 1069642007148 FG-GAP repeat; Region: FG-GAP; cl15299 1069642007149 Integrin alpha (beta-propellor repeats); Region: Int_alpha; smart00191 1069642007150 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 1069642007151 Interdomain contacts; other site 1069642007152 Cytokine receptor motif; other site 1069642007153 Integrin alpha (beta-propellor repeats); Region: Int_alpha; smart00191 1069642007154 FG-GAP repeat; Region: FG-GAP; cl15299 1069642007155 Predicted RNA-binding protein (contains KH domain) [General function prediction only]; Region: COG1837 1069642007156 KH domain; Region: KH_4; pfam13083 1069642007157 prolyl-tRNA synthetase; Provisional; Region: PRK08661 1069642007158 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_arch_euk; cd00778 1069642007159 dimer interface [polypeptide binding]; other site 1069642007160 motif 1; other site 1069642007161 active site 1069642007162 motif 2; other site 1069642007163 motif 3; other site 1069642007164 ProRS Prolyl-anticodon binding domain, long version found predominantly in eukaryotes and archaea. ProRS belongs to class II aminoacyl-tRNA synthetases (aaRS). This alignment contains the anticodon binding domain, which is responsible for specificity in...; Region: ProRS_anticodon_zinc; cd00862 1069642007165 anticodon binding site; other site 1069642007166 zinc-binding site [ion binding]; other site 1069642007167 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 1069642007168 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 1069642007169 active site 1069642007170 phosphorylation site [posttranslational modification] 1069642007171 intermolecular recognition site; other site 1069642007172 dimerization interface [polypeptide binding]; other site 1069642007173 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 1069642007174 Walker A motif; other site 1069642007175 ATP binding site [chemical binding]; other site 1069642007176 Walker B motif; other site 1069642007177 arginine finger; other site 1069642007178 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 1069642007179 Signal transduction histidine kinase involved in nitrogen fixation and metabolism regulation [Signal transduction mechanisms]; Region: NtrY; COG5000 1069642007180 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 1069642007181 dimerization interface [polypeptide binding]; other site 1069642007182 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 1069642007183 putative active site [active] 1069642007184 heme pocket [chemical binding]; other site 1069642007185 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 1069642007186 dimer interface [polypeptide binding]; other site 1069642007187 phosphorylation site [posttranslational modification] 1069642007188 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 1069642007189 ATP binding site [chemical binding]; other site 1069642007190 Mg2+ binding site [ion binding]; other site 1069642007191 G-X-G motif; other site 1069642007192 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 1069642007193 homopentamer interface [polypeptide binding]; other site 1069642007194 active site 1069642007195 bifunctional 3,4-dihydroxy-2-butanone 4-phosphate synthase/GTP cyclohydrolase II-like protein; Provisional; Region: PRK14019 1069642007196 3,4-dihydroxy-2-butanone 4-phosphate synthase; Region: DHBP_synthase; pfam00926 1069642007197 GTP cyclohydrolase II; Region: GTP_cyclohydro2; pfam00925 1069642007198 dimerization interface [polypeptide binding]; other site 1069642007199 active site 1069642007200 riboflavin synthase subunit alpha; Provisional; Region: PRK09289 1069642007201 Lumazine binding domain; Region: Lum_binding; pfam00677 1069642007202 Lumazine binding domain; Region: Lum_binding; pfam00677 1069642007203 Bacterial capsule synthesis protein PGA_cap; Region: PGA_cap; smart00854 1069642007204 CapA and related proteins, metallophosphatase domain; Region: MPP_CapA; cd07381 1069642007205 putative active site [active] 1069642007206 putative metal binding site [ion binding]; other site 1069642007207 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 1069642007208 active site 1069642007209 dimer interfaces [polypeptide binding]; other site 1069642007210 catalytic residues [active] 1069642007211 ATP-dependent chaperone ClpB; Region: chaperone_ClpB; TIGR03346 1069642007212 Clp amino terminal domain; Region: Clp_N; pfam02861 1069642007213 Clp amino terminal domain; Region: Clp_N; pfam02861 1069642007214 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 1069642007215 Walker A motif; other site 1069642007216 ATP binding site [chemical binding]; other site 1069642007217 Walker B motif; other site 1069642007218 arginine finger; other site 1069642007219 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 1069642007220 Walker A motif; other site 1069642007221 ATP binding site [chemical binding]; other site 1069642007222 Walker B motif; other site 1069642007223 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 1069642007224 flagellin; Provisional; Region: PRK12802 1069642007225 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 1069642007226 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 1069642007227 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 1069642007228 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 1069642007229 active site 1069642007230 phosphorylation site [posttranslational modification] 1069642007231 intermolecular recognition site; other site 1069642007232 dimerization interface [polypeptide binding]; other site 1069642007233 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 1069642007234 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 1069642007235 ligand binding site [chemical binding]; other site 1069642007236 flexible hinge region; other site 1069642007237 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 1069642007238 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 1069642007239 putative DNA binding site [nucleotide binding]; other site 1069642007240 putative Zn2+ binding site [ion binding]; other site 1069642007241 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 1069642007242 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 1069642007243 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1069642007244 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1069642007245 psp operon transcriptional activator PspF; Region: phageshock_pspF; TIGR02974 1069642007246 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 1069642007247 Walker A motif; other site 1069642007248 ATP binding site [chemical binding]; other site 1069642007249 Walker B motif; other site 1069642007250 arginine finger; other site 1069642007251 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 1069642007252 site-specific tyrosine recombinase XerC; Reviewed; Region: xerC; PRK00236 1069642007253 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 1069642007254 active site 1069642007255 DNA binding site [nucleotide binding] 1069642007256 Int/Topo IB signature motif; other site 1069642007257 Recombination protein O N terminal; Region: RecO_N; pfam11967 1069642007258 Recombination protein O C terminal; Region: RecO_C; pfam02565 1069642007259 outer membrane protein; Region: OMP_w_GlyGly; TIGR04219 1069642007260 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 1069642007261 Fatty acid desaturase; Region: FA_desaturase; pfam00487 1069642007262 Di-iron ligands [ion binding]; other site 1069642007263 The Bin/Amphiphysin/Rvs (BAR) domain, a dimerization module that binds membranes and detects membrane curvature; Region: BAR; cl12013 1069642007264 Intradiol dioxygenase supgroup. Intradiol dioxygenases catalyze the critical ring-cleavage step in the conversion of catecholate derivatives to citric acid cycle intermediates. They break the catechol C1-C2 bond and utilize Fe3+, as opposed to the...; Region: intradiol_dioxygenase_like; cd03457 1069642007265 putative active site [active] 1069642007266 Orthopoxvirus protein of unknown function (DUF830); Region: DUF830; cl13998 1069642007267 Methyltransferase domain; Region: Methyltransf_25; pfam13649 1069642007268 S-adenosylmethionine binding site [chemical binding]; other site 1069642007269 Adenylyl- / guanylyl cyclase, catalytic domain; Region: CYCc; smart00044 1069642007270 cyclase homology domain; Region: CHD; cd07302 1069642007271 nucleotidyl binding site; other site 1069642007272 metal binding site [ion binding]; metal-binding site 1069642007273 dimer interface [polypeptide binding]; other site 1069642007274 3D domain; Region: 3D; pfam06725 1069642007275 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1069642007276 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1069642007277 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 1069642007278 dimerization interface [polypeptide binding]; other site 1069642007279 integral membrane protein, TerC family; Region: R_switched_Alx; TIGR03718 1069642007280 2'-5' RNA ligase; Region: 2_5_ligase; TIGR02258 1069642007281 LigT like Phosphoesterase; Region: LigT_PEase; pfam02834 1069642007282 LigT like Phosphoesterase; Region: LigT_PEase; pfam02834 1069642007283 NADH-quinone oxidoreductase, chain I; Region: NuoI; TIGR01971 1069642007284 4Fe-4S binding domain; Region: Fer4; pfam00037 1069642007285 NADH dehydrogenase/NADH:ubiquinone oxidoreductase 75 kD subunit (chain G) [Energy production and conversion]; Region: NuoG; COG1034 1069642007286 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 1069642007287 catalytic loop [active] 1069642007288 iron binding site [ion binding]; other site 1069642007289 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; pfam10588 1069642007290 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 1069642007291 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 1069642007292 NADH:ubiquinone oxidoreductase, NADH-binding (51 kD) subunit [Energy production and conversion]; Region: NuoF; COG1894 1069642007293 SLBB domain; Region: SLBB; pfam10531 1069642007294 NADH-ubiquinone oxidoreductase-F iron-sulfur binding region; Region: NADH_4Fe-4S; smart00928 1069642007295 Respiratory-chain NADH dehydrogenase 24 Kd subunit; Region: Complex1_24kDa; pfam01257 1069642007296 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 1069642007297 putative dimer interface [polypeptide binding]; other site 1069642007298 [2Fe-2S] cluster binding site [ion binding]; other site 1069642007299 NADH dehydrogenase subunit C; Provisional; Region: PRK06074 1069642007300 NADH (or F420H2) dehydrogenase, subunit C; Region: NuoC_fam; TIGR01961 1069642007301 NADH:ubiquinone oxidoreductase 49 kD subunit 7 [Energy production and conversion]; Region: NuoD; COG0649 1069642007302 NADH dehydrogenase subunit D; Validated; Region: PRK06075 1069642007303 NADH ubiquinone oxidoreductase, 20 Kd subunit; Region: Oxidored_q6; cl17194 1069642007304 Peptidase S8 family domain in Subtilisin-like proteins; Region: Peptidases_S8_Subtilisin_like; cd07473 1069642007305 catalytic triad [active] 1069642007306 putative active site [active] 1069642007307 Uncharacterized conserved protein [Function unknown]; Region: COG2353 1069642007308 hypothetical protein; Provisional; Region: PRK05409 1069642007309 Uncharacterized protein conserved in bacteria (DUF2063); Region: DUF2063; pfam09836 1069642007310 Cache is an extracellular domain that is predicted to have a role in small-molecule recognition in a wide range of proteins; Region: Cache_2; smart01049 1069642007311 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 1069642007312 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1069642007313 dimer interface [polypeptide binding]; other site 1069642007314 putative CheW interface [polypeptide binding]; other site 1069642007315 L,D-transpeptidase catalytic domain; Region: YkuD_2; pfam13645 1069642007316 (acyl-carrier-protein) S-malonyltransferase [Lipid metabolism]; Region: FabD; COG0331 1069642007317 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 1069642007318 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cd00657 1069642007319 dinuclear metal binding motif [ion binding]; other site 1069642007320 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 1069642007321 non-specific DNA binding site [nucleotide binding]; other site 1069642007322 salt bridge; other site 1069642007323 sequence-specific DNA binding site [nucleotide binding]; other site 1069642007324 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 1069642007325 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 1069642007326 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1069642007327 Walker A/P-loop; other site 1069642007328 ATP binding site [chemical binding]; other site 1069642007329 Q-loop/lid; other site 1069642007330 ABC transporter signature motif; other site 1069642007331 Walker B; other site 1069642007332 D-loop; other site 1069642007333 H-loop/switch region; other site 1069642007334 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 1069642007335 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 1069642007336 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1069642007337 Walker A/P-loop; other site 1069642007338 ATP binding site [chemical binding]; other site 1069642007339 Q-loop/lid; other site 1069642007340 ABC transporter signature motif; other site 1069642007341 Walker B; other site 1069642007342 D-loop; other site 1069642007343 H-loop/switch region; other site 1069642007344 Domain of unknown function (DUF4339); Region: DUF4339; pfam14237 1069642007345 Domain of unknown function (DUF4339); Region: DUF4339; pfam14237 1069642007346 PilZ domain; Region: PilZ; pfam07238 1069642007347 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 1069642007348 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 1069642007349 active site 1069642007350 phosphorylation site [posttranslational modification] 1069642007351 intermolecular recognition site; other site 1069642007352 dimerization interface [polypeptide binding]; other site 1069642007353 Predicted inhibitor of MCP methylation, homolog of CheC [Cell motility and secretion]; Region: COG1406 1069642007354 Chemotaxis phosphatase CheX; Region: CheX; pfam13690 1069642007355 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 1069642007356 active site 1069642007357 phosphonate ABC transporter, permease protein PhnE; Region: PhnE; TIGR01097 1069642007358 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 1069642007359 dimer interface [polypeptide binding]; other site 1069642007360 conserved gate region; other site 1069642007361 ABC-ATPase subunit interface; other site 1069642007362 phosphonate ABC transporter, ATP-binding protein; Region: ABC_phnC; TIGR02315 1069642007363 ATP-binding cassette domain of the binding protein-dependent phosphonate transport system; Region: ABC_PhnC_transporter; cd03256 1069642007364 Walker A/P-loop; other site 1069642007365 ATP binding site [chemical binding]; other site 1069642007366 Q-loop/lid; other site 1069642007367 ABC transporter signature motif; other site 1069642007368 Walker B; other site 1069642007369 D-loop; other site 1069642007370 H-loop/switch region; other site 1069642007371 phosphate/phosphite/phosphonate ABC transporters, periplasmic binding protein; Region: 3A0109s03R; TIGR01098 1069642007372 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 1069642007373 substrate binding pocket [chemical binding]; other site 1069642007374 membrane-bound complex binding site; other site 1069642007375 hinge residues; other site 1069642007376 haloacid dehalogenase-like hydrolase; Region: Hydrolase; pfam00702 1069642007377 Ribosomal RNA small subunit methyltransferase I, also known as rRNA (cytidine-2'-O-)-methyltransferase RsmI; Region: RsmI; cd11648 1069642007378 putative SAM binding site [chemical binding]; other site 1069642007379 putative homodimer interface [polypeptide binding]; other site 1069642007380 ATP-dependent helicase HrpB; Region: DEAH_box_HrpB; TIGR01970 1069642007381 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 1069642007382 ATP binding site [chemical binding]; other site 1069642007383 putative Mg++ binding site [ion binding]; other site 1069642007384 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 1069642007385 nucleotide binding region [chemical binding]; other site 1069642007386 ATP-binding site [chemical binding]; other site 1069642007387 Helicase associated domain (HA2); Region: HA2; pfam04408 1069642007388 ATP-dependent helicase C-terminal; Region: HrpB_C; pfam08482 1069642007389 30S ribosomal protein S4; Validated; Region: rpsD; PRK05327 1069642007390 Ribosomal protein S4/S9 N-terminal domain; Region: Ribosomal_S4; pfam00163 1069642007391 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 1069642007392 RNA binding surface [nucleotide binding]; other site 1069642007393 Protein of unknown function (DUF962); Region: DUF962; pfam06127 1069642007394 serine O-acetyltransferase; Region: cysE; TIGR01172 1069642007395 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 1069642007396 trimer interface [polypeptide binding]; other site 1069642007397 active site 1069642007398 substrate binding site [chemical binding]; other site 1069642007399 CoA binding site [chemical binding]; other site 1069642007400 YhaM_OBF_like: A subfamily of OB folds similar to that found in Bacillus subtilis YhaM and Staphylococcus aureus cmp-binding factor-1 (SaCBF1). Both these proteins are 3'-to-5'exoribonucleases. YhaM requires Mn2+ or Co2+ for activity and is...; Region: YhaM_OBF_like; cd04492 1069642007401 generic binding surface II; other site 1069642007402 generic binding surface I; other site 1069642007403 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 1069642007404 Zn2+ binding site [ion binding]; other site 1069642007405 Mg2+ binding site [ion binding]; other site 1069642007406 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 1069642007407 binding surface 1069642007408 TPR motif; other site 1069642007409 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 1069642007410 binding surface 1069642007411 TPR repeat; Region: TPR_11; pfam13414 1069642007412 TPR motif; other site 1069642007413 mce related protein; Region: MCE; pfam02470 1069642007414 ABC-type transport system involved in resistance to organic solvents, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2C; COG1463 1069642007415 ABC-type transport system involved in resistance to organic solvents, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2A; COG1127 1069642007416 ATP-binding cassette transport system involved in resistant to organic solvents; Region: ABC_Org_Solvent_Resistant; cd03261 1069642007417 Walker A/P-loop; other site 1069642007418 ATP binding site [chemical binding]; other site 1069642007419 Q-loop/lid; other site 1069642007420 ABC transporter signature motif; other site 1069642007421 Walker B; other site 1069642007422 D-loop; other site 1069642007423 H-loop/switch region; other site 1069642007424 ABC-type transport system involved in resistance to organic solvents, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2B; COG0767 1069642007425 Permease; Region: Permease; pfam02405 1069642007426 Alanine racemase [Cell envelope biogenesis, outer membrane]; Region: Alr; COG0787 1069642007427 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Alanine Racemase; Region: PLPDE_III_AR; cd00430 1069642007428 active site 1069642007429 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 1069642007430 dimer interface [polypeptide binding]; other site 1069642007431 substrate binding site [chemical binding]; other site 1069642007432 catalytic residues [active] 1069642007433 Malonate decarboxylase delta subunit (MdcD); Region: ACP; cl06082 1069642007434 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1069642007435 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1069642007436 metal binding site [ion binding]; metal-binding site 1069642007437 active site 1069642007438 I-site; other site 1069642007439 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1069642007440 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 1069642007441 dimer interface [polypeptide binding]; other site 1069642007442 phosphorylation site [posttranslational modification] 1069642007443 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 1069642007444 ATP binding site [chemical binding]; other site 1069642007445 Mg2+ binding site [ion binding]; other site 1069642007446 G-X-G motif; other site 1069642007447 L-aspartate oxidase; Provisional; Region: PRK09077 1069642007448 L-aspartate oxidase; Provisional; Region: PRK06175 1069642007449 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 1069642007450 Lysophospholipase [Lipid metabolism]; Region: PldB; COG2267 1069642007451 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 1069642007452 Short-chain dehydrogenases of various substrate specificities [General function prediction only]; Region: DltE; COG0300 1069642007453 classical (c) SDRs; Region: SDR_c; cd05233 1069642007454 NAD(P) binding site [chemical binding]; other site 1069642007455 active site 1069642007456 RNase HI family found mainly in prokaryotes; Region: RNase_HI_prokaryote_like; cd09278 1069642007457 RNA/DNA hybrid binding site [nucleotide binding]; other site 1069642007458 active site 1069642007459 Esterase PHB depolymerase; Region: Esterase_phd; pfam10503 1069642007460 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 1069642007461 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 1069642007462 CARDB; Region: CARDB; pfam07705 1069642007463 Peptidase family C39 mostly contains bacteriocin-processing endopeptidases from bacteria. The cysteine peptidases in family C39 cleave the "double-glycine" leader peptides from the precursors of various bacteriocins (mostly non-lantibiotic); Region: Peptidase_C39_like; cl00296 1069642007464 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 1069642007465 dimerization interface [polypeptide binding]; other site 1069642007466 Hypothetical protein TTHB210, a sigma(E)-regulated gene product found in Thermus thermophilus, and similar proteins; Region: TTHB210-like; cd11669 1069642007467 oligomer interface [polypeptide binding]; other site 1069642007468 Zinc-dependent metalloprotease. This super-family of metalloproteases contains two major branches, the astacin-like proteases and the adamalysin/reprolysin-like proteases. Both branches have wide phylogenetic distribution, and contain sub-families, which...; Region: ZnMc; cl00064 1069642007469 active site 1069642007470 PilZ domain; Region: PilZ; pfam07238 1069642007471 UvrD-like helicase C-terminal domain; Region: UvrD_C; pfam13361 1069642007472 Family description; Region: UvrD_C_2; pfam13538 1069642007473 CRISPR/Cas system-associated protein Cas4; Region: Cas4_I-A_I-B_I-C_I-D_II-B; cl00641 1069642007474 PD-(D/E)XK nuclease superfamily; Region: PDDEXK_1; pfam12705 1069642007475 CRISPR/Cas system-associated protein Cas4; Region: Cas4_I-A_I-B_I-C_I-D_II-B; cl00641 1069642007476 Dephospho-CoA kinase [Coenzyme metabolism]; Region: CoaE; COG0237 1069642007477 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 1069642007478 CoA-binding site [chemical binding]; other site 1069642007479 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 1069642007480 Catalytic domain of Protein Kinases; Region: PKc; cd00180 1069642007481 active site 1069642007482 ATP binding site [chemical binding]; other site 1069642007483 substrate binding site [chemical binding]; other site 1069642007484 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 1069642007485 substrate binding site [chemical binding]; other site 1069642007486 activation loop (A-loop); other site 1069642007487 activation loop (A-loop); other site 1069642007488 PEGA domain; Region: PEGA; pfam08308 1069642007489 Long-chain acyl-CoA synthetases (AMP-forming) [Lipid metabolism]; Region: FAA1; COG1022 1069642007490 Long-chain fatty acid CoA synthetases and Bubblegum-like very long-chain fatty acid CoA synthetases; Region: VL_LC_FACS_like; cd05907 1069642007491 acyl-activating enzyme (AAE) consensus motif; other site 1069642007492 putative AMP binding site [chemical binding]; other site 1069642007493 putative active site [active] 1069642007494 putative CoA binding site [chemical binding]; other site 1069642007495 Formyltransferase, catalytic core domain; Region: FMT_core; cl00395 1069642007496 active site 1069642007497 substrate binding site [chemical binding]; other site 1069642007498 cosubstrate binding site; other site 1069642007499 catalytic site [active] 1069642007500 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 1069642007501 Novel bacterial esterase that cleaves esters on halogenated cyclic compounds; Region: Esterase_713_like; cl17303 1069642007502 catalytic site [active] 1069642007503 peptide synthase; Provisional; Region: PRK09274 1069642007504 Uncharacterized subfamily of fatty acid CoA ligase (FACL); Region: FACL_like_1; cd05910 1069642007505 acyl-activating enzyme (AAE) consensus motif; other site 1069642007506 putative AMP binding site [chemical binding]; other site 1069642007507 putative active site [active] 1069642007508 putative CoA binding site [chemical binding]; other site 1069642007509 phosphoenolpyruvate synthase; Validated; Region: PRK06241 1069642007510 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 1069642007511 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 1069642007512 Protein of unknown function (DUF3419); Region: DUF3419; cl15422 1069642007513 Predicted dehydrogenase [General function prediction only]; Region: COG5322 1069642007514 NAD(P) binding domain of amino acid dehydrogenase-like proteins; Region: NAD_bind_amino_acid_DH; cl17226 1069642007515 NAD(P) binding pocket [chemical binding]; other site 1069642007516 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 1069642007517 Pseudomonas fluorescens MupV-like, extended (e) SDRs; Region: MupV_like_SDR_e; cd05263 1069642007518 putative NAD(P) binding site [chemical binding]; other site 1069642007519 active site 1069642007520 putative substrate binding site [chemical binding]; other site 1069642007521 Sphingosine kinase and enzymes related to eukaryotic diacylglycerol kinase [Lipid metabolism / General function prediction only]; Region: LCB5; COG1597 1069642007522 Diacylglycerol kinase catalytic domain; Region: DAGK_cat; pfam00781 1069642007523 FOG: WD40-like repeat [Function unknown]; Region: COG1520 1069642007524 NHL repeat; Region: NHL; pfam01436 1069642007525 ABC-type transport system, involved in lipoprotein release, permease component [Cell envelope biogenesis, outer membrane]; Region: LolE; COG4591 1069642007526 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 1069642007527 FtsX-like permease family; Region: FtsX; pfam02687 1069642007528 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 1069642007529 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 1069642007530 Walker A/P-loop; other site 1069642007531 ATP binding site [chemical binding]; other site 1069642007532 Q-loop/lid; other site 1069642007533 ABC transporter signature motif; other site 1069642007534 Walker B; other site 1069642007535 D-loop; other site 1069642007536 H-loop/switch region; other site 1069642007537 Zn-dependent oligopeptidases [Amino acid transport and metabolism]; Region: Dcp; COG0339 1069642007538 Peptidase family M3 dipeptidyl carboxypeptidase (DCP); Region: M3A_DCP; cd06456 1069642007539 active site 1069642007540 Zn binding site [ion binding]; other site 1069642007541 NAD kinase [Coenzyme metabolism]; Region: nadF; COG0061 1069642007542 ATP-NAD kinase; Region: NAD_kinase; pfam01513 1069642007543 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: RecN; COG0497 1069642007544 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 1069642007545 Walker A/P-loop; other site 1069642007546 ATP binding site [chemical binding]; other site 1069642007547 Q-loop/lid; other site 1069642007548 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 1069642007549 Q-loop/lid; other site 1069642007550 ABC transporter signature motif; other site 1069642007551 Walker B; other site 1069642007552 D-loop; other site 1069642007553 H-loop/switch region; other site 1069642007554 Predicted nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG0702 1069642007555 NmrA (a transcriptional regulator) and triphenylmethane reductase (TMR) like proteins, subgroup 1, atypical (a) SDRs; Region: NmrA_TMR_like_1_SDR_a; cd05231 1069642007556 putative NADP binding site [chemical binding]; other site 1069642007557 Protease II [Amino acid transport and metabolism]; Region: PtrB; COG1770 1069642007558 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 1069642007559 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 1069642007560 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 1069642007561 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1069642007562 dimer interface [polypeptide binding]; other site 1069642007563 putative CheW interface [polypeptide binding]; other site 1069642007564 aconitate hydratase; Validated; Region: PRK09277 1069642007565 Aconitase A catalytic domain; Region: AcnA_IRP; cd01586 1069642007566 substrate binding site [chemical binding]; other site 1069642007567 ligand binding site [chemical binding]; other site 1069642007568 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 1069642007569 substrate binding site [chemical binding]; other site 1069642007570 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 1069642007571 dimer interface [polypeptide binding]; other site 1069642007572 ADP-ribose binding site [chemical binding]; other site 1069642007573 active site 1069642007574 nudix motif; other site 1069642007575 metal binding site [ion binding]; metal-binding site 1069642007576 Chaperone of endosialidase; Region: Peptidase_S74; pfam13884 1069642007577 PA14 domain; Region: PA14; cl08459 1069642007578 Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all...; Region: FN3; cl00065 1069642007579 Interdomain contacts; other site 1069642007580 Tyrosine phosphatase family; Region: Y_phosphatase3; pfam13350 1069642007581 Nuclear transport factor 2 (NTF2-like) superfamily. This family includes members of the NTF2 family, Delta-5-3-ketosteroid isomerases, Scytalone Dehydratases, and the beta subunit of Ring hydroxylating dioxygenases. This family is a classic example of...; Region: NTF2_like; cl09109 1069642007582 biliverdin IX beta reductase (BVR-B, aka flavin reductase)-like proteins; atypical (a) SDRs; Region: BVR-B_like_SDR_a; cd05244 1069642007583 NADH(P)-binding; Region: NAD_binding_10; pfam13460 1069642007584 NAD binding site [chemical binding]; other site 1069642007585 substrate binding site [chemical binding]; other site 1069642007586 putative active site [active] 1069642007587 Predicted transcriptional regulator [Transcription]; Region: COG1959 1069642007588 Transcriptional regulator; Region: Rrf2; pfam02082 1069642007589 homogentisate 1,2-dioxygenase; Provisional; Region: PRK05341 1069642007590 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 1069642007591 S-adenosylmethionine binding site [chemical binding]; other site 1069642007592 Escherichia coli YbbF/LpxH and related proteins, metallophosphatase domain; Region: MPP_YbbF-LpxH; cd07398 1069642007593 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 1069642007594 putative active site [active] 1069642007595 putative metal binding site [ion binding]; other site 1069642007596 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 1069642007597 cell division protein FtsZ; Validated; Region: PRK09330 1069642007598 nucleotide binding site [chemical binding]; other site 1069642007599 SulA interaction site; other site 1069642007600 cell division protein FtsA; Region: ftsA; TIGR01174 1069642007601 Cell division protein FtsA; Region: FtsA; smart00842 1069642007602 Cell division protein FtsA; Region: FtsA; pfam14450 1069642007603 POTRA domain, FtsQ-type; Region: POTRA_1; pfam08478 1069642007604 Cell division protein FtsQ; Region: FtsQ; pfam03799 1069642007605 Protein of unknown function (DUF3365); Region: DUF3365; pfam11845 1069642007606 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1069642007607 dimer interface [polypeptide binding]; other site 1069642007608 Methyl-accepting chemotaxis protein (MCP) signalling domain; Region: MCPsignal; pfam00015 1069642007609 putative CheW interface [polypeptide binding]; other site 1069642007610 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 1069642007611 Ligand Binding Site [chemical binding]; other site 1069642007612 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 1069642007613 Ligand Binding Site [chemical binding]; other site 1069642007614 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 1069642007615 D-glycerate dehydrogenase/hydroxypyruvate reductase (GDH); Region: GDH; cd05301 1069642007616 dimerization interface [polypeptide binding]; other site 1069642007617 ligand binding site [chemical binding]; other site 1069642007618 NADP binding site [chemical binding]; other site 1069642007619 catalytic site [active] 1069642007620 UDP-N-acetylmuramate--L-alanine ligase; Provisional; Region: murC; PRK00421 1069642007621 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 1069642007622 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 1069642007623 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 1069642007624 undecaprenyldiphospho-muramoylpentapeptide beta-N- acetylglucosaminyltransferase; Provisional; Region: murG; PRK00726 1069642007625 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 1069642007626 homodimer interface [polypeptide binding]; other site 1069642007627 active site 1069642007628 cell division protein FtsW; Region: ftsW; TIGR02614 1069642007629 UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase; Provisional; Region: murD; PRK14106 1069642007630 Putative NAD(P)-binding; Region: NAD_binding_7; cl17660 1069642007631 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 1069642007632 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 1069642007633 phospho-N-acetylmuramoyl-pentapeptide-transferase; Provisional; Region: mraY; PRK00108 1069642007634 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 1069642007635 Mg++ binding site [ion binding]; other site 1069642007636 putative catalytic motif [active] 1069642007637 putative substrate binding site [chemical binding]; other site 1069642007638 FOG: CBS domain [General function prediction only]; Region: COG0517 1069642007639 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 1069642007640 UDP-N-acetylmuramyl pentapeptide synthase [Cell envelope biogenesis, outer membrane]; Region: MurF; COG0770 1069642007641 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 1069642007642 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 1069642007643 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 1069642007644 UDP-N-acetylmuramoylalanyl-D-glutamate--2, 6-diaminopimelate ligase; Provisional; Region: murE; PRK00139 1069642007645 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 1069642007646 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 1069642007647 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 1069642007648 Predicted esterase [General function prediction only]; Region: COG0400 1069642007649 Concanavalin A-like lectin/glucanases superfamily; Region: Laminin_G_3; pfam13385 1069642007650 Concanavalin A-like lectin/glucanases superfamily; Region: Laminin_G_3; pfam13385 1069642007651 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 1069642007652 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 1069642007653 ligand binding site [chemical binding]; other site 1069642007654 flexible hinge region; other site 1069642007655 Escherichia coli YbbF/LpxH and related proteins, metallophosphatase domain; Region: MPP_YbbF-LpxH; cd07398 1069642007656 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 1069642007657 putative active site [active] 1069642007658 putative metal binding site [ion binding]; other site 1069642007659 DEAD-like helicases superfamily; Region: DEXDc; smart00487 1069642007660 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 1069642007661 ATP binding site [chemical binding]; other site 1069642007662 putative Mg++ binding site [ion binding]; other site 1069642007663 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 1069642007664 nucleotide binding region [chemical binding]; other site 1069642007665 ATP-binding site [chemical binding]; other site 1069642007666 HRDC domain; Region: HRDC; pfam00570 1069642007667 Beta-lactamase class D [Defense mechanisms]; Region: COG2602 1069642007668 Cell division protein FtsI/penicillin-binding protein 2 [Cell envelope biogenesis, outer membrane]; Region: FtsI; COG0768 1069642007669 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 1069642007670 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 1069642007671 PASTA domain of PBP2x-like proteins, second repeat. Penicillin-binding proteins (PBPs) are the major targets for beta-lactam antibiotics, like penicillins and cephalosporins. Beta-lactam antibiotics specifically inhibit transpeptidase activity by...; Region: PASTA_Pbp2x-like_2; cd06575 1069642007672 MraW methylase family; Region: Methyltransf_5; cl17771 1069642007673 16S rRNA m(4)C1402 methyltranserfase; Provisional; Region: PRK00050 1069642007674 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1069642007675 active site 1069642007676 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1069642007677 active site 1069642007678 Predicted membrane protein [Function unknown]; Region: COG2119 1069642007679 Uncharacterized protein family UPF0016; Region: UPF0016; pfam01169 1069642007680 Uncharacterized protein family UPF0016; Region: UPF0016; pfam01169 1069642007681 Uncharacterized protein SCO1/SenC/PrrC, involved in biogenesis of respiratory and photosynthetic systems [General function prediction only]; Region: COG1999 1069642007682 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 1069642007683 Cu(I) binding site [ion binding]; other site 1069642007684 Protein of unknown function (DUF461); Region: DUF461; pfam04314 1069642007685 Pirin-related protein [General function prediction only]; Region: COG1741 1069642007686 Pirin; Region: Pirin; pfam02678 1069642007687 DNA-binding transcriptional activator AllS; Provisional; Region: PRK10094 1069642007688 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1069642007689 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 1069642007690 dimerization interface [polypeptide binding]; other site 1069642007691 thymidylate synthase; Reviewed; Region: thyA; PRK01827 1069642007692 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 1069642007693 dimerization interface [polypeptide binding]; other site 1069642007694 active site 1069642007695 Dihydrofolate reductase [Coenzyme metabolism]; Region: FolA; COG0262 1069642007696 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 1069642007697 folate binding site [chemical binding]; other site 1069642007698 NADP+ binding site [chemical binding]; other site 1069642007699 PilZ domain; Region: PilZ; pfam07238 1069642007700 UDP-N-acetylenolpyruvoylglucosamine reductase; Provisional; Region: murB; PRK00046 1069642007701 FAD binding domain; Region: FAD_binding_4; pfam01565 1069642007702 UDP-N-acetylenolpyruvoylglucosamine reductase, C-terminal domain; Region: MurB_C; pfam02873 1069642007703 Peptidase M14 Carboxypeptidase T subfamily; Region: M14_CPT; cd03859 1069642007704 putative active site [active] 1069642007705 Zn binding site [ion binding]; other site 1069642007706 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 1069642007707 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 1069642007708 putative C-terminal domain interface [polypeptide binding]; other site 1069642007709 putative GSH binding site (G-site) [chemical binding]; other site 1069642007710 putative dimer interface [polypeptide binding]; other site 1069642007711 C-terminal, alpha helical domain of an unknown subfamily 3 of Glutathione S-transferases; Region: GST_C_3; cd03194 1069642007712 putative N-terminal domain interface [polypeptide binding]; other site 1069642007713 putative dimer interface [polypeptide binding]; other site 1069642007714 putative substrate binding pocket (H-site) [chemical binding]; other site 1069642007715 Peptidase S8 family domain in Subtilisin proteins; Region: Peptidases_S8_Subtilisin_subset; cd07477 1069642007716 active site 1069642007717 catalytic residues [active] 1069642007718 PA_C5a_like: Protease-associated domain containing proteins like Streptococcus pyogenes C5a peptidase. This group contains various PA domain-containing proteins similar to S. pyogenes C5a, including, i) Vpr, a minor extracellular serine protease from...; Region: PA_C5a_like; cd02133 1069642007719 putative integrin binding motif; other site 1069642007720 PA/protease domain interface [polypeptide binding]; other site 1069642007721 Subtilase family; Region: Peptidase_S8; pfam00082 1069642007722 catalytic residues [active] 1069642007723 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1069642007724 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1069642007725 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 1069642007726 N-acetyl-D-glucosamine binding site [chemical binding]; other site 1069642007727 catalytic residue [active] 1069642007728 D-Ala-D-Ala carboxypeptidase 3 (S13) family; Region: Peptidase_S13; cl17429 1069642007729 D-alanyl-D-alanine carboxypeptidase, serine-type, PBP4 family; Region: PBP4; TIGR00666 1069642007730 Signal peptidase (SPase) II; Region: Peptidase_A8; pfam01252 1069642007731 C1 Peptidase family (MEROPS database nomenclature), also referred to as the papain family; composed of two subfamilies of cysteine peptidases (CPs), C1A (papain) and C1B (bleomycin hydrolase). Papain-like enzymes are mostly endopeptidases with some...; Region: Peptidase_C1; cd02619 1069642007732 active site 1069642007733 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 1069642007734 ATP-binding cassette domain of the carbohydrate and solute transporters-like; Region: ABC_Carb_Solutes_like; cd03259 1069642007735 Walker A/P-loop; other site 1069642007736 ATP binding site [chemical binding]; other site 1069642007737 Q-loop/lid; other site 1069642007738 ABC transporter signature motif; other site 1069642007739 Walker B; other site 1069642007740 D-loop; other site 1069642007741 H-loop/switch region; other site 1069642007742 ABC-type Fe3+ transport system, permease component [Inorganic ion transport and metabolism]; Region: ThiP; COG1178 1069642007743 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 1069642007744 dimer interface [polypeptide binding]; other site 1069642007745 conserved gate region; other site 1069642007746 putative PBP binding loops; other site 1069642007747 ABC-ATPase subunit interface; other site 1069642007748 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 1069642007749 dimer interface [polypeptide binding]; other site 1069642007750 conserved gate region; other site 1069642007751 putative PBP binding loops; other site 1069642007752 ABC-ATPase subunit interface; other site 1069642007753 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 1069642007754 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 1069642007755 HflX GTPase family; Region: HflX; cd01878 1069642007756 G1 box; other site 1069642007757 GTP/Mg2+ binding site [chemical binding]; other site 1069642007758 Switch I region; other site 1069642007759 G2 box; other site 1069642007760 G3 box; other site 1069642007761 Switch II region; other site 1069642007762 G4 box; other site 1069642007763 G5 box; other site 1069642007764 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 1069642007765 active site 1069642007766 catalytic site [active] 1069642007767 substrate binding site [chemical binding]; other site 1069642007768 WYL domain; Region: WYL; pfam13280 1069642007769 Bacterial protein of unknown function (Gcw_chp); Region: Gcw_chp; cl09901 1069642007770 Membrane MotB of proton-channel complex MotA/MotB; Region: MotB_plug; pfam13677 1069642007771 flagellar motor protein MotA; Validated; Region: PRK09110 1069642007772 Flagellar motor component [Cell motility and secretion]; Region: MotA; COG1291 1069642007773 Thiol:disulfide interchange protein [Posttranslational modification, protein turnover, chaperones / Energy production and conversion]; Region: COG4232 1069642007774 Disulphide bond corrector protein DsbC; Region: DsbC; pfam11412 1069642007775 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; cl15788 1069642007776 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 1069642007777 DsbD alpha interface [polypeptide binding]; other site 1069642007778 catalytic residues [active] 1069642007779 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1069642007780 dimer interface [polypeptide binding]; other site 1069642007781 putative CheW interface [polypeptide binding]; other site 1069642007782 Nucleoside-specific channel-forming protein, Tsx; Region: Channel_Tsx; cl04114 1069642007783 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 1069642007784 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 1069642007785 RNA binding surface [nucleotide binding]; other site 1069642007786 Pseudouridine synthases, RsuA subfamily; Region: PseudoU_synth_RsuA_like; cd02870 1069642007787 active site 1069642007788 EamA-like transporter family; Region: EamA; pfam00892 1069642007789 EamA-like transporter family; Region: EamA; pfam00892 1069642007790 Chaperone of endosialidase; Region: Peptidase_S74; pfam13884 1069642007791 Chaperone of endosialidase; Region: Peptidase_S74; pfam13884 1069642007792 Ribosomal protein L11 methylase [Translation, ribosomal structure and biogenesis]; Region: PrmA; COG2264 1069642007793 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 1069642007794 S-adenosylmethionine binding site [chemical binding]; other site 1069642007795 RNA methyltransferase; Region: Methyltrans_RNA; pfam04452 1069642007796 RNA methyltransferase, RsmE family; Region: TIGR00046 1069642007797 RDD family; Region: RDD; cl00746 1069642007798 rfaE bifunctional protein, domain II; Region: rfaE_dom_II; TIGR02199 1069642007799 Cytidylyltransferase; Region: CTP_transf_2; pfam01467 1069642007800 active site 1069642007801 nucleotide binding site [chemical binding]; other site 1069642007802 HIGH motif; other site 1069642007803 KMSKS motif; other site 1069642007804 Flagellin N-methylase; Region: FliB; pfam03692 1069642007805 delta-lactam-biosynthetic de-N-acetylase; Region: spore_pdaA; TIGR02884 1069642007806 Catalytic NodB homology domain of rhizobial NodB-like proteins; Region: CE4_NodB_like_6s_7s; cd10917 1069642007807 NodB motif; other site 1069642007808 active site 1069642007809 catalytic site [active] 1069642007810 metal binding site [ion binding]; metal-binding site 1069642007811 MFS/sugar transport protein; Region: MFS_2; pfam13347 1069642007812 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 1069642007813 putative substrate translocation pore; other site 1069642007814 O-Antigen ligase; Region: Wzy_C; pfam04932 1069642007815 Escherichia coli YegD, a putative chaperone protein, and related proteins; Region: YegD_like; cd10231 1069642007816 nucleotide binding site [chemical binding]; other site 1069642007817 putative NEF/HSP70 interaction site [polypeptide binding]; other site 1069642007818 SBD interface [polypeptide binding]; other site 1069642007819 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 1069642007820 Catalytic LigB subunit of aromatic ring-opening dioxygenase; Region: LigB; pfam02900 1069642007821 putative active site [active] 1069642007822 metal binding site [ion binding]; metal-binding site 1069642007823 Predicted esterase [General function prediction only]; Region: COG0400 1069642007824 putative hydrolase; Provisional; Region: PRK11460 1069642007825 integral membrane protein; Region: integ_memb_HG; TIGR03954 1069642007826 Regulator of chromosome condensation (RCC1) repeat; Region: RCC1; pfam00415 1069642007827 Regulator of chromosome condensation (RCC1) repeat; Region: RCC1_2; pfam13540 1069642007828 Regulator of chromosome condensation (RCC1) repeat; Region: RCC1; pfam00415 1069642007829 Regulator of chromosome condensation (RCC1) repeat; Region: RCC1; pfam00415 1069642007830 Regulator of chromosome condensation (RCC1) repeat; Region: RCC1; pfam00415 1069642007831 IPT/TIG domain; Region: TIG; pfam01833 1069642007832 polycystic kidney disease I (PKD) domain; similar to other cell-surface modules, with an IG-like fold; domain probably functions as a ligand binding site in protein-protein or protein-carbohydrate interactions; a single instance of the repeat is...; Region: PKD; cd00146 1069642007833 insertion element IS2 transposase InsD; Provisional; Region: PRK14702 1069642007834 HTH-like domain; Region: HTH_21; pfam13276 1069642007835 Integrase core domain; Region: rve; pfam00665 1069642007836 Integrase core domain; Region: rve_3; pfam13683 1069642007837 SH3 domain protein; Region: SH3_and_anchor; TIGR04211 1069642007838 YD repeat (two copies); Region: YD_repeat_2x; TIGR01643 1069642007839 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 1069642007840 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 1069642007841 Predicted SAM-dependent methyltransferases [General function prediction only]; Region: COG1092 1069642007842 Middle domain of the SAM-dependent methyltransferase RlmI and related proteins; Region: RlmI_M_like; cd11572 1069642007843 putative RNA binding site [nucleotide binding]; other site 1069642007844 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 1069642007845 S-adenosylmethionine binding site [chemical binding]; other site 1069642007846 Esterase-like activity of phytase; Region: Phytase-like; pfam13449 1069642007847 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 1069642007848 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 1069642007849 iron-sulfur cluster [ion binding]; other site 1069642007850 [2Fe-2S] cluster binding site [ion binding]; other site 1069642007851 START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC (SRPBCC) ligand-binding domain superfamily; Region: SRPBCC; cl14643 1069642007852 hydrophobic ligand binding site; other site 1069642007853 5,10-methylene-tetrahydrofolate dehydrogenase/Methenyl tetrahydrofolate cyclohydrolase [Coenzyme metabolism]; Region: FolD; COG0190 1069642007854 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 1069642007855 NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080 1069642007856 homodimer interface [polypeptide binding]; other site 1069642007857 NADP binding site [chemical binding]; other site 1069642007858 substrate binding site [chemical binding]; other site 1069642007859 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 1069642007860 active site 1069642007861 Response regulator receiver domain; Region: Response_reg; pfam00072 1069642007862 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 1069642007863 active site 1069642007864 phosphorylation site [posttranslational modification] 1069642007865 intermolecular recognition site; other site 1069642007866 dimerization interface [polypeptide binding]; other site 1069642007867 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1069642007868 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 1069642007869 dimer interface [polypeptide binding]; other site 1069642007870 phosphorylation site [posttranslational modification] 1069642007871 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 1069642007872 ATP binding site [chemical binding]; other site 1069642007873 Mg2+ binding site [ion binding]; other site 1069642007874 G-X-G motif; other site 1069642007875 phage assembly protein; Region: IV; PHA00019 1069642007876 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 1069642007877 Type II/IV secretion system protein; Region: T2SE; pfam00437 1069642007878 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 1069642007879 ATP binding site [chemical binding]; other site 1069642007880 Walker A motif; other site 1069642007881 hexamer interface [polypeptide binding]; other site 1069642007882 Walker B motif; other site 1069642007883 Protein of unknown function (DUF1266); Region: DUF1266; pfam06889 1069642007884 Domain of unknown function (DUF4097); Region: DUF4097; pfam13349 1069642007885 aspartyl-tRNA synthetase; Validated; Region: aspS; PRK00476 1069642007886 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 1069642007887 dimer interface [polypeptide binding]; other site 1069642007888 anticodon binding site; other site 1069642007889 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 1069642007890 homodimer interface [polypeptide binding]; other site 1069642007891 motif 1; other site 1069642007892 active site 1069642007893 motif 2; other site 1069642007894 GAD domain; Region: GAD; pfam02938 1069642007895 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 1069642007896 active site 1069642007897 motif 3; other site 1069642007898 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 1069642007899 alternative sigma factor RpoH; Region: rpoH_proteo; TIGR02392 1069642007900 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1069642007901 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 1069642007902 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 1069642007903 DNA binding residues [nucleotide binding] 1069642007904 RNA polymerase sigma factor, FliA/WhiG family; Region: FliA_WhiG; TIGR02479 1069642007905 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1069642007906 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 1069642007907 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 1069642007908 DNA binding residues [nucleotide binding] 1069642007909 Antiactivator of flagellar biosynthesis FleN, an ATPase [Cell motility]; Region: flhG; COG0455 1069642007910 FleN is a member of the Fer4_NifH superfamily. It shares the common function as an ATPase, with the ATP-binding domain at the N-terminus. In Pseudomonas aeruginosa, FleN gene is involved in regulating the number of flagella and chemotactic motility by...; Region: FleN-like; cd02038 1069642007911 P-loop; other site 1069642007912 FleN is a member of the Fer4_NifH superfamily. It shares the common function as an ATPase, with the ATP-binding domain at the N-terminus. In Pseudomonas aeruginosa, FleN gene is involved in regulating the number of flagella and chemotactic motility by...; Region: FleN-like; cd02038 1069642007913 flagellar biosynthesis regulator FlhF; Validated; Region: flhF; PRK05703 1069642007914 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1069642007915 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 1069642007916 Walker A/P-loop; other site 1069642007917 ATP binding site [chemical binding]; other site 1069642007918 flagellar biosynthesis protein FlhA; Validated; Region: flhA; PRK06012 1069642007919 FHIPEP family; Region: FHIPEP; pfam00771 1069642007920 flagellar biosynthesis protein FlhB; Reviewed; Region: flhB; PRK05702 1069642007921 Uncharacterized homolog of the cytoplasmic domain of flagellar protein FhlB [Function unknown]; Region: COG2257 1069642007922 flagellar biosynthesis protein FliR; Reviewed; Region: fliR; PRK05701 1069642007923 flagellar biosynthesis protein FliQ; Validated; Region: fliQ; PRK05700 1069642007924 flagellar biosynthesis protein FliP; Reviewed; Region: fliP; PRK05699 1069642007925 Flagellar biosynthesis protein, FliO; Region: FliO; pfam04347 1069642007926 Surface presentation of antigens (SPOA); Region: SpoA; cl00819 1069642007927 flagellar motor switch protein FliM; Validated; Region: fliM; PRK06666 1069642007928 Surface presentation of antigens (SPOA); Region: SpoA; pfam01052 1069642007929 Flagellar basal body-associated protein FliL; Region: FliL; cl00681 1069642007930 flagellar basal body-associated protein FliL; Reviewed; Region: fliL; PRK07718 1069642007931 CsbD-like; Region: CsbD; cl17424 1069642007932 GIY-YIG nuclease domain superfamily; Region: GIY-YIG_SF; cl15257 1069642007933 GIY-YIG motif/motif A; other site 1069642007934 active site 1069642007935 L,D-transpeptidase catalytic domain; Region: YkuD_2; pfam13645 1069642007936 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 1069642007937 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 1069642007938 active site 1069642007939 dimerization interface [polypeptide binding]; other site 1069642007940 Uncharacterized protein conserved in bacteria [Function unknown]; Region: DedD; COG3147 1069642007941 Sporulation related domain; Region: SPOR; pfam05036 1069642007942 ATP-dependent DNA helicase PcrA; Region: pcrA; TIGR01073 1069642007943 Part of AAA domain; Region: AAA_19; pfam13245 1069642007944 Family description; Region: UvrD_C_2; pfam13538 1069642007945 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 1069642007946 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 1069642007947 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1069642007948 dimer interface [polypeptide binding]; other site 1069642007949 putative CheW interface [polypeptide binding]; other site 1069642007950 flagellin; Provisional; Region: PRK12802 1069642007951 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 1069642007952 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 1069642007953 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 1069642007954 Beta-lactamase; Region: Beta-lactamase; pfam00144 1069642007955 Lysine 2,3-aminomutase [Amino acid transport and metabolism]; Region: KamA; COG1509 1069642007956 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 1069642007957 FeS/SAM binding site; other site 1069642007958 Lysine-2,3-aminomutase; Region: LAM_C; pfam12544 1069642007959 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 1069642007960 Ankyrin repeats (many copies); Region: Ank_4; pfam13637 1069642007961 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 1069642007962 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 1069642007963 oligomerisation interface [polypeptide binding]; other site 1069642007964 mobile loop; other site 1069642007965 roof hairpin; other site 1069642007966 penicillin-binding protein, 1A family; Region: PBP_1a_fam; TIGR02074 1069642007967 Transglycosylase; Region: Transgly; pfam00912 1069642007968 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 1069642007969 Beta-lactamase superfamily domain; Region: Lactamase_B_2; pfam12706 1069642007970 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 1069642007971 catalytic loop [active] 1069642007972 iron binding site [ion binding]; other site 1069642007973 tol-pal system beta propeller repeat protein TolB; Region: propeller_TolB; TIGR02800 1069642007974 Radical SAM superfamily; Region: Radical_SAM; pfam04055 1069642007975 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 1069642007976 FeS/SAM binding site; other site 1069642007977 radical SAM additional 4Fe4S-binding SPASM domain; Region: rSAM_more_4Fe4S; TIGR04085 1069642007978 CHASE2 is an extracellular sensory domain, which is present in various classes of transmembrane receptors that are parts of signal transduction pathways in bacteria; Region: CHASE2; smart01080 1069642007979 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1069642007980 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 1069642007981 dimer interface [polypeptide binding]; other site 1069642007982 phosphorylation site [posttranslational modification] 1069642007983 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 1069642007984 ATP binding site [chemical binding]; other site 1069642007985 Mg2+ binding site [ion binding]; other site 1069642007986 G-X-G motif; other site 1069642007987 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 1069642007988 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 1069642007989 active site 1069642007990 phosphorylation site [posttranslational modification] 1069642007991 intermolecular recognition site; other site 1069642007992 dimerization interface [polypeptide binding]; other site 1069642007993 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 1069642007994 Walker A motif; other site 1069642007995 ATP binding site [chemical binding]; other site 1069642007996 Walker B motif; other site 1069642007997 arginine finger; other site 1069642007998 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 1069642007999 Siderophore-interacting protein [Inorganic ion transport and metabolism]; Region: ViuB; COG2375 1069642008000 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 1069642008001 FAD binding pocket [chemical binding]; other site 1069642008002 FAD binding motif [chemical binding]; other site 1069642008003 phosphate binding motif [ion binding]; other site 1069642008004 NAD binding pocket [chemical binding]; other site 1069642008005 lipoprotein signal peptidase; Reviewed; Region: lspA; PRK00376 1069642008006 lipoprotein signal peptidase; Provisional; Region: PRK14787 1069642008007 Domain of unknown function (DUF4415); Region: DUF4415; pfam14384 1069642008008 Response regulator consisting of a CheY-like receiver domain and a Fis-type HTH domain [Signal transduction mechanisms / Transcription]; Region: COG4567 1069642008009 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 1069642008010 active site 1069642008011 phosphorylation site [posttranslational modification] 1069642008012 intermolecular recognition site; other site 1069642008013 dimerization interface [polypeptide binding]; other site 1069642008014 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 1069642008015 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1069642008016 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 1069642008017 ATP binding site [chemical binding]; other site 1069642008018 Mg2+ binding site [ion binding]; other site 1069642008019 G-X-G motif; other site 1069642008020 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 1069642008021 Periplasmic solute binding protein family; Region: SBP_bac_9; pfam01297 1069642008022 intersubunit interface [polypeptide binding]; other site 1069642008023 heme ABC exporter, ATP-binding protein CcmA; Region: ccmA; TIGR01189 1069642008024 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cd00267 1069642008025 Walker A/P-loop; other site 1069642008026 ATP binding site [chemical binding]; other site 1069642008027 Q-loop/lid; other site 1069642008028 ABC transporter signature motif; other site 1069642008029 Walker B; other site 1069642008030 D-loop; other site 1069642008031 H-loop/switch region; other site 1069642008032 ABC-type Mn2+/Zn2+ transport systems, permease components [Inorganic ion transport and metabolism]; Region: ZnuB; COG1108 1069642008033 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 1069642008034 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 1069642008035 ligand binding site [chemical binding]; other site 1069642008036 flexible hinge region; other site 1069642008037 cheY-homologous receiver domain; Region: REC; smart00448 1069642008038 active site 1069642008039 intermolecular recognition site; other site 1069642008040 prolipoprotein diacylglyceryl transferase; Reviewed; Region: PRK00052 1069642008041 Peptidase Gluzincin family (thermolysin-like proteinases, TLPs) includes peptidases M1, M2, M3, M4, M13, M32 and M36 (fungalysins); Region: GluZincin; cl14813 1069642008042 Zn binding site [ion binding]; other site 1069642008043 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 1069642008044 IHF - DNA interface [nucleotide binding]; other site 1069642008045 IHF dimer interface [polypeptide binding]; other site 1069642008046 6-phosphofructokinase; Provisional; Region: PRK03202 1069642008047 6-phosphofructokinase; Region: PFKA_ATP; TIGR02482 1069642008048 active site 1069642008049 ADP/pyrophosphate binding site [chemical binding]; other site 1069642008050 dimerization interface [polypeptide binding]; other site 1069642008051 allosteric effector site; other site 1069642008052 fructose-1,6-bisphosphate binding site; other site 1069642008053 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 1069642008054 Type I periplasmic ligand-binding domain of uncharacterized ABC (Atpase Binding Cassette)-type active transport systems that are predicted to be involved in uptake of amino acids, peptides, or inorganic ions; Region: PBP1_ABC_ligand_binding_like_12; cd06347 1069642008055 putative ligand binding site [chemical binding]; other site 1069642008056 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1069642008057 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 1069642008058 TM-ABC transporter signature motif; other site 1069642008059 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 1069642008060 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 1069642008061 TM-ABC transporter signature motif; other site 1069642008062 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 1069642008063 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 1069642008064 Walker A/P-loop; other site 1069642008065 ATP binding site [chemical binding]; other site 1069642008066 Q-loop/lid; other site 1069642008067 ABC transporter signature motif; other site 1069642008068 Walker B; other site 1069642008069 D-loop; other site 1069642008070 H-loop/switch region; other site 1069642008071 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 1069642008072 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 1069642008073 Walker A/P-loop; other site 1069642008074 ATP binding site [chemical binding]; other site 1069642008075 Q-loop/lid; other site 1069642008076 ABC transporter signature motif; other site 1069642008077 Walker B; other site 1069642008078 D-loop; other site 1069642008079 H-loop/switch region; other site 1069642008080 Regulator of chromosome condensation (RCC1) repeat; Region: RCC1; pfam00415 1069642008081 Alpha-tubulin suppressor and related RCC1 domain-containing proteins [Cell division and chromosome partitioning / Cytoskeleton]; Region: ATS1; COG5184 1069642008082 Regulator of chromosome condensation (RCC1) repeat; Region: RCC1_2; pfam13540 1069642008083 Regulator of chromosome condensation (RCC1) repeat; Region: RCC1_2; pfam13540 1069642008084 Regulator of chromosome condensation (RCC1) repeat; Region: RCC1; pfam00415 1069642008085 Regulator of chromosome condensation (RCC1) repeat; Region: RCC1_2; pfam13540 1069642008086 FecR protein; Region: FecR; pfam04773 1069642008087 heavy metal sensor kinase; Region: cztS_silS_copS; TIGR01386 1069642008088 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 1069642008089 dimerization interface [polypeptide binding]; other site 1069642008090 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 1069642008091 dimer interface [polypeptide binding]; other site 1069642008092 phosphorylation site [posttranslational modification] 1069642008093 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 1069642008094 ATP binding site [chemical binding]; other site 1069642008095 Mg2+ binding site [ion binding]; other site 1069642008096 G-X-G motif; other site 1069642008097 DNA-binding transcriptional regulator CpxR; Provisional; Region: PRK10955 1069642008098 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 1069642008099 active site 1069642008100 phosphorylation site [posttranslational modification] 1069642008101 intermolecular recognition site; other site 1069642008102 dimerization interface [polypeptide binding]; other site 1069642008103 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 1069642008104 DNA binding site [nucleotide binding] 1069642008105 flagellar hook protein FlgE; Validated; Region: flgE; PRK05682 1069642008106 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 1069642008107 Flagellar basal body protein FlaE; Region: FlaE; pfam07559 1069642008108 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 1069642008109 flagellar operon protein; Region: flg_new; TIGR02530 1069642008110 flagellar basal body rod modification protein; Reviewed; Region: flgD; PRK06655 1069642008111 Flagellar hook capping protein - N-terminal region; Region: FlgD; pfam03963 1069642008112 FlgD Tudor-like domain; Region: FLgD_tudor; pfam13861 1069642008113 Flagellar hook-length control protein FliK; Region: Flg_hook; pfam02120 1069642008114 Uncharacterized conserved protein [Function unknown]; Region: COG3334 1069642008115 flagellar biosynthesis chaperone; Validated; Region: fliJ; PRK07720 1069642008116 flagellar export protein FliJ; Region: flagell_FliJ; TIGR02473 1069642008117 flagellar protein export ATPase FliI; Region: FliI_clade1; TIGR03496 1069642008118 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 1069642008119 Walker A motif/ATP binding site; other site 1069642008120 Walker B motif; other site 1069642008121 Flagellar assembly protein FliH; Region: FliH; pfam02108 1069642008122 flagellar motor switch protein G; Validated; Region: fliG; PRK05686 1069642008123 MgtE intracellular N domain; Region: MgtE_N; cl15244 1069642008124 FliG C-terminal domain; Region: FliG_C; pfam01706 1069642008125 flagellar MS-ring protein; Reviewed; Region: fliF; PRK06007 1069642008126 Secretory protein of YscJ/FliF family; Region: YscJ_FliF; cl01907 1069642008127 Flagellar M-ring protein C-terminal; Region: YscJ_FliF_C; pfam08345 1069642008128 Flagellar hook-basal body complex protein FliE; Region: FliE; pfam02049 1069642008129 flagellar basal body rod protein FlgC; Reviewed; Region: flgC; PRK05681 1069642008130 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 1069642008131 Flagellar basal body protein [Cell motility and secretion]; Region: FlgB; COG1815 1069642008132 flagellar basal body rod protein FlgB; Reviewed; Region: flgB; PRK07182 1069642008133 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 1069642008134 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 1069642008135 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 1069642008136 tol-pal system protein YbgF; Region: tol_pal_ybgF; TIGR02795 1069642008137 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 1069642008138 binding surface 1069642008139 Tetratricopeptide repeat; Region: TPR_16; pfam13432 1069642008140 TPR motif; other site 1069642008141 tol-pal system protein YbgF; Region: tol_pal_ybgF; TIGR02795 1069642008142 Tetratricopeptide repeat; Region: TPR_12; pfam13424 1069642008143 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 1069642008144 binding surface 1069642008145 TPR motif; other site 1069642008146 ABC-type transport system involved in resistance to organic solvents, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2B; COG0767 1069642008147 Permease; Region: Permease; pfam02405 1069642008148 ABC-type transport system involved in resistance to organic solvents, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2A; COG1127 1069642008149 ATP-binding cassette transport system involved in resistant to organic solvents; Region: ABC_Org_Solvent_Resistant; cd03261 1069642008150 Walker A/P-loop; other site 1069642008151 ATP binding site [chemical binding]; other site 1069642008152 Q-loop/lid; other site 1069642008153 ABC transporter signature motif; other site 1069642008154 Walker B; other site 1069642008155 D-loop; other site 1069642008156 H-loop/switch region; other site 1069642008157 ABC-type transport system involved in resistance to organic solvents, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2C; COG1463 1069642008158 mce related protein; Region: MCE; pfam02470 1069642008159 Trypsin-like serine protease; Many of these are synthesized as inactive precursor zymogens that are cleaved during limited proteolysis to generate their active forms. Alignment contains also inactive enzymes that have substitutions of the catalytic triad...; Region: Tryp_SPc; cl00149 1069642008160 active site 1069642008161 substrate binding sites [chemical binding]; other site 1069642008162 Protein of unknown function (DUF721); Region: DUF721; cl02324 1069642008163 tRNA (uracil-5-)-methyltransferase Gid; Reviewed; Region: PRK05335 1069642008164 Glucose inhibited division protein A; Region: GIDA; pfam01134 1069642008165 thymidine kinase; Provisional; Region: PRK04296 1069642008166 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 1069642008167 Bacterial periplasmic substrate-binding proteins; Region: PBPb; smart00062 1069642008168 substrate binding pocket [chemical binding]; other site 1069642008169 membrane-bound complex binding site; other site 1069642008170 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 1069642008171 N-acetyl-D-glucosamine binding site [chemical binding]; other site 1069642008172 catalytic residue [active] 1069642008173 glucosamine--fructose-6-phosphate aminotransferase; Reviewed; Region: PRK00331 1069642008174 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 1069642008175 glutaminase active site [active] 1069642008176 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 1069642008177 dimer interface [polypeptide binding]; other site 1069642008178 active site 1069642008179 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 1069642008180 dimer interface [polypeptide binding]; other site 1069642008181 active site 1069642008182 N-acetylglucosamine-1-phosphate uridyltransferase (contains nucleotidyltransferase and I-patch acetyltransferase domains) [Cell envelope biogenesis, outer membrane]; Region: GlmU; COG1207 1069642008183 N-terminal domain of bacterial GlmU; Region: GT2_GlmU_N_bac; cd02540 1069642008184 Substrate binding site; other site 1069642008185 Mg++ binding site; other site 1069642008186 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 1069642008187 active site 1069642008188 substrate binding site [chemical binding]; other site 1069642008189 CoA binding site [chemical binding]; other site 1069642008190 Peptidase M14-like domain of Escherichia coli Murein Peptide Amidase A and related proteins; Region: M14_MpaA_like; cd06904 1069642008191 putative active site [active] 1069642008192 Zn binding site [ion binding]; other site 1069642008193 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others; Region: HAD_like; cl17915 1069642008194 motif II; other site 1069642008195 GAF domain; Region: GAF; cl17456 1069642008196 GAF domain; Region: GAF_2; pfam13185 1069642008197 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1069642008198 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 1069642008199 dimer interface [polypeptide binding]; other site 1069642008200 phosphorylation site [posttranslational modification] 1069642008201 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cl00075 1069642008202 ATP binding site [chemical binding]; other site 1069642008203 Mg2+ binding site [ion binding]; other site 1069642008204 G-X-G motif; other site 1069642008205 CHASE3 domain; Region: CHASE3; pfam05227 1069642008206 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 1069642008207 dimer interface [polypeptide binding]; other site 1069642008208 phosphorylation site [posttranslational modification] 1069642008209 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 1069642008210 ATP binding site [chemical binding]; other site 1069642008211 Mg2+ binding site [ion binding]; other site 1069642008212 G-X-G motif; other site 1069642008213 Response regulator receiver domain; Region: Response_reg; pfam00072 1069642008214 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 1069642008215 active site 1069642008216 phosphorylation site [posttranslational modification] 1069642008217 intermolecular recognition site; other site 1069642008218 dimerization interface [polypeptide binding]; other site 1069642008219 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 1069642008220 putative binding surface; other site 1069642008221 active site 1069642008222 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 1069642008223 Response regulator receiver domain; Region: Response_reg; pfam00072 1069642008224 active site 1069642008225 phosphorylation site [posttranslational modification] 1069642008226 intermolecular recognition site; other site 1069642008227 dimerization interface [polypeptide binding]; other site 1069642008228 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 1069642008229 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 1069642008230 active site 1069642008231 phosphorylation site [posttranslational modification] 1069642008232 intermolecular recognition site; other site 1069642008233 dimerization interface [polypeptide binding]; other site 1069642008234 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 1069642008235 Walker A motif; other site 1069642008236 ATP binding site [chemical binding]; other site 1069642008237 Walker B motif; other site 1069642008238 arginine finger; other site 1069642008239 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 1069642008240 Agmatinase-like family includes proclavaminic acid amidinohydrolase; Region: Agmatinase_PAH; cd11592 1069642008241 agmatinase; Region: agmatinase; TIGR01230 1069642008242 oligomer interface [polypeptide binding]; other site 1069642008243 putative active site [active] 1069642008244 Mn binding site [ion binding]; other site 1069642008245 A/G-specific DNA glycosylase [DNA replication, recombination, and repair]; Region: MutY; COG1194 1069642008246 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 1069642008247 minor groove reading motif; other site 1069642008248 helix-hairpin-helix signature motif; other site 1069642008249 substrate binding pocket [chemical binding]; other site 1069642008250 active site 1069642008251 tol-pal system beta propeller repeat protein TolB; Region: propeller_TolB; TIGR02800 1069642008252 ABC-type amino acid transport/signal transduction systems, periplasmic component/domain [Amino acid transport and metabolism / Signal transduction mechanisms]; Region: HisJ; COG0834 1069642008253 putative monovalent cation/H+ antiporter subunit A; Reviewed; Region: PRK12644 1069642008254 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 1069642008255 dimer interface [polypeptide binding]; other site 1069642008256 active site 1069642008257 aspartate-rich active site metal binding site; other site 1069642008258 allosteric magnesium binding site [ion binding]; other site 1069642008259 Schiff base residues; other site 1069642008260 NAD(P) binding domain of amino acid dehydrogenase-like proteins; Region: NAD_bind_amino_acid_DH; cl17226 1069642008261 NAD(P) binding pocket [chemical binding]; other site 1069642008262 Porphobilinogen deaminase [Coenzyme metabolism]; Region: HemC; COG0181 1069642008263 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; cl17708 1069642008264 domain interfaces; other site 1069642008265 active site 1069642008266 glutamate-1-semialdehyde aminotransferase; Provisional; Region: PRK00062 1069642008267 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 1069642008268 inhibitor-cofactor binding pocket; inhibition site 1069642008269 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1069642008270 catalytic residue [active] 1069642008271 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1069642008272 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 1069642008273 ATP binding site [chemical binding]; other site 1069642008274 Mg2+ binding site [ion binding]; other site 1069642008275 G-X-G motif; other site 1069642008276 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1069642008277 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 1069642008278 active site 1069642008279 phosphorylation site [posttranslational modification] 1069642008280 intermolecular recognition site; other site 1069642008281 dimerization interface [polypeptide binding]; other site 1069642008282 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 1069642008283 DNA binding site [nucleotide binding] 1069642008284 The URO-D_CIMS_like protein superfamily includes bacterial and eukaryotic uroporphyrinogen decarboxylases (URO-D), coenzyme M methyltransferases and other putative bacterial methyltransferases, as well as cobalamine (B12) independent methionine synthases; Region: URO-D_CIMS_like; cl00464 1069642008285 coproporphyrinogen III oxidase; Provisional; Region: PRK09249 1069642008286 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 1069642008287 FeS/SAM binding site; other site 1069642008288 HemN C-terminal domain; Region: HemN_C; pfam06969 1069642008289 protoporphyrinogen oxidase; Region: proto_IX_ox; TIGR00562 1069642008290 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 1069642008291 ferrochelatase; Reviewed; Region: hemH; PRK00035 1069642008292 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 1069642008293 C-terminal domain interface [polypeptide binding]; other site 1069642008294 active site 1069642008295 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 1069642008296 active site 1069642008297 N-terminal domain interface [polypeptide binding]; other site 1069642008298 LrgB-like family; Region: LrgB; pfam04172 1069642008299 LrgA family; Region: LrgA; pfam03788 1069642008300 D-Ala-D-Ala carboxypeptidase 3 (S13) family; Region: Peptidase_S13; cl17429 1069642008301 D-alanyl-D-alanine carboxypeptidase, serine-type, PBP4 family; Region: PBP4; TIGR00666 1069642008302 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 1069642008303 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 1069642008304 Ankyrin repeats (many copies); Region: Ank_5; pfam13857 1069642008305 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 1069642008306 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 1069642008307 DEAD-like helicases superfamily; Region: DEXDc; smart00487 1069642008308 ATP binding site [chemical binding]; other site 1069642008309 Mg++ binding site [ion binding]; other site 1069642008310 motif III; other site 1069642008311 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 1069642008312 nucleotide binding region [chemical binding]; other site 1069642008313 ATP-binding site [chemical binding]; other site 1069642008314 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 1069642008315 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 1069642008316 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 1069642008317 active site 1069642008318 NTP binding site [chemical binding]; other site 1069642008319 metal binding triad [ion binding]; metal-binding site 1069642008320 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 1069642008321 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 1069642008322 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 1069642008323 ligand binding site [chemical binding]; other site 1069642008324 flexible hinge region; other site 1069642008325 Serine proteases of the peptidase family S9A [Amino acid transport and metabolism]; Region: COG1505 1069642008326 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 1069642008327 Putative flagellar system-associated repeat; Region: SWM_repeat; pfam13753 1069642008328 Regulator of chromosome condensation (RCC1) repeat; Region: RCC1_2; pfam13540 1069642008329 Regulator of chromosome condensation (RCC1) repeat; Region: RCC1; pfam00415 1069642008330 Regulator of chromosome condensation (RCC1) repeat; Region: RCC1; pfam00415 1069642008331 Regulator of chromosome condensation (RCC1) repeat; Region: RCC1_2; pfam13540 1069642008332 Regulator of chromosome condensation (RCC1) repeat; Region: RCC1_2; pfam13540 1069642008333 Alpha-tubulin suppressor and related RCC1 domain-containing proteins [Cell division and chromosome partitioning / Cytoskeleton]; Region: ATS1; COG5184 1069642008334 Regulator of chromosome condensation (RCC1) repeat; Region: RCC1_2; pfam13540 1069642008335 Regulator of chromosome condensation (RCC1) repeat; Region: RCC1_2; pfam13540 1069642008336 chemotaxis-specific methylesterase; Provisional; Region: PRK00742 1069642008337 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 1069642008338 active site 1069642008339 phosphorylation site [posttranslational modification] 1069642008340 intermolecular recognition site; other site 1069642008341 dimerization interface [polypeptide binding]; other site 1069642008342 CheB methylesterase; Region: CheB_methylest; pfam01339 1069642008343 CheR methyltransferase, all-alpha domain; Region: CheR_N; pfam03705 1069642008344 Methylase of chemotaxis methyl-accepting proteins [Cell motility and secretion / Signal transduction mechanisms]; Region: CheR; COG1352 1069642008345 CheR methyltransferase, SAM binding domain; Region: CheR; pfam01739 1069642008346 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 1069642008347 putative binding surface; other site 1069642008348 active site 1069642008349 Chemotaxis protein histidine kinase and related kinases [Cell motility and secretion / Signal transduction mechanisms]; Region: CheA; COG0643 1069642008350 Signal transducing histidine kinase, homodimeric domain; Region: H-kinase_dim; pfam02895 1069642008351 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 1069642008352 ATP binding site [chemical binding]; other site 1069642008353 G-X-G motif; other site 1069642008354 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 1069642008355 Chemotaxis signal transduction protein [Cell motility and secretion / Signal transduction mechanisms]; Region: CheW; COG0835 1069642008356 transketolase; Reviewed; Region: PRK05899 1069642008357 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 1069642008358 TPP-binding site [chemical binding]; other site 1069642008359 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 1069642008360 PYR/PP interface [polypeptide binding]; other site 1069642008361 dimer interface [polypeptide binding]; other site 1069642008362 TPP binding site [chemical binding]; other site 1069642008363 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 1069642008364 Adenosine deaminase [Nucleotide transport and metabolism]; Region: Add; COG1816 1069642008365 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 1069642008366 active site 1069642008367 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; COG0405 1069642008368 Gamma-glutamyltranspeptidase; Region: G_glu_transpept; pfam01019 1069642008369 proline iminopeptidase, Neisseria-type subfamily; Region: pro_imino_pep_1; TIGR01249 1069642008370 homoserine O-acetyltransferase; Provisional; Region: metX; cl17114 1069642008371 Trypsin-like serine protease; Many of these are synthesized as inactive precursor zymogens that are cleaved during limited proteolysis to generate their active forms. Alignment contains also inactive enzymes that have substitutions of the catalytic triad...; Region: Tryp_SPc; cl00149 1069642008372 cleavage site 1069642008373 active site 1069642008374 substrate binding sites [chemical binding]; other site 1069642008375 Trypsin-like serine protease; Many of these are synthesized as inactive precursor zymogens that are cleaved during limited proteolysis to generate their active forms. Alignment contains also inactive enzymes that have substitutions of the catalytic triad...; Region: Tryp_SPc; cl00149 1069642008376 cleavage site 1069642008377 active site 1069642008378 substrate binding sites [chemical binding]; other site 1069642008379 2-succinyl-6-hydroxy-2, 4-cyclohexadiene-1-carboxylate synthase; Region: menH_SHCHC; TIGR03695 1069642008380 2-succinyl-5-enolpyruvyl-6-hydroxy-3-cyclohexene-1- carboxylic-acid synthase; Region: menD; TIGR00173 1069642008381 Pyrimidine (PYR) binding domain of 2-succinyl-5-enolpyruvyl-6-hydroxy-3-cyclohexadiene-1- carboxylate synthase (MenD) and related proteins; Region: TPP_PYR_MenD; cd07037 1069642008382 dimer interface [polypeptide binding]; other site 1069642008383 tetramer interface [polypeptide binding]; other site 1069642008384 PYR/PP interface [polypeptide binding]; other site 1069642008385 TPP binding site [chemical binding]; other site 1069642008386 Thiamine pyrophosphate (TPP) family, SHCHC synthase subfamily, TPP-binding module; composed of proteins similar to Escherichia coli 2-succinyl-6-hydroxyl-2,4-cyclohexadiene-1-carboxylic acid (SHCHC) synthase (also called MenD). SHCHC synthase plays a key...; Region: TPP_SHCHC_synthase; cd02009 1069642008387 TPP-binding site; other site 1069642008388 chorismate binding enzyme; Region: Chorismate_bind; pfam00425 1069642008389 3-deoxy-D-arabino-heptulosonate 7-phosphate (DAHP) synthase [Amino acid transport and metabolism]; Region: AroA; COG2876 1069642008390 3-deoxy-D-manno-octulosonic acid (KDO) 8-phosphate synthase [Cell envelope biogenesis, outer membrane]; Region: KdsA; cl17225 1069642008391 Methylase involved in ubiquinone/menaquinone biosynthesis [Coenzyme metabolism]; Region: UbiE; COG2226 1069642008392 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 1069642008393 S-adenosylmethionine binding site [chemical binding]; other site 1069642008394 Trypsin-like serine proteases, typically periplasmic, contain C-terminal PDZ domain [Posttranslational modification, protein turnover, chaperones]; Region: DegQ; COG0265 1069642008395 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 1069642008396 active site 1069642008397 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 1069642008398 Enoyl-CoA hydratase/isomerase family; Region: ECH; pfam00378 1069642008399 substrate binding site [chemical binding]; other site 1069642008400 oxyanion hole (OAH) forming residues; other site 1069642008401 trimer interface [polypeptide binding]; other site 1069642008402 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 1069642008403 Chorismate synthase [Amino acid transport and metabolism]; Region: AroC; COG0082 1069642008404 Chorismase synthase, the enzyme catalyzing the final step of the shikimate pathway; Region: Chorismate_synthase; cd07304 1069642008405 Tetramer interface [polypeptide binding]; other site 1069642008406 active site 1069642008407 FMN-binding site [chemical binding]; other site 1069642008408 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 1069642008409 ADP binding site [chemical binding]; other site 1069642008410 magnesium binding site [ion binding]; other site 1069642008411 putative shikimate binding site; other site 1069642008412 Class I aldolases; Region: Aldolase_Class_I; cl17187 1069642008413 shikimate 5-dehydrogenase; Region: aroE; TIGR00507 1069642008414 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 1069642008415 3-phosphoshikimate 1-carboxyvinyltransferase; Provisional; Region: PRK02427 1069642008416 This domain family includes the Enolpyruvate transferase (EPT) family and the RNA 3' phosphate cyclase family (RTPC). These 2 families differ in that EPT is formed by 3 repeats of an alpha-beta structural domain while RTPC has 3 similar repeats...; Region: EPT_RTPC-like; cl00288 1069642008417 putative active site [active] 1069642008418 Dehydroquinate synthase-like (DHQ-like) and iron-containing alcohol dehydrogenases (Fe-ADH); Region: DHQ_Fe-ADH; cl02872 1069642008419 active site 1069642008420 NAD binding site [chemical binding]; other site 1069642008421 metal binding site [ion binding]; metal-binding site 1069642008422 Family 1 of Uracil-DNA glycosylase (UDG) enzymes; Region: UDG_F1; cd10027 1069642008423 ligand binding site [chemical binding]; other site 1069642008424 active site 1069642008425 UGI interface [polypeptide binding]; other site 1069642008426 catalytic site [active] 1069642008427 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 1069642008428 synthetase active site [active] 1069642008429 NTP binding site [chemical binding]; other site 1069642008430 metal binding site [ion binding]; metal-binding site 1069642008431 voltage-dependent potassium channel beta subunit, animal; Region: Kv_beta; TIGR01293 1069642008432 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 1069642008433 active site 1069642008434 catalytic tetrad [active] 1069642008435 RHS Repeat; Region: RHS_repeat; pfam05593 1069642008436 RHS Repeat; Region: RHS_repeat; pfam05593 1069642008437 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 1069642008438 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 1069642008439 Endonuclease I; Region: Endonuclease_1; pfam04231 1069642008440 Peptidase M14-like domain of Escherichia coli Murein Peptide Amidase A and related proteins; Region: M14_MpaA_like; cd06904 1069642008441 putative active site [active] 1069642008442 Zn binding site [ion binding]; other site 1069642008443 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 1069642008444 LexA DNA binding domain; Region: LexA_DNA_bind; pfam01726 1069642008445 LexA repressor; Validated; Region: PRK00215 1069642008446 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 1069642008447 Catalytic site [active] 1069642008448 Pirin-related protein [General function prediction only]; Region: COG1741 1069642008449 Pirin; Region: Pirin; pfam02678 1069642008450 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1069642008451 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1069642008452 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 1069642008453 dimerization interface [polypeptide binding]; other site 1069642008454 GAF domain-containing protein [Signal transduction mechanisms]; Region: COG1956 1069642008455 GAF domain; Region: GAF_2; pfam13185 1069642008456 DnaK suppressor protein [Signal transduction mechanisms]; Region: DksA; COG1734 1069642008457 Cadherin repeat-like domain; Region: CA_like; cl15786 1069642008458 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1069642008459 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1069642008460 Bacterial transcriptional repressor; Region: TetR; pfam13972 1069642008461 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 1069642008462 phage T7 F exclusion suppressor FxsA; Reviewed; Region: fxsA; PRK11463 1069642008463 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 1069642008464 putative catalytic site [active] 1069642008465 putative metal binding site [ion binding]; other site 1069642008466 putative phosphate binding site [ion binding]; other site 1069642008467 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 1069642008468 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 1069642008469 dimer interface [polypeptide binding]; other site 1069642008470 decamer (pentamer of dimers) interface [polypeptide binding]; other site 1069642008471 catalytic triad [active] 1069642008472 peroxidatic and resolving cysteines [active] 1069642008473 A circularly permuted ATPgrasp; Region: CP_ATPgrasp_1; cl17448 1069642008474 Response regulator receiver domain; Region: Response_reg; pfam00072 1069642008475 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 1069642008476 active site 1069642008477 phosphorylation site [posttranslational modification] 1069642008478 intermolecular recognition site; other site 1069642008479 dimerization interface [polypeptide binding]; other site 1069642008480 CHASE3 domain; Region: CHASE3; pfam05227 1069642008481 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 1069642008482 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 1069642008483 putative active site [active] 1069642008484 heme pocket [chemical binding]; other site 1069642008485 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 1069642008486 dimer interface [polypeptide binding]; other site 1069642008487 phosphorylation site [posttranslational modification] 1069642008488 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 1069642008489 ATP binding site [chemical binding]; other site 1069642008490 Mg2+ binding site [ion binding]; other site 1069642008491 G-X-G motif; other site 1069642008492 Response regulator receiver domain; Region: Response_reg; pfam00072 1069642008493 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 1069642008494 active site 1069642008495 phosphorylation site [posttranslational modification] 1069642008496 intermolecular recognition site; other site 1069642008497 dimerization interface [polypeptide binding]; other site 1069642008498 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 1069642008499 putative binding surface; other site 1069642008500 active site 1069642008501 Putative glycolipid-binding; Region: Glycolipid_bind; pfam06475 1069642008502 Uncharacterized conserved protein [Function unknown]; Region: COG0397 1069642008503 Predicted esterase [General function prediction only]; Region: COG0400 1069642008504 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 1069642008505 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 1069642008506 C-terminal peptidase (prc); Region: prc; TIGR00225 1069642008507 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 1069642008508 protein binding site [polypeptide binding]; other site 1069642008509 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 1069642008510 Catalytic dyad [active] 1069642008511 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1069642008512 ADP-L-glycero-D-manno-heptose-6-epimerase; Region: heptose_epim; TIGR02197 1069642008513 NAD(P) binding site [chemical binding]; other site 1069642008514 active site 1069642008515 phenylalanine 4-monooxygenase; Provisional; Region: PRK14056 1069642008516 Biopterin-dependent aromatic amino acid hydroxylase; a family of non-heme, iron(II)-dependent enzymes that includes prokaryotic and eukaryotic phenylalanine-4-hydroxylase (PheOH), eukaryotic tyrosine hydroxylase (TyrOH) and eukaryotic tryptophan...; Region: arom_aa_hydroxylase; cd00361 1069642008517 cofactor binding site; other site 1069642008518 metal binding site [ion binding]; metal-binding site 1069642008519 rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: LasT; COG0565 1069642008520 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 1069642008521 Bacillus subtilis PhoD and related proteins, metallophosphatase domain; Region: MPP_PhoD; cd07389 1069642008522 putative active site [active] 1069642008523 putative metal binding site [ion binding]; other site 1069642008524 Protein of unknown function (DUF342); Region: DUF342; pfam03961 1069642008525 riboflavin biosynthesis protein RibD; Region: eubact_ribD; TIGR00326 1069642008526 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 1069642008527 catalytic motif [active] 1069642008528 Zn binding site [ion binding]; other site 1069642008529 RibD C-terminal domain; Region: RibD_C; cl17279 1069642008530 4-hydroxyphenylpyruvate dioxygenase and related hemolysins [Amino acid transport and metabolism / General function prediction only]; Region: COG3185 1069642008531 N-terminal domain of 4-hydroxyphenylpyruvate dioxygenase (HPPD) and hydroxymandelate Synthase (HmaS); Region: HPPD_N_like; cd08342 1069642008532 dimer interface [polypeptide binding]; other site 1069642008533 C-terminal domain of 4-hydroxyphenylpyruvate dioxygenase (HppD) and hydroxymandelate Synthase (HmaS); Region: HPPD_C_like; cd07250 1069642008534 active site 1069642008535 Fe binding site [ion binding]; other site 1069642008536 PIF1-like helicase; Region: PIF1; pfam05970 1069642008537 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 1069642008538 Walker A motif; other site 1069642008539 ATP binding site [chemical binding]; other site 1069642008540 Walker B motif; other site 1069642008541 Predicted metalloendopeptidase [Posttranslational modification, protein turnover, chaperones]; Region: PepO; COG3590 1069642008542 Peptidase family M13 includes neprilysin, endothelin-converting enzyme I; Region: M13; cd08662 1069642008543 active site 1069642008544 Zn binding site [ion binding]; other site 1069642008545 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 1069642008546 active site residue [active] 1069642008547 Haloacid dehalogenase-like hydrolase; Region: HAD_2; pfam13419 1069642008548 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 1069642008549 motif II; other site 1069642008550 ABC-type amino acid transport/signal transduction systems, periplasmic component/domain [Amino acid transport and metabolism / Signal transduction mechanisms]; Region: HisJ; COG0834 1069642008551 short chain dehydrogenase; Provisional; Region: PRK07454 1069642008552 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1069642008553 NAD(P) binding site [chemical binding]; other site 1069642008554 active site 1069642008555 Domain of unknown function (DUF2520); Region: DUF2520; pfam10728 1069642008556 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 1069642008557 oligomerization interface [polypeptide binding]; other site 1069642008558 active site 1069642008559 metal binding site [ion binding]; metal-binding site 1069642008560 pantoate--beta-alanine ligase; Region: panC; TIGR00018 1069642008561 Pantoate-beta-alanine ligase; Region: PanC; cd00560 1069642008562 active site 1069642008563 ATP-binding site [chemical binding]; other site 1069642008564 pantoate-binding site; other site 1069642008565 HXXH motif; other site 1069642008566 phosphopantothenoylcysteine decarboxylase / phosphopantothenate--cysteine ligase; Region: coaBC_dfp; TIGR00521 1069642008567 Flavoprotein; Region: Flavoprotein; pfam02441 1069642008568 DNA / pantothenate metabolism flavoprotein; Region: DFP; pfam04127 1069642008569 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 1069642008570 nucleotide binding site [chemical binding]; other site 1069642008571 Type III pantothenate kinase; Region: Pan_kinase; cl17198 1069642008572 Aspartate alpha-decarboxylase or L-aspartate 1-decarboxylase, a pyruvoyl group-dependent decarboxylase in beta-alanine production; Region: Asp_decarbox; cd06919 1069642008573 tetramerization interface [polypeptide binding]; other site 1069642008574 active site 1069642008575 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 1069642008576 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1069642008577 ABC transporter; Region: ABC_tran_2; pfam12848 1069642008578 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1069642008579 Protein of unknown function (DUF2799); Region: DUF2799; pfam10973 1069642008580 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1069642008581 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 1069642008582 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1069642008583 Gram-negative bacterial tonB protein; Region: TonB; pfam03544 1069642008584 TonB-dependent vitamin B12 receptor; Region: TonB-B12; TIGR01779 1069642008585 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 1069642008586 N-terminal plug; other site 1069642008587 ligand-binding site [chemical binding]; other site 1069642008588 Bacterial periplasmic substrate-binding proteins; Region: PBPb; smart00062 1069642008589 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 1069642008590 substrate binding pocket [chemical binding]; other site 1069642008591 membrane-bound complex binding site; other site 1069642008592 hinge residues; other site 1069642008593 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 1069642008594 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 1069642008595 N-acetyl-D-glucosamine binding site [chemical binding]; other site 1069642008596 catalytic residue [active] 1069642008597 3-hydroxy-3-methylglutaryl-CoA lyase, catalytic TIM barrel domain; Region: DRE_TIM_HMGL; cd07938 1069642008598 active site 1069642008599 catalytic residues [active] 1069642008600 metal binding site [ion binding]; metal-binding site 1069642008601 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 1069642008602 carboxyltransferase (CT) interaction site; other site 1069642008603 biotinylation site [posttranslational modification]; other site 1069642008604 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK08591 1069642008605 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 1069642008606 ATP-grasp domain; Region: ATP-grasp_4; cl17255 1069642008607 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; pfam02785 1069642008608 enoyl-CoA hydratase; Provisional; Region: PRK05995 1069642008609 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 1069642008610 substrate binding site [chemical binding]; other site 1069642008611 oxyanion hole (OAH) forming residues; other site 1069642008612 trimer interface [polypeptide binding]; other site 1069642008613 3-methylcrotonyl-CoA carboxylase, beta chain; Region: PLN02820 1069642008614 Acetyl-CoA carboxylase alpha subunit [Lipid metabolism]; Region: AccA; cl17345 1069642008615 Acetyl-CoA carboxylase alpha subunit [Lipid metabolism]; Region: AccA; cl17345 1069642008616 The hotdog fold was initially identified in the E. coli FabA (beta-hydroxydecanoyl-acyl carrier protein (ACP)-dehydratase) structure and subsequently in 4HBT (4-hydroxybenzoyl-CoA thioesterase) from Pseudomonas. A number of other seemingly unrelated...; Region: hot_dog; cl00509 1069642008617 active site 2 [active] 1069642008618 active site 1 [active] 1069642008619 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 1069642008620 S-adenosylmethionine binding site [chemical binding]; other site 1069642008621 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 1069642008622 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1069642008623 Coenzyme A binding pocket [chemical binding]; other site 1069642008624 hypothetical protein; Provisional; Region: PRK05421 1069642008625 putative catalytic site [active] 1069642008626 putative phosphate binding site [ion binding]; other site 1069642008627 putative metal binding site [ion binding]; other site 1069642008628 ABC-type Na+ transport system, ATPase component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatA; COG4555 1069642008629 ATP-binding cassette domain of an uncharacterized transporter similar in sequence to NatA; Region: ABC_NatA_like; cd03267 1069642008630 Walker A/P-loop; other site 1069642008631 ATP binding site [chemical binding]; other site 1069642008632 Q-loop/lid; other site 1069642008633 ABC transporter signature motif; other site 1069642008634 Walker B; other site 1069642008635 D-loop; other site 1069642008636 H-loop/switch region; other site 1069642008637 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4587 1069642008638 ABC-2 family transporter protein; Region: ABC2_membrane_6; cl01496 1069642008639 ABC-2 family transporter protein; Region: ABC2_membrane_6; cl01496 1069642008640 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4587 1069642008641 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 1069642008642 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 1069642008643 putative C-terminal domain interface [polypeptide binding]; other site 1069642008644 putative GSH binding site (G-site) [chemical binding]; other site 1069642008645 putative dimer interface [polypeptide binding]; other site 1069642008646 C-terminal, alpha helical domain of an unknown subfamily 8 of Glutathione S-transferases; Region: GST_C_8; cd03207 1069642008647 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 1069642008648 N-terminal domain interface [polypeptide binding]; other site 1069642008649 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 1069642008650 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1069642008651 Coenzyme A binding pocket [chemical binding]; other site 1069642008652 oligoendopeptidase, pepF/M3 family; Region: M3_fam_3; TIGR02290 1069642008653 Peptidase family M3B Oligopeptidase F (PepF); Region: M3B_PepF_2; cd09607 1069642008654 active site 1069642008655 Zn binding site [ion binding]; other site 1069642008656 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cl15239 1069642008657 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cl15239 1069642008658 putative active site [active] 1069642008659 catalytic site [active] 1069642008660 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cl15239 1069642008661 PLD-like domain; Region: PLDc_2; pfam13091 1069642008662 putative active site [active] 1069642008663 catalytic site [active] 1069642008664 Orthopoxvirus protein of unknown function (DUF830); Region: DUF830; cl13998 1069642008665 Outer membrane protein beta-barrel domain; Region: OMP_b-brl_2; pfam13568 1069642008666 Surface antigen; Region: Bac_surface_Ag; pfam01103 1069642008667 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; pfam13505 1069642008668 Protein of unknown function, DUF481; Region: DUF481; cl01213 1069642008669 Surface antigen; Region: Bac_surface_Ag; pfam01103 1069642008670 Uncharacterized conserved protein [Function unknown]; Region: COG5361 1069642008671 Protein of unknown function (DUF1254); Region: DUF1254; pfam06863 1069642008672 Protein of unknown function (DUF1214); Region: DUF1214; cl08447 1069642008673 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 1069642008674 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 1069642008675 Interdomain contacts; other site 1069642008676 Cytokine receptor motif; other site 1069642008677 Cysteine rich repeat; Region: Cys_rich_FGFR; pfam00839 1069642008678 Cysteine rich repeat; Region: Cys_rich_FGFR; pfam00839 1069642008679 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 1069642008680 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 1069642008681 putative active site [active] 1069642008682 heme pocket [chemical binding]; other site 1069642008683 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 1069642008684 dimer interface [polypeptide binding]; other site 1069642008685 phosphorylation site [posttranslational modification] 1069642008686 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 1069642008687 ATP binding site [chemical binding]; other site 1069642008688 Mg2+ binding site [ion binding]; other site 1069642008689 G-X-G motif; other site 1069642008690 Response regulator receiver domain; Region: Response_reg; pfam00072 1069642008691 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 1069642008692 active site 1069642008693 phosphorylation site [posttranslational modification] 1069642008694 intermolecular recognition site; other site 1069642008695 dimerization interface [polypeptide binding]; other site 1069642008696 N-terminal domain of Bd3614-like deaminases; Region: Bd3614-N; pfam14442 1069642008697 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 1069642008698 nucleoside/Zn binding site; other site 1069642008699 dimer interface [polypeptide binding]; other site 1069642008700 catalytic motif [active] 1069642008701 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 1069642008702 S-adenosylmethionine binding site [chemical binding]; other site 1069642008703 S-adenosylmethionine decarboxylase; Region: AdoMet_dc; cl00687 1069642008704 spermidine synthase; Provisional; Region: PRK00811 1069642008705 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 1069642008706 S-adenosylmethionine binding site [chemical binding]; other site 1069642008707 Superoxide dismutase [Inorganic ion transport and metabolism]; Region: SodA; COG0605 1069642008708 Iron/manganese superoxide dismutases, alpha-hairpin domain; Region: Sod_Fe_N; pfam00081 1069642008709 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 1069642008710 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 1069642008711 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 1069642008712 BON domain; Region: BON; pfam04972 1069642008713 BON domain; Region: BON; pfam04972 1069642008714 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1069642008715 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1069642008716 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 1069642008717 dimerization interface [polypeptide binding]; other site 1069642008718 M28 Zn-Peptidase Aeromonas (Vibrio) proteolytica aminopeptidase; Region: M28_AAP; cd03879 1069642008719 Peptidase family M28; Region: Peptidase_M28; pfam04389 1069642008720 active site 1069642008721 metal binding site [ion binding]; metal-binding site 1069642008722 Fe-S oxidoreductase [Energy production and conversion]; Region: COG1032 1069642008723 B12 binding domain; Region: B12-binding; pfam02310 1069642008724 B12 binding site [chemical binding]; other site 1069642008725 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 1069642008726 FeS/SAM binding site; other site 1069642008727 Protein of unknown function (DUF4080); Region: DUF4080; pfam13311 1069642008728 Domain of unknown function (DUF1772); Region: DUF1772; pfam08592 1069642008729 SAM-dependent methyltransferases [Secondary metabolites biosynthesis, transport, and catabolism / General function prediction only]; Region: SmtA; COG0500 1069642008730 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 1069642008731 S-adenosylmethionine binding site [chemical binding]; other site 1069642008732 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; pfam13231 1069642008733 Predicted nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG0702 1069642008734 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1069642008735 NAD(P) binding site [chemical binding]; other site 1069642008736 active site 1069642008737 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 1069642008738 Alpha-crystallin domain (ACD) of alpha-crystallin-type small(s) heat shock proteins (Hsps). sHsps are small stress induced proteins with monomeric masses between 12 -43 kDa, whose common feature is the Alpha-crystallin domain (ACD). sHsps are generally...; Region: ACD_sHsps-like; cd06464 1069642008739 putative dimer interface [polypeptide binding]; other site 1069642008740 transcription elongation factor GreA; Region: greA; TIGR01462 1069642008741 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 1069642008742 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases; Region: Glo_EDI_BRP_like_10; cd07251 1069642008743 Bacterial L-asparaginases and related enzymes; Region: L-asparaginase_like; cl00216 1069642008744 active site 1069642008745 START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC (SRPBCC) ligand-binding domain superfamily; Region: SRPBCC; cl14643 1069642008746 hydrophobic ligand binding site; other site 1069642008747 Protein of unknown function (DUF2807); Region: DUF2807; pfam10988 1069642008748 Domain of unknown function (DUF4098); Region: DUF4098; pfam13345 1069642008749 ABC transporter ATP-binding protein; Provisional; Region: PRK15064 1069642008750 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1069642008751 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1069642008752 ABC transporter; Region: ABC_tran_2; pfam12848 1069642008753 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1069642008754 DTW domain; Region: DTW; pfam03942 1069642008755 Domain of unknown function (DUF1993); Region: DUF1993; pfam09351 1069642008756 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 1069642008757 Uncharacterized protein conserved in bacteria [Function unknown]; Region: ErfK; COG1376 1069642008758 Extensin-like protein C-terminus; Region: Extensin-like_C; pfam06904 1069642008759 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 1069642008760 DNA binding site [nucleotide binding] 1069642008761 active site 1069642008762 AbgT putative transporter family; Region: ABG_transport; cl17431 1069642008763 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 1069642008764 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 1069642008765 putative active site [active] 1069642008766 heme pocket [chemical binding]; other site 1069642008767 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 1069642008768 dimer interface [polypeptide binding]; other site 1069642008769 phosphorylation site [posttranslational modification] 1069642008770 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 1069642008771 ATP binding site [chemical binding]; other site 1069642008772 Mg2+ binding site [ion binding]; other site 1069642008773 G-X-G motif; other site 1069642008774 Response regulator receiver domain; Region: Response_reg; pfam00072 1069642008775 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 1069642008776 active site 1069642008777 phosphorylation site [posttranslational modification] 1069642008778 intermolecular recognition site; other site 1069642008779 dimerization interface [polypeptide binding]; other site 1069642008780 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 1069642008781 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 1069642008782 active site 1069642008783 phosphorylation site [posttranslational modification] 1069642008784 intermolecular recognition site; other site 1069642008785 dimerization interface [polypeptide binding]; other site 1069642008786 GAF domain; Region: GAF; pfam01590 1069642008787 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1069642008788 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 1069642008789 dimer interface [polypeptide binding]; other site 1069642008790 phosphorylation site [posttranslational modification] 1069642008791 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 1069642008792 ATP binding site [chemical binding]; other site 1069642008793 Mg2+ binding site [ion binding]; other site 1069642008794 G-X-G motif; other site 1069642008795 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 1069642008796 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 1069642008797 active site 1069642008798 phosphorylation site [posttranslational modification] 1069642008799 intermolecular recognition site; other site 1069642008800 dimerization interface [polypeptide binding]; other site 1069642008801 Ligand-binding SRPBCC domain of an uncharacterized subfamily of proteins; Region: SRPBCC_1; cd07818 1069642008802 putative hydrophobic ligand binding site [chemical binding]; other site 1069642008803 Protein of unknown function (DUF1428); Region: DUF1428; pfam07237 1069642008804 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_24; cd09012 1069642008805 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 1069642008806 Putative hydrophobic ligand-binding SRPBCC domain of an uncharacterized subgroup of CalC- and Aha1-like proteins; Region: SRPBCC_CalC_Aha1-like_9; cd07826 1069642008807 putative hydrophobic ligand binding site [chemical binding]; other site 1069642008808 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 1069642008809 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 1069642008810 active site 1069642008811 catalytic tetrad [active] 1069642008812 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 1069642008813 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 1069642008814 putative substrate translocation pore; other site 1069642008815 Transcription factor zinc-finger; Region: zf-TFIIB; cl01565 1069642008816 CoA binding domain; Region: CoA_binding; cl17356 1069642008817 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 1069642008818 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 1069642008819 active site 1069642008820 metal binding site [ion binding]; metal-binding site 1069642008821 Predicted Zn-dependent hydrolases of the beta-lactamase fold [General function prediction only]; Region: COG2220 1069642008822 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 1069642008823 Beta-lactamase superfamily domain; Region: Lactamase_B_2; pfam12706 1069642008824 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 1069642008825 dimerization interface [polypeptide binding]; other site 1069642008826 putative DNA binding site [nucleotide binding]; other site 1069642008827 putative Zn2+ binding site [ion binding]; other site 1069642008828 Putative hydrophobic ligand-binding SRPBCC domain of an uncharacterized subgroup of CalC- and Aha1-like proteins; Region: SRPBCC_CalC_Aha1-like_1; cd08894 1069642008829 putative hydrophobic ligand binding site [chemical binding]; other site 1069642008830 Putative hydrophobic ligand-binding SRPBCC domain of Micromonospora echinospora CalC, human Aha1, and related proteins; Region: SRPBCC_CalC_Aha1-like; cd07814 1069642008831 putative hydrophobic ligand binding site [chemical binding]; other site 1069642008832 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 1069642008833 active site 1069642008834 metal binding site [ion binding]; metal-binding site 1069642008835 Domain of unknown function (DUF4269); Region: DUF4269; pfam14091 1069642008836 Methanothermobacter thermautotrophicus Mth212-like subfamily of the ExoIII family purinic/apyrimidinic (AP) endonucleases; Region: Mth212-like_AP-endo; cd09085 1069642008837 active site 1069642008838 putative catalytic site [active] 1069642008839 phosphate binding site A [ion binding]; other site 1069642008840 DNA binding site [nucleotide binding] 1069642008841 metal binding site A [ion binding]; metal-binding site 1069642008842 putative AP binding site [nucleotide binding]; other site 1069642008843 putative metal binding site B [ion binding]; other site 1069642008844 phosphate binding site B [ion binding]; other site 1069642008845 Putative hydrophobic ligand-binding SRPBCC domain of an uncharacterized subgroup of CalC- and Aha1-like proteins; Region: SRPBCC_CalC_Aha1-like_3; cd08896 1069642008846 putative hydrophobic ligand binding site [chemical binding]; other site 1069642008847 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_24; cd09012 1069642008848 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 1069642008849 Ligand-binding SRPBCC domain of an uncharacterized subfamily of proteins; Region: SRPBCC_1; cd07818 1069642008850 putative hydrophobic ligand binding site [chemical binding]; other site 1069642008851 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1069642008852 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1069642008853 Uncharacterized conserved protein [Function unknown]; Region: COG2128 1069642008854 Carboxymuconolactone decarboxylase family; Region: CMD; pfam02627 1069642008855 RNA polymerase sigma factor SigJ; Provisional; Region: PRK09636 1069642008856 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1069642008857 Sigma-70, region 4; Region: Sigma70_r4_2; pfam08281 1069642008858 Putative intracellular protease/amidase [General function prediction only]; Region: ThiJ; COG0693 1069642008859 Type 1 glutamine amidotransferase (GATase1)-like domain found in a subgroup of proteins similar to PfpI from Pyrococcus furiosus; Region: GATase1_PfpI_3; cd03140 1069642008860 conserved cys residue [active] 1069642008861 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 1069642008862 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 1069642008863 putative active site [active] 1069642008864 heme pocket [chemical binding]; other site 1069642008865 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 1069642008866 putative active site [active] 1069642008867 heme pocket [chemical binding]; other site 1069642008868 DNA or RNA helicases of superfamily II [Transcription / DNA replication, recombination, and repair]; Region: SSL2; COG1061 1069642008869 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 1069642008870 ATP binding site [chemical binding]; other site 1069642008871 putative Mg++ binding site [ion binding]; other site 1069642008872 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 1069642008873 nucleotide binding region [chemical binding]; other site 1069642008874 ATP-binding site [chemical binding]; other site 1069642008875 Cupin-like domain; Region: Cupin_8; pfam13621 1069642008876 Predicted transcriptional regulators [Transcription]; Region: COG1733 1069642008877 HxlR-like helix-turn-helix; Region: HxlR; pfam01638 1069642008878 Pirin; Region: Pirin; pfam02678 1069642008879 4-Oxalocrotonate Tautomerase: Catalyzes the isomerization of unsaturated ketones. The structure is a homohexamer that is arranged as a trimer of dimers. The hexamer contains six active sites, each formed by residues from three monomers, two from one...; Region: 4Oxalocrotonate_Tautomerase; cl00235 1069642008880 hexamer interface [polypeptide binding]; other site 1069642008881 active site 2 [active] 1069642008882 Conserved protein/domain typically associated with flavoprotein oxygenases, DIM6/NTAB family [General function prediction only]; Region: COG1853 1069642008883 Protein of unknown function (DUF938); Region: DUF938; pfam06080 1069642008884 Methyltransferase domain; Region: Methyltransf_23; pfam13489 1069642008885 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 1069642008886 ATP binding site [chemical binding]; other site 1069642008887 putative Mg++ binding site [ion binding]; other site 1069642008888 Domain of unknown function (DUF4423); Region: DUF4423; pfam14394 1069642008889 PAP2_like proteins, a super-family of histidine phosphatases and vanadium haloperoxidases, includes type 2 phosphatidic acid phosphatase or lipid phosphate phosphatase (LPP), Glucose-6-phosphatase, Phosphatidylglycerophosphatase B and bacterial acid...; Region: PAP2_like; cl00474 1069642008890 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 1069642008891 active site 1069642008892 Protein of unknown function DUF45; Region: DUF45; pfam01863 1069642008893 Putative homoserine kinase type II (protein kinase fold) [General function prediction only]; Region: COG2334 1069642008894 serine/threonine protein kinase; Provisional; Region: PRK11768 1069642008895 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 1069642008896 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 1069642008897 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1069642008898 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1069642008899 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 1069642008900 dimerization interface [polypeptide binding]; other site 1069642008901 Putative NADPH-quinone reductase (modulator of drug activity B) [General function prediction only]; Region: MdaB; COG2249 1069642008902 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 1069642008903 Predicted membrane protein [Function unknown]; Region: COG4270 1069642008904 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1069642008905 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1069642008906 WHG domain; Region: WHG; pfam13305 1069642008907 isocitrate dehydrogenase; Validated; Region: PRK08299 1069642008908 Lipocalin-like domain; Region: Lipocalin_2; pfam08212 1069642008909 DNA polymerase III, subunit gamma and tau; Region: dnaX_nterm; TIGR02397 1069642008910 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 1069642008911 Walker A motif; other site 1069642008912 ATP binding site [chemical binding]; other site 1069642008913 Walker B motif; other site 1069642008914 arginine finger; other site 1069642008915 DNA polymerase III subunits gamma and tau domain III; Region: DNA_pol3_gamma3; pfam12169 1069642008916 hypothetical protein; Validated; Region: PRK00153 1069642008917 recombination protein RecR; Reviewed; Region: recR; PRK00076 1069642008918 RecR protein; Region: RecR; pfam02132 1069642008919 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 1069642008920 putative active site [active] 1069642008921 putative metal-binding site [ion binding]; other site 1069642008922 tetramer interface [polypeptide binding]; other site 1069642008923 GTPase SAR1 and related small G proteins [General function prediction only]; Region: COG1100 1069642008924 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cd00882 1069642008925 G1 box; other site 1069642008926 GTP/Mg2+ binding site [chemical binding]; other site 1069642008927 G2 box; other site 1069642008928 Switch I region; other site 1069642008929 G3 box; other site 1069642008930 Switch II region; other site 1069642008931 G4 box; other site 1069642008932 G5 box; other site 1069642008933 quinolinate synthetase; Provisional; Region: PRK09375 1069642008934 4'-phosphopantetheinyl transferase superfamily; Region: ACPS; pfam01648 1069642008935 Peptidase family M48; Region: Peptidase_M48; cl12018 1069642008936 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 1069642008937 Tetratricopeptide repeat; Region: TPR_12; pfam13424 1069642008938 Tetratricopeptide repeat; Region: TPR_12; pfam13424 1069642008939 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1069642008940 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 1069642008941 DNA binding site [nucleotide binding] 1069642008942 Uncharacterized protein family (UPF0270); Region: UPF0270; cl01180 1069642008943 gliding motility-associated lipoprotein GldJ; Region: GldJ; TIGR03524 1069642008944 ATP-dependent Lon protease, bacterial type [Posttranslational modification, protein turnover, chaperones]; Region: Lon; COG0466 1069642008945 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 1069642008946 Walker A motif; other site 1069642008947 ATP binding site [chemical binding]; other site 1069642008948 Walker B motif; other site 1069642008949 arginine finger; other site 1069642008950 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 1069642008951 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1069642008952 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 1069642008953 dimer interface [polypeptide binding]; other site 1069642008954 phosphorylation site [posttranslational modification] 1069642008955 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 1069642008956 ATP binding site [chemical binding]; other site 1069642008957 Mg2+ binding site [ion binding]; other site 1069642008958 G-X-G motif; other site 1069642008959 Response regulator receiver domain; Region: Response_reg; pfam00072 1069642008960 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 1069642008961 active site 1069642008962 phosphorylation site [posttranslational modification] 1069642008963 intermolecular recognition site; other site 1069642008964 dimerization interface [polypeptide binding]; other site 1069642008965 ATP-dependent protease ATP-binding subunit ClpX; Provisional; Region: clpX; PRK05342 1069642008966 ClpX C4-type zinc finger; Region: zf-C4_ClpX; pfam06689 1069642008967 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase; pfam01078 1069642008968 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 1069642008969 Walker A motif; other site 1069642008970 ATP binding site [chemical binding]; other site 1069642008971 Walker B motif; other site 1069642008972 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 1069642008973 Clp protease; Region: CLP_protease; pfam00574 1069642008974 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 1069642008975 oligomer interface [polypeptide binding]; other site 1069642008976 active site residues [active] 1069642008977 multifunctional aminopeptidase A; Provisional; Region: PRK00913 1069642008978 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 1069642008979 interface (dimer of trimers) [polypeptide binding]; other site 1069642008980 Substrate-binding/catalytic site; other site 1069642008981 Zn-binding sites [ion binding]; other site 1069642008982 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 1069642008983 sequence-specific DNA binding site [nucleotide binding]; other site 1069642008984 salt bridge; other site 1069642008985 Domain of unknown function (DUF4423); Region: DUF4423; pfam14394 1069642008986 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 1069642008987 Glutamate-cysteine ligase; Region: GshA; pfam08886 1069642008988 glutamate--cysteine ligase, T. ferrooxidans family; Region: gshA_ferroox; TIGR02049 1069642008989 Predicted ATPase involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: ArsA; COG0003 1069642008990 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 1069642008991 P loop; other site 1069642008992 Nucleotide binding site [chemical binding]; other site 1069642008993 DTAP/Switch II; other site 1069642008994 Switch I; other site 1069642008995 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 1069642008996 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 1069642008997 P loop; other site 1069642008998 Nucleotide binding site [chemical binding]; other site 1069642008999 DTAP/Switch II; other site 1069642009000 Switch I; other site 1069642009001 trigger factor; Region: tig; TIGR00115 1069642009002 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 1069642009003 Bacterial trigger factor protein (TF) C-terminus; Region: Trigger_C; pfam05698 1069642009004 Gram-negative bacterial tonB protein; Region: TonB; pfam03544 1069642009005 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 1069642009006 Peptidase family M23; Region: Peptidase_M23; pfam01551 1069642009007 Prokaryotic UGPase catalyses the synthesis of UDP-glucose; Region: UGPase_prokaryotic; cd02541 1069642009008 dTDP-glucose pyrophosphorylase [Cell envelope biogenesis, outer membrane]; Region: RfbA; COG1209 1069642009009 active site 1069642009010 tetramer interface; other site 1069642009011 primosome assembly protein PriA; Validated; Region: PRK05580 1069642009012 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 1069642009013 ATP binding site [chemical binding]; other site 1069642009014 putative Mg++ binding site [ion binding]; other site 1069642009015 helicase superfamily c-terminal domain; Region: HELICc; smart00490 1069642009016 FAD dependent oxidoreductase; Region: DAO; pfam01266 1069642009017 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 1069642009018 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 1069642009019 dimer interface [polypeptide binding]; other site 1069642009020 phosphorylation site [posttranslational modification] 1069642009021 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 1069642009022 ATP binding site [chemical binding]; other site 1069642009023 Mg2+ binding site [ion binding]; other site 1069642009024 G-X-G motif; other site 1069642009025 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 1069642009026 rRNA interaction site [nucleotide binding]; other site 1069642009027 S8 interaction site; other site 1069642009028 putative laminin-1 binding site; other site 1069642009029 elongation factor Ts; Provisional; Region: tsf; PRK09377 1069642009030 UBA/TS-N domain; Region: UBA; pfam00627 1069642009031 Elongation factor TS; Region: EF_TS; pfam00889 1069642009032 Elongation factor TS; Region: EF_TS; pfam00889 1069642009033 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 1069642009034 putative nucleotide binding site [chemical binding]; other site 1069642009035 uridine monophosphate binding site [chemical binding]; other site 1069642009036 homohexameric interface [polypeptide binding]; other site 1069642009037 ribosome recycling factor; Reviewed; Region: frr; PRK00083 1069642009038 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 1069642009039 hinge region; other site 1069642009040 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 1069642009041 Undecaprenyl pyrophosphate synthase [Lipid metabolism]; Region: UppS; COG0020 1069642009042 catalytic residue [active] 1069642009043 putative FPP diphosphate binding site; other site 1069642009044 putative FPP binding hydrophobic cleft; other site 1069642009045 dimer interface [polypeptide binding]; other site 1069642009046 putative IPP diphosphate binding site; other site 1069642009047 Cytidylyltransferase family; Region: CTP_transf_1; pfam01148 1069642009048 CDP-diglyceride synthetase [Lipid metabolism]; Region: CdsA; COG0575 1069642009049 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 1069642009050 active site 1069642009051 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 1069642009052 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 1069642009053 protein binding site [polypeptide binding]; other site 1069642009054 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 1069642009055 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 1069642009056 putative substrate binding region [chemical binding]; other site 1069642009057 tRNA threonylcarbamoyl adenosine modification protein YeaZ; Region: T6A_YeaZ; TIGR03725 1069642009058 Glycoprotease family; Region: Peptidase_M22; pfam00814 1069642009059 AAA domain; Region: AAA_31; pfam13614 1069642009060 FleN is a member of the Fer4_NifH superfamily. It shares the common function as an ATPase, with the ATP-binding domain at the N-terminus. In Pseudomonas aeruginosa, FleN gene is involved in regulating the number of flagella and chemotactic motility by...; Region: FleN-like; cd02038 1069642009061 P-loop; other site 1069642009062 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 1069642009063 Helix-turn-helix domain; Region: HTH_25; pfam13413 1069642009064 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 1069642009065 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 1069642009066 RNA binding surface [nucleotide binding]; other site 1069642009067 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 1069642009068 active site 1069642009069 Multi-copper polyphenol oxidoreductase laccase; Region: Cu-oxidase_4; pfam02578 1069642009070 Alkyladenine DNA glycosylase catalyzes the first step in base excision repair; Region: AAG; cd00540 1069642009071 active site 1069642009072 DNA binding site [nucleotide binding] 1069642009073 Predicted membrane protein, hemolysin III homolog [General function prediction only]; Region: COG1272 1069642009074 channel protein, hemolysin III family; Region: hlyIII; TIGR01065 1069642009075 Cys/Met metabolism PLP-dependent enzyme; Region: Cys_Met_Meta_PP; pfam01053 1069642009076 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 1069642009077 homodimer interface [polypeptide binding]; other site 1069642009078 substrate-cofactor binding pocket; other site 1069642009079 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1069642009080 catalytic residue [active] 1069642009081 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 1069642009082 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 1069642009083 dimer interface [polypeptide binding]; other site 1069642009084 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1069642009085 catalytic residue [active] 1069642009086 mce related protein; Region: MCE; pfam02470 1069642009087 ABC-type transport system involved in resistance to organic solvents, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2B; COG0767 1069642009088 Permease; Region: Permease; pfam02405 1069642009089 Permease; Region: Permease; pfam02405 1069642009090 ABC-type transport system involved in resistance to organic solvents, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2A; COG1127 1069642009091 ATP-binding cassette transport system involved in resistant to organic solvents; Region: ABC_Org_Solvent_Resistant; cd03261 1069642009092 Walker A/P-loop; other site 1069642009093 ATP binding site [chemical binding]; other site 1069642009094 Q-loop/lid; other site 1069642009095 ABC transporter signature motif; other site 1069642009096 Walker B; other site 1069642009097 D-loop; other site 1069642009098 H-loop/switch region; other site 1069642009099 ABC-type transport system involved in resistance to organic solvents, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2A; COG1127 1069642009100 ATP-binding cassette transport system involved in resistant to organic solvents; Region: ABC_Org_Solvent_Resistant; cd03261 1069642009101 Walker A/P-loop; other site 1069642009102 ATP binding site [chemical binding]; other site 1069642009103 Q-loop/lid; other site 1069642009104 ABC transporter signature motif; other site 1069642009105 Walker B; other site 1069642009106 D-loop; other site 1069642009107 H-loop/switch region; other site 1069642009108 succinyl-CoA synthetase subunit beta; Provisional; Region: sucC; PRK00696 1069642009109 ATP-grasp domain; Region: ATP-grasp_2; pfam08442 1069642009110 CoA-ligase; Region: Ligase_CoA; pfam00549 1069642009111 succinyl-CoA synthetase subunit alpha; Validated; Region: PRK05678 1069642009112 CoA binding domain; Region: CoA_binding; smart00881 1069642009113 CoA-ligase; Region: Ligase_CoA; pfam00549 1069642009114 Predicted RNA-binding protein (contains KH domain) [General function prediction only]; Region: COG1837 1069642009115 KH domain; Region: KH_4; pfam13083 1069642009116 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 1069642009117 Protein of unknown function (DUF2388); Region: DUF2388; pfam09498 1069642009118 Domain of unknown function (DUF4105); Region: DUF4105; pfam13387 1069642009119 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 1069642009120 active site 1069642009121 multimer interface [polypeptide binding]; other site 1069642009122 SAM-dependent methyltransferases related to tRNA (uracil-5-)-methyltransferase [Translation, ribosomal structure and biogenesis]; Region: TrmA; COG2265 1069642009123 TRAM domain; Region: TRAM; cl01282 1069642009124 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 1069642009125 S-adenosylmethionine binding site [chemical binding]; other site 1069642009126 TPR repeat; Region: TPR_11; pfam13414 1069642009127 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 1069642009128 binding surface 1069642009129 TPR motif; other site 1069642009130 Tetratricopeptide repeat; Region: TPR_12; pfam13424 1069642009131 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 1069642009132 binding surface 1069642009133 TPR motif; other site 1069642009134 tol-pal system protein YbgF; Region: tol_pal_ybgF; TIGR02795 1069642009135 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 1069642009136 non-specific DNA binding site [nucleotide binding]; other site 1069642009137 salt bridge; other site 1069642009138 sequence-specific DNA binding site [nucleotide binding]; other site 1069642009139 4-amino-4-deoxy-L-arabinose transferase and related glycosyltransferases of PMT family [Cell envelope biogenesis, outer membrane]; Region: ArnT; COG1807 1069642009140 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; pfam13231 1069642009141 Polymerase and Histidinol Phosphatase domain; Region: PHP; cl17102 1069642009142 Ferredoxin [Energy production and conversion]; Region: Fdx; COG0633 1069642009143 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 1069642009144 catalytic loop [active] 1069642009145 iron binding site [ion binding]; other site 1069642009146 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 1069642009147 active site 1069642009148 catalytic site [active] 1069642009149 substrate binding site [chemical binding]; other site 1069642009150 NAD synthetase; Provisional; Region: PRK13981 1069642009151 Glutamine aminotransferase (GAT, glutaminase) domain of glutamine-dependent NAD synthetases (class 7 and 8 nitrilases); Region: GAT_Gln-NAD-synth; cd07570 1069642009152 multimer interface [polypeptide binding]; other site 1069642009153 active site 1069642009154 catalytic triad [active] 1069642009155 protein interface 1 [polypeptide binding]; other site 1069642009156 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 1069642009157 homodimer interface [polypeptide binding]; other site 1069642009158 NAD binding pocket [chemical binding]; other site 1069642009159 ATP binding pocket [chemical binding]; other site 1069642009160 Mg binding site [ion binding]; other site 1069642009161 active-site loop [active] 1069642009162 Uncharacterized conserved protein (DUF2203); Region: DUF2203; pfam09969 1069642009163 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 1069642009164 binding surface 1069642009165 TPR motif; other site 1069642009166 TPR repeat; Region: TPR_11; pfam13414 1069642009167 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 1069642009168 binding surface 1069642009169 TPR motif; other site 1069642009170 ribosomal protein S12 methylthiotransferase RimO; Region: TIGR01125 1069642009171 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 1069642009172 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 1069642009173 FeS/SAM binding site; other site 1069642009174 Outer membrane lipoprotein carrier protein LolA; Region: LolA; cl17548 1069642009175 rRNA large subunit methyltransferase; Provisional; Region: PRK00103 1069642009176 nicotinic acid mononucleotide adenylyltransferase; Provisional; Region: nadD; PRK00071 1069642009177 Nicotinamide/nicotinate mononucleotide adenylyltransferase; Region: NMNAT; cd02165 1069642009178 active site 1069642009179 (T/H)XGH motif; other site 1069642009180 Oligomerisation domain; Region: Oligomerisation; pfam02410 1069642009181 GTPase CgtA; Reviewed; Region: obgE; PRK12299 1069642009182 GTP1/OBG; Region: GTP1_OBG; pfam01018 1069642009183 Obg GTPase; Region: Obg; cd01898 1069642009184 G1 box; other site 1069642009185 GTP/Mg2+ binding site [chemical binding]; other site 1069642009186 Switch I region; other site 1069642009187 G2 box; other site 1069642009188 G3 box; other site 1069642009189 Switch II region; other site 1069642009190 G4 box; other site 1069642009191 G5 box; other site 1069642009192 50S ribosomal protein L27; Validated; Region: rpmA; PRK05435 1069642009193 50S ribosomal protein L21; Validated; Region: rplU; PRK05573 1069642009194 ribonuclease G; Provisional; Region: PRK11712 1069642009195 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 1069642009196 homodimer interface [polypeptide binding]; other site 1069642009197 oligonucleotide binding site [chemical binding]; other site 1069642009198 AAA domain; Region: AAA_22; pfam13401 1069642009199 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 1069642009200 Walker A motif; other site 1069642009201 ATP binding site [chemical binding]; other site 1069642009202 Walker B motif; other site 1069642009203 2-deoxyribose-5-phosphate aldolase (DERA) of the DeoC family; Region: DeoC; cd00959 1069642009204 intersubunit interface [polypeptide binding]; other site 1069642009205 active site 1069642009206 catalytic residue [active] 1069642009207 pyrimidine-nucleoside phosphorylase; Region: Y_phosphoryl; TIGR02644 1069642009208 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 1069642009209 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 1069642009210 Pyrimidine nucleoside phosphorylase C-terminal domain; Region: PYNP_C; pfam07831 1069642009211 purine nucleoside phosphorylase; Provisional; Region: PRK08202 1069642009212 Peptidase S8 family domain in Subtilisin-like proteins; Region: Peptidases_S8_Subtilisin_like; cd07473 1069642009213 catalytic triad [active] 1069642009214 putative active site [active] 1069642009215 methylmalonyl-CoA decarboxylase alpha subunit; Region: mmdA; TIGR01117 1069642009216 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189; cl17682 1069642009217 Acetyl-CoA carboxylase alpha subunit [Lipid metabolism]; Region: AccA; cl17345 1069642009218 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK08591 1069642009219 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 1069642009220 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 1069642009221 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 1069642009222 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 1069642009223 carboxyltransferase (CT) interaction site; other site 1069642009224 biotinylation site [posttranslational modification]; other site 1069642009225 Sec-independent protein translocase protein (TatC); Region: TatC; pfam00902 1069642009226 Sec-independent protein secretion pathway components [Intracellular trafficking and secretion]; Region: TatA; COG1826 1069642009227 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 1069642009228 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 1069642009229 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 1069642009230 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 1069642009231 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 1069642009232 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 1069642009233 coproporphyrinogen III oxidase; Provisional; Region: PRK08599 1069642009234 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 1069642009235 FeS/SAM binding site; other site 1069642009236 HemN C-terminal domain; Region: HemN_C; pfam06969 1069642009237 GrpE; Region: GrpE; pfam01025 1069642009238 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 1069642009239 dimer interface [polypeptide binding]; other site 1069642009240 hsp70 (ATPase domain) interactions [polypeptide binding]; other site 1069642009241 chaperone protein DnaJ; Provisional; Region: PRK10767 1069642009242 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 1069642009243 HSP70 interaction site [polypeptide binding]; other site 1069642009244 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 1069642009245 substrate binding site [polypeptide binding]; other site 1069642009246 dimer interface [polypeptide binding]; other site 1069642009247 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 1069642009248 Periplasmic binding component of lipoprotein LppC, an immunodominant antigen; Region: PBP1_YraM_LppC_lipoprotein_like; cd06339 1069642009249 putative ligand binding site [chemical binding]; other site 1069642009250 Prokaryotic dksA/traR C4-type zinc finger; Region: zf-dskA_traR; cl00755 1069642009251 DnaK suppressor protein [Signal transduction mechanisms]; Region: DksA; COG1734 1069642009252 ATP-dependent Lon protease, bacterial type [Posttranslational modification, protein turnover, chaperones]; Region: Lon; COG0466 1069642009253 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 1069642009254 Walker A motif; other site 1069642009255 ATP binding site [chemical binding]; other site 1069642009256 Walker B motif; other site 1069642009257 arginine finger; other site 1069642009258 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 1069642009259 Type II secretory pathway, pseudopilin PulG [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulG; COG2165 1069642009260 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; pfam13544 1069642009261 Patatin-like phospholipase; Region: Patatin; pfam01734 1069642009262 active site 1069642009263 nucleophile elbow; other site 1069642009264 Domain of unknown function (DUF3488); Region: DUF3488; pfam11992 1069642009265 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 1069642009266 Transglutaminase-like superfamily; Region: Transglut_core; pfam01841 1069642009267 Uncharacterized conserved protein (some members contain a von Willebrand factor type A (vWA) domain) [General function prediction only]; Region: COG1721 1069642009268 Protein of unknown function DUF58; Region: DUF58; pfam01882 1069642009269 MoxR-like ATPases [General function prediction only]; Region: COG0714 1069642009270 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 1069642009271 Walker A motif; other site 1069642009272 ATP binding site [chemical binding]; other site 1069642009273 Walker B motif; other site 1069642009274 arginine finger; other site 1069642009275 NADH:ubiquinone oxidoreductase subunit N; Provisional; Region: PRK05777 1069642009276 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 1069642009277 NADH:ubiquinone oxidoreductase subunit M; Reviewed; Region: PRK05846 1069642009278 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 1069642009279 NADH:ubiquinone oxidoreductase subunit L; Reviewed; Region: PRK06590 1069642009280 NADH-Ubiquinone oxidoreductase (complex I), chain 5 N-terminus; Region: Oxidored_q1_N; pfam00662 1069642009281 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 1069642009282 NADH-Ubiquinone oxidoreductase (complex I) subunit C-terminus; Region: Oxidored_q1_C; pfam01010 1069642009283 NADH:ubiquinone oxidoreductase subunit K; Validated; Region: PRK05715 1069642009284 NADH:ubiquinone oxidoreductase subunit J; Provisional; Region: PRK06638 1069642009285 NADH dehydrogenase subunit J; Provisional; Region: PRK06433 1069642009286 Formate hydrogenlyase subunit 4 [Energy production and conversion]; Region: HyfC; COG0650 1069642009287 NADH:ubiquinone oxidoreductase subunit H; Provisional; Region: PRK06076 1069642009288 NADH-ubiquinone/plastoquinone oxidoreductase, chain 3; Region: Oxidored_q4; cl00535 1069642009289 Transcription-repair coupling factor (superfamily II helicase) [DNA replication, recombination, and repair / Transcription]; Region: Mfd; COG1197 1069642009290 CarD-like/TRCF domain; Region: CarD_TRCF; smart01058 1069642009291 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 1069642009292 ATP binding site [chemical binding]; other site 1069642009293 putative Mg++ binding site [ion binding]; other site 1069642009294 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 1069642009295 nucleotide binding region [chemical binding]; other site 1069642009296 ATP-binding site [chemical binding]; other site 1069642009297 This domain is found in proteins necessary for strand-specific repair in DNA such as TRCF in Escherichia coli; Region: TRCF; smart00982 1069642009298 Regulator of chromosome condensation (RCC1) repeat; Region: RCC1_2; pfam13540 1069642009299 Alpha-tubulin suppressor and related RCC1 domain-containing proteins [Cell division and chromosome partitioning / Cytoskeleton]; Region: ATS1; COG5184 1069642009300 Regulator of chromosome condensation (RCC1) repeat; Region: RCC1; pfam00415 1069642009301 Regulator of chromosome condensation (RCC1) repeat; Region: RCC1_2; pfam13540 1069642009302 Regulator of chromosome condensation (RCC1) repeat; Region: RCC1_2; pfam13540 1069642009303 Regulator of chromosome condensation (RCC1) repeat; Region: RCC1; pfam00415 1069642009304 Beta-glucosidase-related glycosidases [Carbohydrate transport and metabolism]; Region: BglX; COG1472 1069642009305 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; cl07971 1069642009306 F0F1 ATP synthase subunit epsilon; Validated; Region: atpC; PRK00571 1069642009307 mitochondrial ATP synthase delta subunit; Region: F1-ATPase_delta; cd12152 1069642009308 gamma subunit interface [polypeptide binding]; other site 1069642009309 epsilon subunit interface [polypeptide binding]; other site 1069642009310 LBP interface [polypeptide binding]; other site 1069642009311 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 1069642009312 F0F1 ATP synthase subunit beta; Validated; Region: PRK09280 1069642009313 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 1069642009314 alpha subunit interaction interface [polypeptide binding]; other site 1069642009315 Walker A motif; other site 1069642009316 ATP binding site [chemical binding]; other site 1069642009317 Walker B motif; other site 1069642009318 inhibitor binding site; inhibition site 1069642009319 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 1069642009320 mitochondrial ATP synthase gamma subunit; Region: F1-ATPase_gamma; cd12151 1069642009321 core domain interface [polypeptide binding]; other site 1069642009322 delta subunit interface [polypeptide binding]; other site 1069642009323 epsilon subunit interface [polypeptide binding]; other site 1069642009324 F0F1 ATP synthase subunit alpha; Validated; Region: PRK09281 1069642009325 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 1069642009326 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 1069642009327 beta subunit interaction interface [polypeptide binding]; other site 1069642009328 Walker A motif; other site 1069642009329 ATP binding site [chemical binding]; other site 1069642009330 Walker B motif; other site 1069642009331 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 1069642009332 F0F1 ATP synthase subunit delta; Validated; Region: PRK05758 1069642009333 ATP synthase delta (OSCP) subunit; Region: OSCP; pfam00213 1069642009334 F0F1-type ATP synthase, subunit b [Energy production and conversion]; Region: AtpF; COG0711 1069642009335 ATP synthase B/B' CF(0); Region: ATP-synt_B; pfam00430 1069642009336 F0F1 ATP synthase subunit B; Validated; Region: PRK05759 1069642009337 F0F1-type ATP synthase, subunit b [Energy production and conversion]; Region: AtpF; COG0711 1069642009338 Integral membrane protein CcmA involved in cell shape determination [Cell envelope biogenesis, outer membrane]; Region: CcmA; COG1664 1069642009339 Polymer-forming cytoskeletal; Region: Bactofilin; pfam04519 1069642009340 ParB-like nuclease domain; Region: ParBc; pfam02195 1069642009341 ParB/RepB/Spo0J family partition protein; Region: parB_part; TIGR00180 1069642009342 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 1069642009343 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 1069642009344 P-loop; other site 1069642009345 Magnesium ion binding site [ion binding]; other site 1069642009346 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 1069642009347 S-adenosylmethionine binding site [chemical binding]; other site 1069642009348 tRNA uridine 5-carboxymethylaminomethyl modification enzyme GidA; Validated; Region: PRK05192 1069642009349 tRNA:m(5)U-54 methyltransferase; Region: gid_trmFO; TIGR00137 1069642009350 GidA associated domain 3; Region: GIDA_assoc_3; pfam13932 1069642009351 tRNA modification GTPase TrmE; Reviewed; Region: trmE; PRK05291 1069642009352 GTP-binding protein TrmE N-terminus; Region: TrmE_N; pfam10396 1069642009353 trmE is a tRNA modification GTPase; Region: trmE; cd04164 1069642009354 G1 box; other site 1069642009355 GTP/Mg2+ binding site [chemical binding]; other site 1069642009356 Switch I region; other site 1069642009357 G2 box; other site 1069642009358 Switch II region; other site 1069642009359 G3 box; other site 1069642009360 G4 box; other site 1069642009361 Catalytic cysteine-containing C-terminus of GTPase, MnmE; Region: GTPase_Cys_C; pfam12631 1069642009362 jag_K homology RNA-binding domain. The KH domain is found in proteins homologous to the Bacillus subtilis protein Jag, which is associated with SpoIIIJ and is necessary for the third stage of sporulation. The KH motif is a beta-alpha-alpha-beta-beta...; Region: jag_KH; cd02414 1069642009363 G-X-X-G motif; other site 1069642009364 R3H domain found in proteins homologous to Bacillus subtilus Jag, which is associated with SpoIIIJ. SpoIIIJ is necessary for the third stage of sporulation. The name of the R3H domain comes from the characteristic spacing of the most conserved arginine...; Region: R3H_jag; cd02644 1069642009365 RxxxH motif; other site 1069642009366 membrane protein insertase, YidC/Oxa1 family, N-terminal domain; Region: yidC_nterm; TIGR03593 1069642009367 Preprotein translocase subunit YidC [Intracellular trafficking and secretion]; Region: YidC; COG0706 1069642009368 membrane protein insertase, YidC/Oxa1 family, C-terminal domain; Region: yidC_oxa1_cterm; TIGR03592