-- dump date 20140619_000525 -- class Genbank::misc_feature -- table misc_feature_note -- id note 667015000001 DnaA N-terminal domain; Region: DnaA_N; pfam11638 667015000002 chromosomal replication initiator protein DnaA; Region: DnaA; TIGR00362 667015000003 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 667015000004 Walker A motif; other site 667015000005 ATP binding site [chemical binding]; other site 667015000006 Walker B motif; other site 667015000007 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 667015000008 arginine finger; other site 667015000009 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 667015000010 DnaA box-binding interface [nucleotide binding]; other site 667015000011 Cna protein B-type domain; Region: Cna_B_2; pfam13715 667015000012 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 667015000013 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 667015000014 Walker A motif; other site 667015000015 ATP binding site [chemical binding]; other site 667015000016 Walker B motif; other site 667015000017 arginine finger; other site 667015000018 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 667015000019 Lipopolysaccharide-assembly; Region: LptE; pfam04390 667015000020 Preprotein translocase SecG subunit; Region: SecG; pfam03840 667015000021 NigD-like protein; Region: NigD; pfam12667 667015000022 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 667015000023 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 667015000024 active site 667015000025 phosphorylation site [posttranslational modification] 667015000026 intermolecular recognition site; other site 667015000027 dimerization interface [polypeptide binding]; other site 667015000028 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 667015000029 DNA binding site [nucleotide binding] 667015000030 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 667015000031 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 667015000032 ATP binding site [chemical binding]; other site 667015000033 Mg2+ binding site [ion binding]; other site 667015000034 G-X-G motif; other site 667015000035 Protein of unknown function (DUF2874); Region: DUF2874; pfam11396 667015000036 Protein of unknown function (DUF2874); Region: DUF2874; pfam11396 667015000037 Rho termination factor, N-terminal domain; Region: Rho_N; pfam07498 667015000038 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 667015000039 transcription termination factor Rho; Provisional; Region: PRK12608 667015000040 RNA binding site [nucleotide binding]; other site 667015000041 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 667015000042 multimer interface [polypeptide binding]; other site 667015000043 Walker A motif; other site 667015000044 ATP binding site [chemical binding]; other site 667015000045 Walker B motif; other site 667015000046 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 667015000047 homotrimer interaction site [polypeptide binding]; other site 667015000048 putative active site [active] 667015000049 Domain of unknown function (DUF3805); Region: DUF3805; pfam12712 667015000050 Domain of unknown function (DUF3806); Region: DUF3806; pfam12713 667015000051 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 667015000052 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 667015000053 Walker A/P-loop; other site 667015000054 ATP binding site [chemical binding]; other site 667015000055 Q-loop/lid; other site 667015000056 ABC transporter signature motif; other site 667015000057 Walker B; other site 667015000058 D-loop; other site 667015000059 H-loop/switch region; other site 667015000060 ABC transporter; Region: ABC_tran_2; pfam12848 667015000061 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 667015000062 GGGtGRT protein; Region: GGGtGRT; pfam14057 667015000063 NifU homolog involved in Fe-S cluster formation [Energy production and conversion]; Region: IscU; COG0822 667015000064 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cl00528 667015000065 Domain of unknown function (DUF4375); Region: DUF4375; pfam14300 667015000066 Yip1 domain; Region: Yip1; cl17815 667015000067 Small protein B (SmpB) is a component of the trans-translation system in prokaryotes for releasing stalled ribosome from damaged messenger RNAs; Region: SmpB; cd09294 667015000068 SmpB-tmRNA interface; other site 667015000069 Methionine synthase I (cobalamin-dependent), methyltransferase domain [Amino acid transport and metabolism]; Region: MetH; COG0646 667015000070 Homocysteine S-methyltransferase; Region: S-methyl_trans; pfam02574 667015000071 Methionine synthase I, cobalamin-binding domain [Amino acid transport and metabolism]; Region: MetH; COG1410 667015000072 MeTr subgroup of pterin binding enzymes. This family includes cobalamin-dependent methyltransferases such as methyltetrahydrofolate, corrinoid iron-sulfur protein methyltransferase (MeTr) and methionine synthase (MetH). Cobalamin-dependent...; Region: MeTr; cd00740 667015000073 substrate binding pocket [chemical binding]; other site 667015000074 B12 binding domain of methionine synthase. This domain binds methylcobalamin, which it uses as an intermediate methyl carrier from methyltetrahydrofolate (CH3H4folate) to homocysteine (Hcy); Region: methionine_synthase_B12_BD; cd02069 667015000075 B12 binding site [chemical binding]; other site 667015000076 cobalt ligand [ion binding]; other site 667015000077 Nucleoside-diphosphate-sugar pyrophosphorylase involved in lipopolysaccharide biosynthesis/translation initiation factor 2B, gamma/epsilon subunits (eIF-2Bgamma/eIF-2Bepsilon) [Cell envelope biogenesis, outer membrane / Translation, ribosomal structure...; Region: GCD1; COG1208 667015000078 NTP_transferase_like_1 is a member of the nucleotidyl transferase family; Region: NTP_transferase_like_1; cd06422 667015000079 Substrate binding site; other site 667015000080 metal-binding site 667015000081 Phosphotransferase enzyme family; Region: APH; pfam01636 667015000082 Predicted phosphotransferase related to Ser/Thr protein kinases [General function prediction only]; Region: COG3178 667015000083 P-loop ATPase protein family; Region: ATP_bind_2; cl15794 667015000084 Plasmid stabilisation system protein; Region: Plasmid_stabil; cl17483 667015000085 tryptophan synthase subunit beta; Reviewed; Region: PRK12391 667015000086 tryptophan synthase, beta subunit; Region: trpB; TIGR00263 667015000087 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 667015000088 catalytic residue [active] 667015000089 Coproporphyrinogen III oxidase and related Fe-S oxidoreductases [Coenzyme metabolism]; Region: HemN; COG0635 667015000090 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 667015000091 FeS/SAM binding site; other site 667015000092 HemN C-terminal domain; Region: HemN_C; pfam06969 667015000093 Phosphoglycerate kinase; Region: PGK; pfam00162 667015000094 Phosphoglycerate kinase (PGK) is a monomeric enzyme which catalyzes the transfer of the high-energy phosphate group of 1,3-bisphosphoglycerate to ADP, forming ATP and 3-phosphoglycerate. This reaction represents the first of the two substrate-level...; Region: Phosphoglycerate_kinase; cd00318 667015000095 substrate binding site [chemical binding]; other site 667015000096 hinge regions; other site 667015000097 ADP binding site [chemical binding]; other site 667015000098 catalytic site [active] 667015000099 Predicted transcriptional regulator containing an HTH domain and an uncharacterized domain shared with the mammalian protein Schlafen [Transcription]; Region: COG2865 667015000100 Divergent AAA domain; Region: AAA_4; pfam04326 667015000101 ATP-dependent DNA helicase recG C-terminal; Region: HATPase_c_4; pfam13749 667015000102 MarR family; Region: MarR_2; pfam12802 667015000103 AAA domain; Region: AAA_23; pfam13476 667015000104 TaqI-like C-terminal specificity domain; Region: TaqI_C; pfam12950 667015000105 N-terminal putative catalytic domain of uncharacterized HKD family nucleases fused to putative helicases from the Snf2-like family; Region: PLDc_N_Snf2_like; cd09178 667015000106 PLD-like domain; Region: PLDc_2; pfam13091 667015000107 putative homodimer interface [polypeptide binding]; other site 667015000108 putative active site [active] 667015000109 catalytic site [active] 667015000110 DEAD-like helicases superfamily; Region: DEXDc; smart00487 667015000111 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 667015000112 ATP binding site [chemical binding]; other site 667015000113 putative Mg++ binding site [ion binding]; other site 667015000114 Superfamily II DNA and RNA helicases [DNA replication, recombination, and repair / Transcription / Translation, ribosomal structure and biogenesis]; Region: SrmB; COG0513 667015000115 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 667015000116 nucleotide binding region [chemical binding]; other site 667015000117 ATP-binding site [chemical binding]; other site 667015000118 Uncharacterized subfamily of the multidrug and toxic compound extrusion (MATE) proteins; Region: MATE_like_7; cd13133 667015000119 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 667015000120 signal recognition particle protein; Provisional; Region: PRK10867 667015000121 SRP54-type protein, helical bundle domain; Region: SRP54_N; smart00963 667015000122 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 667015000123 P loop; other site 667015000124 GTP binding site [chemical binding]; other site 667015000125 Signal peptide binding domain; Region: SRP_SPB; pfam02978 667015000126 Protein of unknown function (DUF1343); Region: DUF1343; pfam07075 667015000127 Putative zinc ribbon domain; Region: Zn_ribbon_2; pfam12674 667015000128 Pyridoxamine 5'-phosphate oxidase; Region: Pyridox_oxidase; pfam01243 667015000129 Protein of unknown function (DUF3795); Region: DUF3795; pfam12675 667015000130 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 667015000131 Major Facilitator Superfamily; Region: MFS_1; pfam07690 667015000132 putative substrate translocation pore; other site 667015000133 Methylated DNA-protein cysteine methyltransferase [DNA replication, recombination, and repair]; Region: Ada; COG0350 667015000134 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 667015000135 DNA binding site [nucleotide binding] 667015000136 active site 667015000137 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 667015000138 Zn2+ binding site [ion binding]; other site 667015000139 Mg2+ binding site [ion binding]; other site 667015000140 Organic solvent tolerance protein OstA [Cell envelope biogenesis, outer membrane]; Region: Imp; COG1452 667015000141 Family 1 of Uracil-DNA glycosylase (UDG) enzymes; Region: UDG_F1; cd10027 667015000142 ligand binding site [chemical binding]; other site 667015000143 active site 667015000144 UGI interface [polypeptide binding]; other site 667015000145 catalytic site [active] 667015000146 asparagine synthetase AsnA; Provisional; Region: PRK05425 667015000147 motif 1; other site 667015000148 dimer interface [polypeptide binding]; other site 667015000149 active site 667015000150 motif 2; other site 667015000151 motif 3; other site 667015000152 Transposase C of IS166 homeodomain; Region: LZ_Tnp_IS66; pfam13007 667015000153 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 667015000154 putative Helix-turn-helix domain of transposase IS66; Region: HTH_Tnp_IS66; pfam13005 667015000155 Transposase IS66 family; Region: DDE_Tnp_IS66; pfam03050 667015000156 IS66 C-terminal element; Region: DDE_Tnp_IS66_C; pfam13817 667015000157 IS66 Orf2 like protein; Region: TnpB_IS66; pfam05717 667015000158 PD-(D/E)XK nuclease family transposase; Region: PDDEXK_2; pfam12784 667015000159 GDP-fucose synthetase, extended (e) SDRs; Region: GDP_FS_SDR_e; cd05239 667015000160 GDP-4-keto-6-deoxymannose-3, 5-epimerase-4-reductase; Region: PLN02725 667015000161 NADP binding site [chemical binding]; other site 667015000162 active site 667015000163 putative substrate binding site [chemical binding]; other site 667015000164 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 667015000165 Subfamily of Glycosyltransferase Family GT2 of unknown function; Region: GT_2_like_c; cd04186 667015000166 Probable Catalytic site; other site 667015000167 metal-binding site 667015000168 Phosphoserine phosphatase [Amino acid transport and metabolism]; Region: SerB; COG0560 667015000169 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 667015000170 WfgS and WfeV are involved in O-antigen biosynthesis; Region: GT_2_WfgS_like; cd06433 667015000171 metal-binding site 667015000172 Glycosyl transferases group 1; Region: Glyco_trans_1_4; pfam13692 667015000173 Maltose O-acyltransferase (MAT)-like: This family is composed of maltose O-acetyltransferase, galactoside O-acetyltransferase (GAT), xenobiotic acyltransferase (XAT) and similar proteins. MAT and GAT catalyze the CoA-dependent acetylation of the...; Region: LbH_MAT_like; cd04647 667015000174 trimer interface [polypeptide binding]; other site 667015000175 active site 667015000176 substrate binding site [chemical binding]; other site 667015000177 CoA binding site [chemical binding]; other site 667015000178 Acetyltransferase (isoleucine patch superfamily) [General function prediction only]; Region: WbbJ; COG0110 667015000179 Maltose O-acyltransferase (MAT)-like: This family is composed of maltose O-acetyltransferase, galactoside O-acetyltransferase (GAT), xenobiotic acyltransferase (XAT) and similar proteins. MAT and GAT catalyze the CoA-dependent acetylation of the...; Region: LbH_MAT_like; cd04647 667015000180 trimer interface [polypeptide binding]; other site 667015000181 active site 667015000182 substrate binding site [chemical binding]; other site 667015000183 CoA binding site [chemical binding]; other site 667015000184 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 667015000185 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 667015000186 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 667015000187 DRE-TIM metallolyase superfamily; Region: DRE_TIM_metallolyase; cl07974 667015000188 active site 667015000189 catalytic residues [active] 667015000190 metal binding site [ion binding]; metal-binding site 667015000191 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cl11394 667015000192 active site 667015000193 Transposase zinc-ribbon domain; Region: Zn_Tnp_IS1595; pfam12760 667015000194 ISXO2-like transposase domain; Region: DDE_Tnp_IS1595; pfam12762 667015000195 L-arabinose isomerase [Carbohydrate transport and metabolism]; Region: AraA; COG2160 667015000196 PIN domain; Region: PIN_3; pfam13470 667015000197 DNA-binding protein, histone-like, putative; Region: HU_rel; TIGR01201 667015000198 Peptidoglycan recognition proteins (PGRPs) are pattern recognition receptors that bind, and in certain cases, hydrolyze peptidoglycans (PGNs) of bacterial cell walls. PGRPs have been divided into three classes: short PGRPs (PGRP-S), that are small (20...; Region: PGRP; cd06583 667015000199 amidase catalytic site [active] 667015000200 Zn binding residues [ion binding]; other site 667015000201 substrate binding site [chemical binding]; other site 667015000202 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 667015000203 Int/Topo IB signature motif; other site 667015000204 DNA binding site [nucleotide binding] 667015000205 N-Utilization Substance G (NusG) N-terminal domain in the NusG Specialized Paralog (SP), UpxY; Region: NGN_SP_UpxY; cd09895 667015000206 NusG contains an NGN domain at its N-terminus and KOW motif at its C-terminus; Region: KOW_NusG; cd06091 667015000207 homodimer interface [polypeptide binding]; other site 667015000208 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 667015000209 homopentamer interface [polypeptide binding]; other site 667015000210 active site 667015000211 recombination protein F; Reviewed; Region: recF; PRK00064 667015000212 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 667015000213 Walker A/P-loop; other site 667015000214 ATP binding site [chemical binding]; other site 667015000215 Q-loop/lid; other site 667015000216 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 667015000217 ABC transporter signature motif; other site 667015000218 Walker B; other site 667015000219 D-loop; other site 667015000220 H-loop/switch region; other site 667015000221 Protein of unknown function (DUF721); Region: DUF721; pfam05258 667015000222 5-formyltetrahydrofolate cyclo-ligase family; Region: 5-FTHF_cyc-lig; pfam01812 667015000223 5,10-methenyltetrahydrofolate synthetase; Region: MTHFS_bact; TIGR02727 667015000224 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 667015000225 C-terminal peptidase (prc); Region: prc; TIGR00225 667015000226 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 667015000227 protein binding site [polypeptide binding]; other site 667015000228 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 667015000229 Catalytic dyad [active] 667015000230 Deoxycytidylate deaminase domain. Deoxycytidylate deaminase catalyzes the deamination of dCMP to dUMP, providing the nucleotide substrate for thymidylate synthase. The enzyme binds Zn++, which is required for catalytic activity. The activity of the...; Region: deoxycytidylate_deaminase; cd01286 667015000231 catalytic motif [active] 667015000232 Zn binding site [ion binding]; other site 667015000233 Zn-dependent oligopeptidases [Amino acid transport and metabolism]; Region: Dcp; COG0339 667015000234 Peptidase family M3 dipeptidyl carboxypeptidase (DCP); Region: M3A_DCP; cd06456 667015000235 active site 667015000236 Zn binding site [ion binding]; other site 667015000237 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 667015000238 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 667015000239 ligand binding site [chemical binding]; other site 667015000240 flexible hinge region; other site 667015000241 Crp-like helix-turn-helix domain; Region: HTH_Crp_2; pfam13545 667015000242 MarC family integral membrane protein; Region: MarC; pfam01914 667015000243 Radical SAM N-terminal; Region: Radical_SAM_N; pfam08497 667015000244 hypothetical protein; Provisional; Region: PRK00955 667015000245 Domain of unknown function (DUF3362); Region: DUF3362; pfam11842 667015000246 Ribonucleotide reductase, all-alpha domain; Region: Ribonuc_red_lgN; pfam00317 667015000247 ribonucleoside-diphosphate reductase, adenosylcobalamin-dependent; Region: NrdJ_Z; TIGR02504 667015000248 Class II ribonucleotide reductase, dimeric form; Region: RNR_II_dimer; cd02888 667015000249 active site 667015000250 dimer interface [polypeptide binding]; other site 667015000251 effector binding site; other site 667015000252 Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL; cl09939 667015000253 TFIIB zinc-binding; Region: TF_Zn_Ribbon; pfam08271 667015000254 PaaI_thioesterase is a tetrameric acyl-CoA thioesterase with a hot dog fold and one of several proteins responsible for phenylacetic acid (PA) degradation in bacteria. Although orthologs of PaaI exist in archaea and eukaryotes, their function has not...; Region: PaaI_thioesterase; cd03443 667015000255 CoenzymeA binding site [chemical binding]; other site 667015000256 subunit interaction site [polypeptide binding]; other site 667015000257 PHB binding site; other site 667015000258 Dihydroneopterin aldolase (DHNA) and 7,8-dihydroneopterin triphosphate epimerase domain (DHNTPE); these enzymes have been designated folB and folX, respectively. Folate derivatives are essential cofactors in the biosynthesis of purines, pyrimidines, and...; Region: DHNA_DHNTPE; cd00534 667015000259 homooctamer interface [polypeptide binding]; other site 667015000260 active site 667015000261 citrate synthase; Provisional; Region: PRK14032 667015000262 Citrate synthase; Region: Citrate_synt; pfam00285 667015000263 oxalacetate binding site [chemical binding]; other site 667015000264 citrylCoA binding site [chemical binding]; other site 667015000265 coenzyme A binding site [chemical binding]; other site 667015000266 catalytic triad [active] 667015000267 isocitrate dehydrogenase; Validated; Region: PRK07362 667015000268 Isocitrate/isopropylmalate dehydrogenase; Region: Iso_dh; cl00445 667015000269 aconitate hydratase; Validated; Region: PRK07229 667015000270 Aconitase catalytic domain; Aconitase catalyzes the reversible isomerization of citrate and isocitrate as part of the TCA cycle; Region: Aconitase; cl00285 667015000271 substrate binding site [chemical binding]; other site 667015000272 ligand binding site [chemical binding]; other site 667015000273 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 667015000274 substrate binding site [chemical binding]; other site 667015000275 Glycerophosphoryl diester phosphodiesterase [Energy production and conversion]; Region: UgpQ; COG0584 667015000276 Glycerophosphodiester phosphodiesterase domain of Agrobacterium tumefaciens and similar proteins; Region: GDPD_AtGDE_like; cd08566 667015000277 putative active site [active] 667015000278 catalytic site [active] 667015000279 putative metal binding site [ion binding]; other site 667015000280 oligomer interface [polypeptide binding]; other site 667015000281 Putative alpha-1,2-mannosidase [Carbohydrate transport and metabolism]; Region: COG3537 667015000282 Glycosyl hydrolase family 92; Region: Glyco_hydro_92; pfam07971 667015000283 starch binding outer membrane protein SusD; Region: SusD; cl17845 667015000284 SusD family; Region: SusD; pfam07980 667015000285 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 667015000286 Cna protein B-type domain; Region: Cna_B_2; pfam13715 667015000287 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 667015000288 TonB dependent receptor; Region: TonB_dep_Rec; pfam00593 667015000289 PD-(D/E)XK nuclease family transposase; Region: PDDEXK_2; pfam12784 667015000290 Starch-binding associating with outer membrane; Region: SusD-like_3; pfam14322 667015000291 starch binding outer membrane protein SusD; Region: SusD; cl17845 667015000292 SusD family; Region: SusD; pfam07980 667015000293 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 667015000294 Cna protein B-type domain; Region: Cna_B_2; pfam13715 667015000295 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 667015000296 TonB dependent receptor; Region: TonB_dep_Rec; pfam00593 667015000297 Outer membrane protein transport protein (OMPP1/FadL/TodX); Region: Toluene_X; cl17479 667015000298 Protein of unknown function (DUF3990); Region: DUF3990; pfam13151 667015000299 Carbohydrate binding domain; Region: CBM_4_9; pfam02018 667015000300 Alpha-L-arabinofuranosidase C-terminus; Region: Alpha-L-AF_C; pfam06964 667015000301 Glycosyl hydrolase families: GH43, GH62, GH32, GH68; Region: GH43_62_32_68; cl14647 667015000302 active site 667015000303 Glycosyl hydrolase family 43, includes mostly 1,4-beta-xylanases; Region: GH43_bXyl; cd09004 667015000304 putative substrate binding site [chemical binding]; other site 667015000305 active site 667015000306 Glycosyl hydrolases family 35; Region: Glyco_hydro_35; pfam01301 667015000307 F5/8 type C domain; Region: F5_F8_type_C; pfam00754 667015000308 sugar binding site [chemical binding]; other site 667015000309 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 667015000310 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 667015000311 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 667015000312 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 667015000313 substrate binding pocket [chemical binding]; other site 667015000314 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 667015000315 membrane-bound complex binding site; other site 667015000316 hinge residues; other site 667015000317 Domain of unknown function (DUF4289); Region: DUF4289; pfam14121 667015000318 2-oxoglutarate ferredoxin oxidoreductase subunit gamma; Validated; Region: PRK08537 667015000319 Pyruvate ferredoxin/flavodoxin oxidoreductase; Region: POR; pfam01558 667015000320 Pyruvate:ferredoxin oxidoreductase and related 2-oxoacid:ferredoxin oxidoreductases, beta subunit [Energy production and conversion]; Region: PorB; COG1013 667015000321 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 667015000322 TPP-binding site [chemical binding]; other site 667015000323 2-ketoisovalerate ferredoxin reductase; Validated; Region: PRK07119 667015000324 Pyrimidine (PYR) binding domain of pyruvate ferredoxin oxidoreductase (PFOR), indolepyruvate ferredoxin oxidoreductase alpha subunit (IOR-alpha), and related proteins; Region: TPP_PYR_PFOR_IOR-alpha_like; cd07034 667015000325 dimer interface [polypeptide binding]; other site 667015000326 PYR/PP interface [polypeptide binding]; other site 667015000327 TPP binding site [chemical binding]; other site 667015000328 substrate binding site [chemical binding]; other site 667015000329 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 667015000330 Ferredoxin [Energy production and conversion]; Region: COG1146 667015000331 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 667015000332 binding surface 667015000333 TPR motif; other site 667015000334 Tetratricopeptide repeat; Region: TPR_16; pfam13432 667015000335 putative bifunctional 2-polyprenylphenol hydroxylase/glutamate synthase subunit beta; Provisional; Region: PRK12778 667015000336 FAD/NAD binding domain in the electron transfer subunit of dihydroorotate dehydrogenase-like proteins. Dihydroorotate dehydrogenases (DHODs) catalyze the only redox reaction in pyrimidine de novo biosynthesis. They catalyze the oxidation of (S)...; Region: DHOD_e_trans_like1; cd06219 667015000337 FAD binding pocket [chemical binding]; other site 667015000338 FAD binding motif [chemical binding]; other site 667015000339 phosphate binding motif [ion binding]; other site 667015000340 beta-alpha-beta structure motif; other site 667015000341 NAD binding pocket [chemical binding]; other site 667015000342 Iron coordination center [ion binding]; other site 667015000343 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 667015000344 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 667015000345 Na+/H+ antiporter family; Region: Na_H_antiporter; pfam03553 667015000346 hypothetical protein; Provisional; Region: PRK08201 667015000347 Uncharacterized M20 Dipeptidases; Region: M20_dipept_like_3; cd05680 667015000348 metal binding site [ion binding]; metal-binding site 667015000349 putative dimer interface [polypeptide binding]; other site 667015000350 Chorismate synthase [Amino acid transport and metabolism]; Region: AroC; COG0082 667015000351 Chorismase synthase, the enzyme catalyzing the final step of the shikimate pathway; Region: Chorismate_synthase; cd07304 667015000352 Tetramer interface [polypeptide binding]; other site 667015000353 active site 667015000354 FMN-binding site [chemical binding]; other site 667015000355 Repair protein; Region: Repair_PSII; pfam04536 667015000356 LemA family; Region: LemA; pfam04011 667015000357 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 667015000358 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 667015000359 Shikimate 5-dehydrogenase [Amino acid transport and metabolism]; Region: AroE; COG0169 667015000360 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 667015000361 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 667015000362 shikimate binding site; other site 667015000363 NAD(P) binding site [chemical binding]; other site 667015000364 Methylase involved in ubiquinone/menaquinone biosynthesis [Coenzyme metabolism]; Region: UbiE; COG2226 667015000365 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 667015000366 S-adenosylmethionine binding site [chemical binding]; other site 667015000367 non-metazoan 5-aminoimidazole-4-(N-succinylcarboxamide) ribonucleotide (SAICAR) synthase; Region: SAICAR_synt_Sc; cd01414 667015000368 ATP binding site [chemical binding]; other site 667015000369 active site 667015000370 substrate binding site [chemical binding]; other site 667015000371 Phosphate starvation-inducible protein PhoH, predicted ATPase [Signal transduction mechanisms]; Region: PhoH; COG1702 667015000372 PhoH-like protein; Region: PhoH; pfam02562 667015000373 tRNA pseudouridine synthase A; Validated; Region: truA; PRK00021 667015000374 Eukaryotic and bacterial pseudouridine synthases similar to E. coli TruA; Region: PseudoU_synth_EcTruA; cd02570 667015000375 active site 667015000376 dimerization interface 3.5A [polypeptide binding]; other site 667015000377 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 667015000378 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 667015000379 transmembrane helices; other site 667015000380 TrkA-C domain; Region: TrkA_C; pfam02080 667015000381 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 667015000382 TrkA-C domain; Region: TrkA_C; pfam02080 667015000383 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 667015000384 transmembrane helices; other site 667015000385 probable DNA metabolism protein; Region: SAM_7_link_chp; TIGR03915 667015000386 Aldose 1-epimerase, similar to Lactococcus lactis lacX; Region: Aldose_epim_lacX; cd09024 667015000387 active site 667015000388 catalytic residues [active] 667015000389 Tetratricopeptide repeat; Region: TPR_12; pfam13424 667015000390 Histidine kinase; Region: His_kinase; pfam06580 667015000391 Histidine kinase-, DNA gyrase B-, and HSP90-like ATPase; Region: HATPase_c; pfam02518 667015000392 Mg2+ binding site [ion binding]; other site 667015000393 G-X-G motif; other site 667015000394 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 667015000395 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 667015000396 active site 667015000397 phosphorylation site [posttranslational modification] 667015000398 intermolecular recognition site; other site 667015000399 dimerization interface [polypeptide binding]; other site 667015000400 LytTr DNA-binding domain; Region: LytTR; smart00850 667015000401 Escherichia coli YfcE and related proteins, metallophosphatase domain; Region: MPP_YfcE; cd00841 667015000402 active site 667015000403 metal binding site [ion binding]; metal-binding site 667015000404 homotetramer interface [polypeptide binding]; other site 667015000405 Outer membrane protein beta-barrel domain; Region: OMP_b-brl_2; pfam13568 667015000406 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 667015000407 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 667015000408 ligand binding site [chemical binding]; other site 667015000409 Uncharacterized protein conserved in Bacteroidetes; Region: Bacuni_01323_like; cd12871 667015000410 Beta-galactosidase/beta-glucuronidase [Carbohydrate transport and metabolism]; Region: LacZ; COG3250 667015000411 Glycosyl hydrolases family 2, sugar binding domain; Region: Glyco_hydro_2_N; pfam02837 667015000412 Glycosyl hydrolases family 2; Region: Glyco_hydro_2; pfam00703 667015000413 Glycosyl hydrolases family 2, TIM barrel domain; Region: Glyco_hydro_2_C; pfam02836 667015000414 Predicted acyltransferases [Lipid metabolism]; Region: COG1835 667015000415 Cyclomaltodextrinase, N-terminal; Region: Cyc-maltodext_N; pfam09087 667015000416 Alpha amylase catalytic domain found in bacterial cyclomaltodextrinases and related proteins; Region: AmyAc_bac_CMD_like_3; cd11340 667015000417 Glycosidases [Carbohydrate transport and metabolism]; Region: AmyA; COG0366 667015000418 Ca binding site [ion binding]; other site 667015000419 active site 667015000420 homodimer interface [polypeptide binding]; other site 667015000421 catalytic site [active] 667015000422 Cyclo-malto-dextrinase C-terminal domain; Region: Cyc-maltodext_C; pfam10438 667015000423 Glycoside hydrolase 97; Region: Glyco_hydro_97; pfam10566 667015000424 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 667015000425 Cna protein B-type domain; Region: Cna_B_2; pfam13715 667015000426 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 667015000427 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 667015000428 starch binding outer membrane protein SusD; Region: SusD; cd08977 667015000429 SusD family; Region: SusD; pfam07980 667015000430 SusE outer membrane protein; Region: SusE; pfam14292 667015000431 carbohydrate-binding modules Eb and Fb from SusE and SusF, respectively, and similar CBMs; Region: CBM-Eb_CBM-Fb; cd12965 667015000432 starch binding site [chemical binding]; other site 667015000433 carbohydrate-binding modules Ec and Fc from SusE and SusF, respectively, and similar CBMs; Region: CBM-Ec_CBM-Fc; cd12966 667015000434 starch binding site [chemical binding]; other site 667015000435 starch-binding loop; other site 667015000436 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3041; cl17396 667015000437 Mannosyl-glycoprotein endo-beta-N-acetylglucosaminidase; Region: Glucosaminidase; pfam01832 667015000438 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cl00107 667015000439 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 667015000440 active site 667015000441 catalytic motif [active] 667015000442 Zn binding site [ion binding]; other site 667015000443 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 667015000444 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 667015000445 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 667015000446 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 667015000447 Coenzyme A binding pocket [chemical binding]; other site 667015000448 pyruvate:ferredoxin (flavodoxin) oxidoreductase, homodimeric; Region: pyruv_ox_red; TIGR02176 667015000449 Pyrimidine (PYR) binding domain of pyruvate ferredoxin oxidoreductase (PFOR), indolepyruvate ferredoxin oxidoreductase alpha subunit (IOR-alpha), and related proteins; Region: TPP_PYR_PFOR_IOR-alpha_like; cd07034 667015000450 dimer interface [polypeptide binding]; other site 667015000451 PYR/PP interface [polypeptide binding]; other site 667015000452 TPP binding site [chemical binding]; other site 667015000453 substrate binding site [chemical binding]; other site 667015000454 Pyruvate:ferredoxin oxidoreductase and related 2-oxoacid:ferredoxin oxidoreductases, gamma subunit [Energy production and conversion]; Region: PorG; COG1014 667015000455 Domain of unknown function; Region: EKR; pfam10371 667015000456 4Fe-4S binding domain; Region: Fer4_6; pfam12837 667015000457 The HCP family of iron-sulfur proteins includes hybrid cluster protein (HCP), acetyl-CoA synthase (ACS), and carbon monoxide dehydrogenase (CODH), all of which contain [Fe4-S4] metal clusters at their active sites. These proteins have a conserved...; Region: HCP_like; cl14655 667015000458 Thiamine pyrophosphate (TPP family), PFOR_PNO subfamily, TPP-binding module; composed of proteins similar to the single subunit pyruvate ferredoxin oxidoreductase (PFOR) of Desulfovibrio Africanus, present in bacteria and amitochondriate eukaryotes. This...; Region: TPP_PFOR_PNO; cd03377 667015000459 TPP-binding site [chemical binding]; other site 667015000460 dimer interface [polypeptide binding]; other site 667015000461 Predicted ATPase (AAA+ superfamily) [General function prediction only]; Region: COG1373 667015000462 AAA domain; Region: AAA_14; pfam13173 667015000463 Carboxypeptidase regulatory-like domain; Region: CarboxypepD_reg; pfam13620 667015000464 SurA N-terminal domain; Region: SurA_N_2; pfam13623 667015000465 PPIC-type PPIASE domain; Region: Rotamase_2; pfam13145 667015000466 PPIC-type PPIASE domain; Region: Rotamase_3; pfam13616 667015000467 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 667015000468 Domain of unknown function DUF21; Region: DUF21; pfam01595 667015000469 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 667015000470 Transporter associated domain; Region: CorC_HlyC; smart01091 667015000471 Lipopolysaccharide-assembly, LptC-related; Region: LptC; pfam06835 667015000472 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 667015000473 binding surface 667015000474 TPR motif; other site 667015000475 Tetratricopeptide repeat; Region: TPR_12; pfam13424 667015000476 Outer membrane protein transport protein (OMPP1/FadL/TodX); Region: Toluene_X; cl17479 667015000477 pantothenate kinase; Reviewed; Region: PRK13320 667015000478 Domain of unknown function (DUF4105); Region: DUF4105; pfam13387 667015000479 Type I phosphodiesterase / nucleotide pyrophosphatase; Region: Phosphodiest; pfam01663 667015000480 preprotein translocase subunit SecA; Reviewed; Region: secA; PRK12901 667015000481 SecA preprotein cross-linking domain; Region: SecA_PP_bind; pfam01043 667015000482 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 667015000483 nucleotide binding region [chemical binding]; other site 667015000484 ATP-binding site [chemical binding]; other site 667015000485 SEC-C motif; Region: SEC-C; pfam02810 667015000486 Predicted phosphatase/phosphohexomutase [General function prediction only]; Region: COG0637 667015000487 5' nucleotidase, deoxy (Pyrimidine), cytosolic type C protein (NT5C); Region: NT5C; cl17836 667015000488 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 667015000489 motif II; other site 667015000490 glucose-6-phosphate isomerase; Provisional; Region: pgi; PRK14097 667015000491 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 667015000492 active site 667015000493 dimer interface [polypeptide binding]; other site 667015000494 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 667015000495 dimer interface [polypeptide binding]; other site 667015000496 active site 667015000497 Glycerol-3-phosphate dehydrogenase [Energy production and conversion]; Region: GpsA; COG0240 667015000498 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 667015000499 NAD-dependent glycerol-3-phosphate dehydrogenase C-terminus; Region: NAD_Gly3P_dh_C; pfam07479 667015000500 lysyl-tRNA synthetase; Reviewed; Region: lysS; PRK00484 667015000501 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 667015000502 dimer interface [polypeptide binding]; other site 667015000503 putative anticodon binding site; other site 667015000504 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 667015000505 motif 1; other site 667015000506 active site 667015000507 motif 2; other site 667015000508 motif 3; other site 667015000509 Long-chain acyl-CoA synthetases (AMP-forming) [Lipid metabolism]; Region: FAA1; COG1022 667015000510 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 667015000511 Long-chain fatty acid CoA synthetases and Bubblegum-like very long-chain fatty acid CoA synthetases; Region: VL_LC_FACS_like; cd05907 667015000512 acyl-activating enzyme (AAE) consensus motif; other site 667015000513 putative AMP binding site [chemical binding]; other site 667015000514 putative active site [active] 667015000515 putative CoA binding site [chemical binding]; other site 667015000516 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 667015000517 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 667015000518 putative acyl-acceptor binding pocket; other site 667015000519 Bacillus subtilis YkuE and related proteins, C-terminal metallophosphatase domain; Region: MPP_YkuE_C; cd07385 667015000520 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 667015000521 putative active site [active] 667015000522 putative metal binding site [ion binding]; other site 667015000523 Vitamin B12 dependent methionine synthase, activation domain; Region: Met_synt_B12; pfam02965 667015000524 dihydroorotase; Reviewed; Region: PRK09236 667015000525 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 667015000526 active site 667015000527 DPM1_like represents putative enzymes similar to eukaryotic DPM1; Region: DPM1_like; cd06442 667015000528 dolichyl-phosphate beta-D-mannosyltransferase; Region: PLN02726 667015000529 Ligand binding site; other site 667015000530 Putative Catalytic site; other site 667015000531 DXD motif; other site 667015000532 Undecaprenyl-phosphate glucose phosphotransferase; Region: WcaJ_sugtrans; TIGR03023 667015000533 Bacterial sugar transferase; Region: Bac_transf; pfam02397 667015000534 nucleoside transporter; Region: 2A0110; TIGR00889 667015000535 RNA recognition motif (RRM) superfamily; Region: RRM_SF; cl17169 667015000536 Bifunctional nuclease; Region: DNase-RNase; pfam02577 667015000537 UvrB/uvrC motif; Region: UVR; pfam02151 667015000538 16S ribosomal RNA methyltransferase RsmE; Provisional; Region: PRK11713 667015000539 RNA methyltransferase, RsmE family; Region: TIGR00046 667015000540 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 667015000541 Walker A/P-loop; other site 667015000542 ATP binding site [chemical binding]; other site 667015000543 ABC transporter; Region: ABC_tran; pfam00005 667015000544 Q-loop/lid; other site 667015000545 ABC transporter signature motif; other site 667015000546 Walker B; other site 667015000547 D-loop; other site 667015000548 H-loop/switch region; other site 667015000549 Uncharacterized protein family UPF0047; Region: UPF0047; pfam01894 667015000550 F0F1 ATP synthase subunit beta; Validated; Region: PRK09280 667015000551 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 667015000552 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 667015000553 alpha subunit interaction interface [polypeptide binding]; other site 667015000554 Walker A motif; other site 667015000555 ATP binding site [chemical binding]; other site 667015000556 Walker B motif; other site 667015000557 inhibitor binding site; inhibition site 667015000558 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 667015000559 mitochondrial ATP synthase delta subunit; Region: F1-ATPase_delta; cd12152 667015000560 gamma subunit interface [polypeptide binding]; other site 667015000561 LBP interface [polypeptide binding]; other site 667015000562 F0F1-type ATP synthase, subunit a [Energy production and conversion]; Region: AtpB; COG0356 667015000563 ATP synthase A chain; Region: ATP-synt_A; cl00413 667015000564 ATP synthase subunit C; Region: ATP-synt_C; cl00466 667015000565 ATP synthase B/B' CF(0); Region: ATP-synt_B; cl17192 667015000566 F0F1-type ATP synthase, subunit b [Energy production and conversion]; Region: AtpF; COG0711 667015000567 F0F1 ATP synthase subunit delta; Provisional; Region: PRK13429 667015000568 F0F1-type ATP synthase, delta subunit (mitochondrial oligomycin sensitivity protein) [Energy production and conversion]; Region: AtpH; COG0712 667015000569 F0F1 ATP synthase subunit alpha; Validated; Region: PRK09281 667015000570 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 667015000571 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 667015000572 beta subunit interaction interface [polypeptide binding]; other site 667015000573 Walker A motif; other site 667015000574 ATP binding site [chemical binding]; other site 667015000575 Walker B motif; other site 667015000576 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 667015000577 mitochondrial ATP synthase gamma subunit; Region: F1-ATPase_gamma; cd12151 667015000578 core domain interface [polypeptide binding]; other site 667015000579 delta subunit interface [polypeptide binding]; other site 667015000580 epsilon subunit interface [polypeptide binding]; other site 667015000581 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 667015000582 ATP-dependent RNA helicase DbpA; Provisional; Region: PRK11776 667015000583 ATP binding site [chemical binding]; other site 667015000584 putative Mg++ binding site [ion binding]; other site 667015000585 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 667015000586 nucleotide binding region [chemical binding]; other site 667015000587 ATP-binding site [chemical binding]; other site 667015000588 RNA recognition motif in the DbpA subfamily of prokaryotic DEAD-box rRNA helicases; Region: RRM_DbpA; cd12252 667015000589 RNA binding site [nucleotide binding]; other site 667015000590 Phosphoserine aminotransferase (PSAT) family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major group in this CD corresponds to phosphoserine aminotransferase (PSAT). PSAT is active as...; Region: PSAT_like; cd00611 667015000591 homodimer interface [polypeptide binding]; other site 667015000592 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 667015000593 substrate-cofactor binding pocket; other site 667015000594 pyridoxal 5'-phosphate binding site [chemical binding]; other site 667015000595 catalytic residue [active] 667015000596 Putative D-3-Phosphoglycerate Dehydrogenases, NAD-binding and catalytic domains; Region: PGDH_like_3; cd12174 667015000597 putative ligand binding site [chemical binding]; other site 667015000598 putative NAD binding site [chemical binding]; other site 667015000599 putative catalytic site [active] 667015000600 Uncharacterized conserved protein [Function unknown]; Region: COG4198 667015000601 Protein of unknown function (DUF1015); Region: DUF1015; pfam06245 667015000602 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 667015000603 EamA-like transporter family; Region: EamA; pfam00892 667015000604 EamA-like transporter family; Region: EamA; pfam00892 667015000605 Uncharacterized conserved protein [Function unknown]; Region: COG1739 667015000606 Uncharacterized protein family UPF0029; Region: UPF0029; pfam01205 667015000607 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 667015000608 binding surface 667015000609 TPR motif; other site 667015000610 Cna protein B-type domain; Region: Cna_B_2; pfam13715 667015000611 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 667015000612 Carboxypeptidase regulatory-like domain; Region: CarboxypepD_reg; pfam13620 667015000613 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 667015000614 Phosphate-selective porin O and P; Region: Porin_O_P; pfam07396 667015000615 3-oxo-5-alpha-steroid 4-dehydrogenase; Region: Steroid_dh; cl17474 667015000616 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 667015000617 Old yellow enzyme (OYE)-like FMN binding domain. OYE was the first flavin-dependent enzyme identified, however its true physiological role remains elusive to this day. Each monomer of OYE contains FMN as a non-covalently bound cofactor, uses NADPH as a...; Region: OYE_like_FMN_family; cd02803 667015000618 active site 667015000619 FMN binding site [chemical binding]; other site 667015000620 substrate binding site [chemical binding]; other site 667015000621 putative catalytic residue [active] 667015000622 Dehydrogenases with different specificities (related to short-chain alcohol dehydrogenases) [Secondary metabolites biosynthesis, transport, and catabolism / General function prediction only]; Region: FabG; COG1028 667015000623 retinol dehydrogenase (retinol-DH), Light dependent Protochlorophyllide (Pchlide) OxidoReductase (LPOR) and related proteins, classical (c) SDRs; Region: retinol-DH_like_SDR_c_like; cd05327 667015000624 putative NAD(P) binding site [chemical binding]; other site 667015000625 active site 667015000626 Pyruvate formate lyase 1; Region: PFL1; cd01678 667015000627 formate acetyltransferase 1; Region: pyr_form_ly_1; TIGR01255 667015000628 coenzyme A binding site [chemical binding]; other site 667015000629 active site 667015000630 catalytic residues [active] 667015000631 glycine loop; other site 667015000632 pyruvate formate-lyase 1-activating enzyme; Region: PFLA; TIGR02493 667015000633 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 667015000634 FeS/SAM binding site; other site 667015000635 Fucose permease [Carbohydrate transport and metabolism]; Region: FucP; COG0738 667015000636 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 667015000637 putative substrate translocation pore; other site 667015000638 bifunctional fucokinase/L-fucose-1-P-guanylyltransferase; Provisional; Region: fkp; PRK13412 667015000639 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 667015000640 GDP-fucose synthetase, extended (e) SDRs; Region: GDP_FS_SDR_e; cd05239 667015000641 GDP-4-keto-6-deoxymannose-3, 5-epimerase-4-reductase; Region: PLN02725 667015000642 NADP binding site [chemical binding]; other site 667015000643 active site 667015000644 putative substrate binding site [chemical binding]; other site 667015000645 GDP-D-mannose dehydratase [Cell envelope biogenesis, outer membrane]; Region: Gmd; COG1089 667015000646 GDP-mannose 4,6 dehydratase, extended (e) SDRs; Region: GDP_MD_SDR_e; cd05260 667015000647 NADP-binding site; other site 667015000648 homotetramer interface [polypeptide binding]; other site 667015000649 substrate binding site [chemical binding]; other site 667015000650 homodimer interface [polypeptide binding]; other site 667015000651 active site 667015000652 UDP-glucose 6-dehydrogenase; Provisional; Region: PRK15057 667015000653 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 667015000654 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 667015000655 UDP binding domain; Region: UDPG_MGDP_dh_C; smart00984 667015000656 Chain length determinant protein; Region: Wzz; cl15801 667015000657 Uncharacterized protein involved in exopolysaccharide biosynthesis [Cell envelope biogenesis, outer membrane]; Region: GumC; COG3206 667015000658 capsular exopolysaccharide family; Region: eps_fam; TIGR01007 667015000659 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 667015000660 Periplasmic protein involved in polysaccharide export, contains SLBB domain of b-grasp fold [Cell wall/membrane/envelope biogenesis]; Region: Wza; COG1596 667015000661 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 667015000662 SLBB domain; Region: SLBB; pfam10531 667015000663 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 667015000664 active site 667015000665 motif I; other site 667015000666 motif II; other site 667015000667 phosphoglucosamine mutase; Region: Arch_GlmM; TIGR03990 667015000668 This PGM-like (phosphoglucomutase-like) domain is located C-terminal to a mannose-1-phosphate guanyltransferase domain in a protein of unknown function that is found in both prokaryotes and eukaryotes. This domain belongs to the alpha-D-phosphohexomutase...; Region: PGM_like4; cd05803 667015000669 active site 667015000670 substrate binding site [chemical binding]; other site 667015000671 metal binding site [ion binding]; metal-binding site 667015000672 Domain of unknown function (DUF4286); Region: DUF4286; pfam14114 667015000673 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 667015000674 active site 667015000675 putative DNA-binding cleft [nucleotide binding]; other site 667015000676 dimer interface [polypeptide binding]; other site 667015000677 pullulanase, type I; Region: pulA_typeI; TIGR02104 667015000678 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 667015000679 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 667015000680 Ca binding site [ion binding]; other site 667015000681 active site 667015000682 catalytic site [active] 667015000683 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 667015000684 putative molybdenum transport ATP-binding protein ModF; Provisional; Region: PRK10938 667015000685 Walker A/P-loop; other site 667015000686 ATP binding site [chemical binding]; other site 667015000687 Q-loop/lid; other site 667015000688 ABC transporter signature motif; other site 667015000689 Walker B; other site 667015000690 D-loop; other site 667015000691 H-loop/switch region; other site 667015000692 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 667015000693 Walker A/P-loop; other site 667015000694 ATP binding site [chemical binding]; other site 667015000695 Q-loop/lid; other site 667015000696 ABC transporter signature motif; other site 667015000697 Walker B; other site 667015000698 D-loop; other site 667015000699 H-loop/switch region; other site 667015000700 Protein of unknown function (DUF2874); Region: DUF2874; pfam11396 667015000701 Protein of unknown function (DUF2874); Region: DUF2874; pfam11396 667015000702 S4/Hsp/ tRNA synthetase RNA-binding domain; The domain surface is populated by conserved, charged residues that define a likely RNA-binding site; Found in stress proteins, ribosomal proteins and tRNA synthetases; This may imply a hitherto unrecognized...; Region: S4; cl09940 667015000703 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 667015000704 RNA binding surface [nucleotide binding]; other site 667015000705 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 667015000706 active site 667015000707 SAM-dependent methyltransferases related to tRNA (uracil-5-)-methyltransferase [Translation, ribosomal structure and biogenesis]; Region: TrmA; COG2265 667015000708 TRAM domain; Region: TRAM; cl01282 667015000709 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 667015000710 S-adenosylmethionine binding site [chemical binding]; other site 667015000711 an uncharacterized bacterial subgroup of the DEDDh 3'-5' exonuclease domain family with similarity to the epsilon subunit of DNA polymerase III; Region: DNA_pol_III_epsilon_like; cd06130 667015000712 active site 667015000713 catalytic site [active] 667015000714 substrate binding site [chemical binding]; other site 667015000715 DDE_Tnp_1-associated; Region: DDE_Tnp_1_assoc; pfam13808 667015000716 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 667015000717 Transposase [DNA replication, recombination, and repair]; Region: COG5433 667015000718 DDE_Tnp_1-associated; Region: DDE_Tnp_1_assoc; cl17880 667015000719 G1P_TT_short is the short form of glucose-1-phosphate thymidylyltransferase; Region: G1P_TT_short; cd02538 667015000720 glucose-1-phosphate thymidylyltransferase, short form; Region: rmlA; TIGR01207 667015000721 substrate binding site; other site 667015000722 tetramer interface; other site 667015000723 Glutathionylspermidine synthase [Amino acid transport and metabolism]; Region: Gsp; COG0754 667015000724 N-terminal tellurium resistance protein terB-like domain of heat shock DnaJ-like proteins; Region: terB_like_DjlA; cd07316 667015000725 putative metal binding site [ion binding]; other site 667015000726 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 667015000727 HSP70 interaction site [polypeptide binding]; other site 667015000728 Domain of unknown function (DUF4270); Region: DUF4270; pfam14092 667015000729 Starch synthase catalytic domain; Region: Glyco_transf_5; pfam08323 667015000730 Pantoate-beta-alanine ligase; Region: PanC; cd00560 667015000731 pantoate--beta-alanine ligase; Region: panC; TIGR00018 667015000732 active site 667015000733 ATP-binding site [chemical binding]; other site 667015000734 pantoate-binding site; other site 667015000735 HXXH motif; other site 667015000736 Aspartate alpha-decarboxylase or L-aspartate 1-decarboxylase, a pyruvoyl group-dependent decarboxylase in beta-alanine production; Region: Asp_decarbox; cd06919 667015000737 tetramerization interface [polypeptide binding]; other site 667015000738 active site 667015000739 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 667015000740 Beta-lactamase; Region: Beta-lactamase; pfam00144 667015000741 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 667015000742 pyruvate phosphate dikinase; Provisional; Region: PRK09279 667015000743 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 667015000744 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 667015000745 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 667015000746 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 667015000747 active site 667015000748 DNA binding site [nucleotide binding] 667015000749 Int/Topo IB signature motif; other site 667015000750 N-Utilization Substance G (NusG) N-terminal domain in the NusG Specialized Paralog (SP), UpxY; Region: NGN_SP_UpxY; cd09895 667015000751 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 667015000752 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 667015000753 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 667015000754 NADH(P)-binding; Region: NAD_binding_10; pfam13460 667015000755 NAD(P) binding site [chemical binding]; other site 667015000756 active site 667015000757 2-succinyl-5-enolpyruvyl-6-hydroxy-3-cyclohexene-1- carboxylic-acid synthase; Region: menD; TIGR00173 667015000758 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 667015000759 dimer interface [polypeptide binding]; other site 667015000760 tetramer interface [polypeptide binding]; other site 667015000761 PYR/PP interface [polypeptide binding]; other site 667015000762 TPP binding site [chemical binding]; other site 667015000763 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 667015000764 TPP-binding site [chemical binding]; other site 667015000765 Polysaccharide pyruvyl transferase family protein [Cell wall/membrane/envelope biogenesis]; Region: WcaK; COG2327 667015000766 Polysaccharide pyruvyl transferase; Region: PS_pyruv_trans; cl09156 667015000767 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 667015000768 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cl11394 667015000769 active site 667015000770 YqaJ-like viral recombinase domain; Region: YqaJ; cl09232 667015000771 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 667015000772 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 667015000773 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 667015000774 This family is most closely related to the GT1 family of glycosyltransferases. AmSD in Erwinia amylovora has been shown to be involved in the biosynthesis of amylovoran, the acidic exopolysaccharide acting as a virulence factor. This enzyme may be...; Region: GT1_amsD_like; cd03820 667015000775 putative ADP-binding pocket [chemical binding]; other site 667015000776 Domain of unknown function (DUF4422); Region: DUF4422; pfam14393 667015000777 Predicted ATPase (AAA+ superfamily) [General function prediction only]; Region: COG1373 667015000778 AAA domain; Region: AAA_14; pfam13173 667015000779 Radical SAM superfamily. Enzymes of this family generate radicals by combining a 4Fe-4S cluster and S-adenosylmethionine (SAM) in close proximity. They are characterized by a conserved CxxxCxxC motif, which coordinates the conserved iron-sulfur cluster; Region: Radical_SAM; cl15377 667015000780 Clostripain family; Region: Peptidase_C11; pfam03415 667015000781 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 667015000782 RNA polymerase sigma factor RpoD, C-terminal domain; Region: RpoD_Cterm; TIGR02393 667015000783 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 667015000784 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 667015000785 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 667015000786 DNA binding residues [nucleotide binding] 667015000787 DNA Polymerase IV/Kappa; Region: PolY_Pol_IV_kappa; cd03586 667015000788 active site 667015000789 DNA polymerase IV; Validated; Region: PRK02406 667015000790 DNA binding site [nucleotide binding] 667015000791 Telomere recombination; Region: Sua5_yciO_yrdC; pfam01300 667015000792 Chloride channel protein EriC [Inorganic ion transport and metabolism]; Region: EriC; COG0038 667015000793 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 667015000794 Cl- selectivity filter; other site 667015000795 Cl- binding residues [ion binding]; other site 667015000796 pore gating glutamate residue; other site 667015000797 dimer interface [polypeptide binding]; other site 667015000798 FOG: CBS domain [General function prediction only]; Region: COG0517 667015000799 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains in association with either the SpoIVFB domain (sporulation protein, stage IV cell wall formation, F locus, promoter-distal B) or the chloride channel protein EriC; Region: CBS_pair_SpoIVFB_EriC_assoc2; cd04613 667015000800 methionyl-tRNA formyltransferase; Reviewed; Region: fmt; PRK00005 667015000801 Methionyl-tRNA formyltransferase, N-terminal hydrolase domain; Region: FMT_core_Met-tRNA-FMT_N; cd08646 667015000802 putative active site [active] 667015000803 substrate binding site [chemical binding]; other site 667015000804 putative cosubstrate binding site; other site 667015000805 catalytic site [active] 667015000806 C-terminal domain of Formyltransferase and other enzymes; Region: Met_tRNA_FMT_C; cd08704 667015000807 substrate binding site [chemical binding]; other site 667015000808 NigD-like protein; Region: NigD; pfam12667 667015000809 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 667015000810 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 667015000811 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 667015000812 DNA binding residues [nucleotide binding] 667015000813 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; pfam13505 667015000814 Pentose-5-phosphate-3-epimerase [Carbohydrate transport and metabolism]; Region: Rpe; COG0036 667015000815 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 667015000816 substrate binding site [chemical binding]; other site 667015000817 hexamer interface [polypeptide binding]; other site 667015000818 metal binding site [ion binding]; metal-binding site 667015000819 Domain of unknown function (DUF4131); Region: DUF4131; pfam13567 667015000820 Predicted membrane metal-binding protein [General function prediction only]; Region: ComEC; COG0658 667015000821 Competence protein; Region: Competence; pfam03772 667015000822 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 667015000823 Major Facilitator Superfamily; Region: MFS_1; pfam07690 667015000824 putative substrate translocation pore; other site 667015000825 The family 20 carbohydrate-binding module (CBM20), also known as the starch-binding domain, is found in a large number of starch degrading enzymes including alpha-amylase, beta-amylase, glucoamylase, and CGTase (cyclodextrin glucanotransferase). CBM20 is...; Region: CBM20; cl15347 667015000826 4-alpha-glucanotransferase; Region: PLN02950 667015000827 starch-binding site 2 [chemical binding]; other site 667015000828 starch-binding site 1 [chemical binding]; other site 667015000829 The family 20 carbohydrate-binding module (CBM20), also known as the starch-binding domain, is found in a large number of starch degrading enzymes including alpha-amylase, beta-amylase, glucoamylase, and CGTase (cyclodextrin glucanotransferase). CBM20 is...; Region: CBM20; cl15347 667015000830 starch-binding site 2 [chemical binding]; other site 667015000831 starch-binding site 1 [chemical binding]; other site 667015000832 4-alpha-glucanotransferase; Region: Glyco_hydro_77; cl00711 667015000833 pullulanase, type I; Region: pulA_typeI; TIGR02104 667015000834 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 667015000835 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 667015000836 Ca binding site [ion binding]; other site 667015000837 active site 667015000838 catalytic site [active] 667015000839 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases; Region: Glo_EDI_BRP_like_3; cd07241 667015000840 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 667015000841 putative metal binding site [ion binding]; other site 667015000842 Exopolyphosphatase-related proteins [General function prediction only]; Region: COG0618 667015000843 DHH family; Region: DHH; pfam01368 667015000844 Protein of unknown function (DUF3584); Region: DUF3584; pfam12128 667015000845 Protein of unknown function (DUF1722); Region: DUF1722; cl01284 667015000846 AAA domain; Region: AAA_14; pfam13173 667015000847 Domain of unknown function (DUF4143); Region: DUF4143; pfam13635 667015000848 Tn4399 and related integrases, DNA breaking-rejoining enzymes, integrase/recombinases, N- and C-terminal domains. This CD includes various bacterial integrases, including cLV25, a Bacteroides fragilis chromosomal transfer factor integrase similar to the...; Region: INT_Tn4399; cd01185 667015000849 Int/Topo IB signature motif; other site 667015000850 Tn4399 and related integrases, DNA breaking-rejoining enzymes, integrase/recombinases, N- and C-terminal domains. This CD includes various bacterial integrases, including cLV25, a Bacteroides fragilis chromosomal transfer factor integrase similar to the...; Region: INT_Tn4399; cd01185 667015000851 Int/Topo IB signature motif; other site 667015000852 Virulence protein [General function prediction only]; Region: COG3943 667015000853 Helix-turn-helix domain; Region: HTH_17; pfam12728 667015000854 Helix-turn-helix domain; Region: HTH_17; pfam12728 667015000855 Homo sapiens 239FB and related proteins, metallophosphatase domain; Region: MPP_239FB; cd07379 667015000856 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 667015000857 putative active site [active] 667015000858 putative metal binding site [ion binding]; other site 667015000859 Protein of unknown function DUF262; Region: DUF262; pfam03235 667015000860 Protein of unknown function DUF262; Region: DUF262; pfam03235 667015000861 Uncharacterized conserved protein [Function unknown]; Region: COG1479 667015000862 an uncharacterized bacterial subgroup of the DEDDh 3'-5' exonuclease domain family with similarity to the epsilon subunit of DNA polymerase III; Region: DNA_pol_III_epsilon_like; cd06130 667015000863 active site 667015000864 catalytic site [active] 667015000865 substrate binding site [chemical binding]; other site 667015000866 WYL domain; Region: WYL; pfam13280 667015000867 hypothetical protein; Reviewed; Region: PRK09588 667015000868 Uncharacterized protein family UPF0027; Region: UPF0027; pfam01139 667015000869 Fic/DOC family; Region: Fic; pfam02661 667015000870 DNA recombination-mediator protein A; Region: DNA_processg_A; pfam02481 667015000871 DNA protecting protein DprA; Region: dprA; TIGR00732 667015000872 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 667015000873 Uncharacterized protein family (UPF0227); Region: UPF0227; cl14886 667015000874 Fic family protein [Function unknown]; Region: COG3177 667015000875 Fic/DOC family; Region: Fic; pfam02661 667015000876 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; cl17220 667015000877 Domain of unknown function (DUF4095); Region: DUF4095; pfam13338 667015000878 Nucleotidyl transferase of unknown function (DUF1814); Region: DUF1814; pfam08843 667015000879 Archaeal ATPase; Region: Arch_ATPase; pfam01637 667015000880 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 667015000881 non-specific DNA binding site [nucleotide binding]; other site 667015000882 salt bridge; other site 667015000883 sequence-specific DNA binding site [nucleotide binding]; other site 667015000884 Protein of unknown function DUF262; Region: DUF262; pfam03235 667015000885 IS66 Orf2 like protein; Region: TnpB_IS66; pfam05717 667015000886 IncA protein; Region: IncA; pfam04156 667015000887 Transposase IS66 family; Region: DDE_Tnp_IS66; pfam03050 667015000888 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 667015000889 putative Mg++ binding site [ion binding]; other site 667015000890 Helicase conserved C-terminal domain; Region: Helicase_C; pfam00271 667015000891 ATP-binding site [chemical binding]; other site 667015000892 Putative catalytic domain of uncharacterized hypothetical proteins with one or two copies of the HKD motif; Region: PLDc_unchar6; cd09176 667015000893 PLD-like domain; Region: PLDc_2; pfam13091 667015000894 putative homodimer interface [polypeptide binding]; other site 667015000895 putative active site [active] 667015000896 catalytic site [active] 667015000897 AAA domain; Region: AAA_11; pfam13086 667015000898 Part of AAA domain; Region: AAA_19; pfam13245 667015000899 Superfamily I DNA and RNA helicases and helicase subunits [DNA replication, recombination, and repair]; Region: COG1112 667015000900 AAA domain; Region: AAA_12; pfam13087 667015000901 Protein of unknown function (DUF2726); Region: DUF2726; pfam10881 667015000902 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 667015000903 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 667015000904 dimer interface [polypeptide binding]; other site 667015000905 ssDNA binding site [nucleotide binding]; other site 667015000906 tetramer (dimer of dimers) interface [polypeptide binding]; other site 667015000907 Protein of unknown function (DUF2867); Region: DUF2867; pfam11066 667015000908 Nucleotidyltransferase/DNA polymerase involved in DNA repair [DNA replication, recombination, and repair]; Region: DinP; COG0389 667015000909 Y-family of DNA polymerases; Region: PolY; cl12025 667015000910 active site 667015000911 DNA binding site [nucleotide binding] 667015000912 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 667015000913 CobQ/CobB/MinD/ParA nucleotide binding domain; Region: CbiA; pfam01656 667015000914 P-loop; other site 667015000915 Magnesium ion binding site [ion binding]; other site 667015000916 Xenobiotic acyltransferase (XAT): The XAT class of hexapeptide acyltransferases is composed of a large number of microbial enzymes that catalyze the CoA-dependent acetylation of a variety of hydroxyl-bearing acceptors such as chloramphenicol and...; Region: LbH_XAT; cd03349 667015000917 trimer interface [polypeptide binding]; other site 667015000918 active site 667015000919 substrate binding site [chemical binding]; other site 667015000920 CoA binding site [chemical binding]; other site 667015000921 Uncharacterized subfamily of the multidrug and toxic compound extrusion (MATE) proteins; Region: MATE_like_7; cd13133 667015000922 putative efflux protein, MATE family; Region: matE; TIGR00797 667015000923 Protein of unknown function with HXXEE motif; Region: HXXEE; pfam13787 667015000924 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 667015000925 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 667015000926 Resolvase, N terminal domain; Region: Resolvase; pfam00239 667015000927 catalytic residues [active] 667015000928 catalytic nucleophile [active] 667015000929 Plasmid recombination enzyme; Region: Mob_Pre; pfam01076 667015000930 OmpA family; Region: OmpA; pfam00691 667015000931 ligand binding site [chemical binding]; other site 667015000932 AAA ATPase domain; Region: AAA_16; pfam13191 667015000933 Archaeal ATPase; Region: Arch_ATPase; pfam01637 667015000934 Domain of unknown function (DUF1738); Region: DUF1738; pfam08401 667015000935 Antirestriction protein [DNA replication, recombination, and repair]; Region: COG4227 667015000936 Replication protein A, class 2b aminoacyl-tRNA synthetases, and related proteins with oligonucleotide/oligosaccharide (OB) fold; Region: RPA_2b-aaRSs_OBF_like; cl09930 667015000937 generic binding surface II; other site 667015000938 generic binding surface I; other site 667015000939 Mannosyl-glycoprotein endo-beta-N-acetylglucosaminidase; Region: Glucosaminidase; pfam01832 667015000940 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 667015000941 Peptidase family M23; Region: Peptidase_M23; pfam01551 667015000942 Domain of unknown function (DUF1738); Region: DUF1738; pfam08401 667015000943 Helicase associated domain (HA2); Region: HA2; cl04503 667015000944 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 667015000945 Peptidase family M23; Region: Peptidase_M23; pfam01551 667015000946 Bacterial PH domain; Region: DUF304; pfam03703 667015000947 Protein of unknown function (DUF3991); Region: DUF3991; pfam13154 667015000948 Toprim-like; Region: Toprim_2; pfam13155 667015000949 Protein of unknown function (DUF4099); Region: DUF4099; pfam13351 667015000950 Protein of unknown function (DUF3945); Region: DUF3945; pfam13101 667015000951 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 667015000952 Peptidase family M23; Region: Peptidase_M23; pfam01551 667015000953 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 667015000954 active site 667015000955 Predicted ATPase (AAA+ superfamily) [General function prediction only]; Region: COG1373 667015000956 AAA domain; Region: AAA_14; pfam13173 667015000957 Methyltransferase domain; Region: Methyltransf_26; pfam13659 667015000958 DNA methylase [Transcription / DNA replication, recombination, and repair]; Region: COG4646 667015000959 DEAD-like helicases superfamily; Region: DEXDc; smart00487 667015000960 DNA methylase [Transcription / DNA replication, recombination, and repair]; Region: COG4646 667015000961 helicase superfamily c-terminal domain; Region: HELICc; smart00490 667015000962 nucleotide binding region [chemical binding]; other site 667015000963 ATP-binding site [chemical binding]; other site 667015000964 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 667015000965 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 667015000966 Coenzyme A binding pocket [chemical binding]; other site 667015000967 Domain of unknown function (DUF4313); Region: DUF4313; pfam14190 667015000968 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 667015000969 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 667015000970 dimer interface [polypeptide binding]; other site 667015000971 ssDNA binding site [nucleotide binding]; other site 667015000972 tetramer (dimer of dimers) interface [polypeptide binding]; other site 667015000973 ParB-like nuclease domain; Region: ParBc; pfam02195 667015000974 superfamily containing globins and truncated hemoglobins; Region: globin_like; cl00280 667015000975 Immunity protein Imm5; Region: Imm5; pfam14423 667015000976 Oxygen tolerance; Region: BatD; pfam13584 667015000977 Rhomboid family; Region: Rhomboid; pfam01694 667015000978 Protein of unknown function (DUF1266); Region: DUF1266; pfam06889 667015000979 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 667015000980 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 667015000981 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 667015000982 Ankyrin repeat; Region: Ank; pfam00023 667015000983 Ankyrin repeats (many copies); Region: Ank_4; pfam13637 667015000984 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 667015000985 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 667015000986 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 667015000987 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 667015000988 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 667015000989 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 667015000990 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 667015000991 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 667015000992 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 667015000993 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 667015000994 binding surface 667015000995 Tetratricopeptide repeat; Region: TPR_16; pfam13432 667015000996 TPR motif; other site 667015000997 Predicted kinase [General function prediction only]; Region: COG4639 667015000998 Domain of unknown function (DUF1910); Region: DUF1910; pfam08928 667015000999 Domain of unknown function (DUF1911); Region: DUF1911; pfam08929 667015001000 Domain of unknown function (DUF4274); Region: DUF4274; pfam14096 667015001001 Domain of unknown function (DUF4274); Region: DUF4274; pfam14096 667015001002 Suppressor of fused protein (SUFU); Region: SUFU; pfam05076 667015001003 Protein of unknown function (DUF3997); Region: DUF3997; pfam13162 667015001004 C terminal SARAH domain of Mst1; Region: Mst1_SARAH; pfam11629 667015001005 SUKH-3 immunity protein; Region: SUKH-3; pfam14433 667015001006 Immunity protein Imm5; Region: Imm5; pfam14423 667015001007 Site-specific recombinase XerD [DNA replication, recombination, and repair]; Region: XerD; COG4974 667015001008 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 667015001009 active site 667015001010 DNA binding site [nucleotide binding] 667015001011 Int/Topo IB signature motif; other site 667015001012 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 667015001013 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 667015001014 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 667015001015 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 667015001016 catalytic residue [active] 667015001017 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 667015001018 TraM recognition site of TraD and TraG; Region: TraG-D_C; cl17375 667015001019 Walker B motif; other site 667015001020 Bacterial RNA polymerase, alpha chain C terminal domain; Region: RNA_pol_A_CTD; pfam03118 667015001021 Bacteroides conjugative transposon TraN protein; Region: Bac_Flav_CT_N; TIGR03780 667015001022 Domain of unknown function (DUF4138); Region: DUF4138; pfam13595 667015001023 DNA modification methylase [DNA replication, recombination, and repair]; Region: COG0863 667015001024 DNA methylase; Region: N6_N4_Mtase; pfam01555 667015001025 Bacteroides conjugative transposon TraM protein; Region: Bac_Flav_CT_M; TIGR03779 667015001026 Protein of unknown function (DUF3714); Region: DUF3714; pfam12508 667015001027 Bacteroides conjugative transposon TraK protein; Region: Bac_Flav_CT_K; TIGR03781 667015001028 Bacteroides conjugative transposon TraJ protein; Region: Bac_Flav_CT_J; TIGR03782 667015001029 Bacteroides conjugation system ATPase, TraG family; Region: Bac_Flav_CT_G; TIGR03783 667015001030 Domain of unknown function (DUF4133); Region: DUF4133; pfam13571 667015001031 Domain of unknown function (DUF4134); Region: DUF4134; pfam13572 667015001032 Domain of unknown function (DUF4134); Region: DUF4134; pfam13572 667015001033 CHC2 zinc finger; Region: zf-CHC2; cl17510 667015001034 Topoisomerase-primase domain. This is a nucleotidyl transferase/hydrolase domain found in type IA, type IIA and type IIB topoisomerases, bacterial DnaG-type primases, small primase-like proteins from bacteria and archaea, OLD family nucleases from...; Region: TOPRIM; cd00188 667015001035 active site 667015001036 metal binding site [ion binding]; metal-binding site 667015001037 AAA domain; Region: AAA_25; pfam13481 667015001038 Helix-turn-helix domain; Region: HTH_17; pfam12728 667015001039 Protein of unknown function (DUF3946); Region: DUF3946; pfam13102 667015001040 tyrosine recombinase XerD; Region: recomb_XerD; TIGR02225 667015001041 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 667015001042 active site 667015001043 DNA binding site [nucleotide binding] 667015001044 Int/Topo IB signature motif; other site 667015001045 KAP family P-loop domain; Region: KAP_NTPase; pfam07693 667015001046 KAP family P-loop domain; Region: KAP_NTPase; pfam07693 667015001047 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 667015001048 non-specific DNA binding site [nucleotide binding]; other site 667015001049 salt bridge; other site 667015001050 sequence-specific DNA binding site [nucleotide binding]; other site 667015001051 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 667015001052 non-specific DNA binding site [nucleotide binding]; other site 667015001053 salt bridge; other site 667015001054 sequence-specific DNA binding site [nucleotide binding]; other site 667015001055 Type I restriction-modification system methyltransferase subunit [Defense mechanisms]; Region: HsdM; COG0286 667015001056 HsdM N-terminal domain; Region: HsdM_N; pfam12161 667015001057 Methyltransferase domain; Region: Methyltransf_26; pfam13659 667015001058 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 667015001059 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 667015001060 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 667015001061 PIN (PilT N terminus) domain: Superfamily; Region: PIN_SF; cl14812 667015001062 Uncharacterized conserved protein [Function unknown]; Region: COG4933 667015001063 Type I site-specific restriction-modification system, R (restriction) subunit and related helicases [Defense mechanisms]; Region: COG0610 667015001064 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; pfam04313 667015001065 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 667015001066 ATP binding site [chemical binding]; other site 667015001067 putative Mg++ binding site [ion binding]; other site 667015001068 Relaxase/Mobilisation nuclease domain; Region: Relaxase; pfam03432 667015001069 Ribbon-helix-helix protein, copG family; Region: RHH_1; pfam01402 667015001070 Bacterial mobilisation protein (MobC); Region: MobC; pfam05713 667015001071 Protein of unknown function (DUF3987); Region: DUF3987; pfam13148 667015001072 Helix-turn-helix domain; Region: HTH_17; pfam12728 667015001073 Transposase, Mutator family; Region: Transposase_mut; pfam00872 667015001074 MULE transposase domain; Region: MULE; pfam10551 667015001075 Protein of unknown function (DUF3946); Region: DUF3946; pfam13102 667015001076 Tn4399 and related integrases, DNA breaking-rejoining enzymes, integrase/recombinases, N- and C-terminal domains. This CD includes various bacterial integrases, including cLV25, a Bacteroides fragilis chromosomal transfer factor integrase similar to the...; Region: INT_Tn4399; cd01185 667015001077 Int/Topo IB signature motif; other site 667015001078 Helix-turn-helix domain; Region: HTH_17; pfam12728 667015001079 Helix-turn-helix domain; Region: HTH_17; pfam12728 667015001080 tRNA modification GTPase TrmE; Reviewed; Region: trmE; PRK05291 667015001081 GTP-binding protein TrmE N-terminus; Region: TrmE_N; pfam10396 667015001082 trmE is a tRNA modification GTPase; Region: trmE; cd04164 667015001083 G1 box; other site 667015001084 GTP/Mg2+ binding site [chemical binding]; other site 667015001085 Switch I region; other site 667015001086 G2 box; other site 667015001087 Switch II region; other site 667015001088 G3 box; other site 667015001089 G4 box; other site 667015001090 G5 box; other site 667015001091 Catalytic cysteine-containing C-terminus of GTPase, MnmE; Region: GTPase_Cys_C; pfam12631 667015001092 GAF domain-containing protein [Signal transduction mechanisms]; Region: COG1956 667015001093 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 667015001094 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 667015001095 Uridine phosphorylase [Nucleotide transport and metabolism]; Region: Udp; COG2820 667015001096 hypothetical protein; Provisional; Region: PRK13665 667015001097 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 667015001098 binding surface 667015001099 Tetratricopeptide repeat; Region: TPR_16; pfam13432 667015001100 TPR motif; other site 667015001101 tRNA 2-thiocytidine biosynthesis protein TtcA; Provisional; Region: PRK10696 667015001102 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 667015001103 Ligand Binding Site [chemical binding]; other site 667015001104 TIGR00269 family protein; Region: TIGR00269 667015001105 Protein of unknown function, DUF486; Region: DUF486; cl01236 667015001106 Chloramphenicol O-acetyltransferase [Defense mechanisms]; Region: COG4845 667015001107 Chloramphenicol acetyltransferase; Region: CAT; cl02008 667015001108 DNA-binding protein, histone-like, putative; Region: HU_rel; TIGR01201 667015001109 PRLI-interacting factor K; Provisional; Region: PLN03086 667015001110 Prophage antirepressor [Transcription]; Region: COG3617 667015001111 BRO family, N-terminal domain; Region: Bro-N; smart01040 667015001112 Phage antirepressor protein KilAC domain; Region: ANT; pfam03374 667015001113 VirE N-terminal domain; Region: VirE_N; pfam08800 667015001114 methylmalonyl-CoA mutase; Reviewed; Region: PRK09426 667015001115 Coenzyme B12-dependent-methylmalonyl coenzyme A (CoA) mutase (MCM) family, Alpha subunit-like subfamily; contains proteins similar to the alpha subunit of Propionbacterium shermanni MCM, as well as human and E. coli MCM. Members of this subfamily contain...; Region: MM_CoA_mutase_alpha_like; cd03679 667015001116 active site 667015001117 substrate binding site [chemical binding]; other site 667015001118 coenzyme B12 binding site [chemical binding]; other site 667015001119 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 667015001120 B12 binding site [chemical binding]; other site 667015001121 cobalt ligand [ion binding]; other site 667015001122 GxxExxY protein; Region: GxxExxY; TIGR04256 667015001123 methylmalonyl-CoA mutase, heterodimeric type, beta chain; Region: mmCoA_mut_beta; TIGR00642 667015001124 Coenzyme B12-dependent-methylmalonyl coenzyme A (CoA) mutase (MCM) family, Beta subunit-like subfamily; contains bacterial proteins similar to the beta subunit of MCMs from Propionbacterium shermanni and Streptomyces cinnamonensis, which are alpha/beta...; Region: MM_CoA_mutase_beta; cd03677 667015001125 heterodimer interface [polypeptide binding]; other site 667015001126 substrate interaction site [chemical binding]; other site 667015001127 B12 binding domain (B12-BD). Most of the members bind different cobalamid derivates, like B12 (adenosylcobamide) or methylcobalamin or methyl-Co(III) 5-hydroxybenzimidazolylcobamide. This domain is found in several enzymes, such as glutamate mutase; Region: B12-binding_like; cl00293 667015001128 B12 binding site [chemical binding]; other site 667015001129 putative transporter; Validated; Region: PRK03818 667015001130 Predicted Permease Membrane Region; Region: Asp-Al_Ex; pfam06826 667015001131 TrkA-C domain; Region: TrkA_C; pfam02080 667015001132 Predicted Permease Membrane Region; Region: Asp-Al_Ex; pfam06826 667015001133 Haloacid dehalogenase-like hydrolase; Region: HAD_2; pfam13419 667015001134 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 667015001135 motif II; other site 667015001136 Dipeptidyl aminopeptidases/acylaminoacyl-peptidases [Amino acid transport and metabolism]; Region: DAP2; COG1506 667015001137 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 667015001138 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 667015001139 Pyridoxamine 5'-phosphate oxidase; Region: Pyridox_ox_2; pfam12900 667015001140 Uncharacterized oxidoreductases, Fe-dependent alcohol dehydrogenase family [Energy production and conversion]; Region: COG1979 667015001141 Butanol dehydrogenase catalyzes the conversion of butyraldehyde to butanol with the cofactor NAD(P)H being oxidized in the process; Region: BDH; cd08187 667015001142 dimer interface [polypeptide binding]; other site 667015001143 active site 667015001144 metal binding site [ion binding]; metal-binding site 667015001145 cobyrinic acid a,c-diamide synthase; Validated; Region: PRK01077 667015001146 Nucleoside/nucleotide kinase (NK) is a protein superfamily consisting of multiple families of enzymes that share structural similarity and are functionally related to the catalysis of the reversible phosphate group transfer from nucleoside triphosphates...; Region: NK; cl17190 667015001147 active site 667015001148 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyrinic Acid a,c-Diamide Synthase; Region: GATase1_CobB; cd03130 667015001149 catalytic triad [active] 667015001150 Transposase domain (DUF772); Region: DUF772; pfam05598 667015001151 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 667015001152 Predicted permeases [General function prediction only]; Region: COG0795 667015001153 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 667015001154 queuine tRNA-ribosyltransferase; Provisional; Region: tgt; PRK00112 667015001155 Queuine/archaeosine tRNA-ribosyltransferase [Translation, ribosomal structure and biogenesis]; Region: Tgt; COG0343 667015001156 ATP-dependent Lon protease, bacterial type [Posttranslational modification, protein turnover, chaperones]; Region: Lon; COG0466 667015001157 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 667015001158 Walker A motif; other site 667015001159 ATP binding site [chemical binding]; other site 667015001160 Walker B motif; other site 667015001161 arginine finger; other site 667015001162 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 667015001163 Predicted O-methyltransferase [General function prediction only]; Region: COG4123 667015001164 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 667015001165 S-adenosylmethionine binding site [chemical binding]; other site 667015001166 Sphingosine kinase and enzymes related to eukaryotic diacylglycerol kinase [Lipid metabolism / General function prediction only]; Region: LCB5; COG1597 667015001167 Diacylglycerol kinase catalytic domain; Region: DAGK_cat; pfam00781 667015001168 pyridoxal phosphate-dependent acyltransferase, putative; Region: gly_Cac_T_rel; TIGR01825 667015001169 KBL_like; this family belongs to the pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD corresponds to serine palmitoyltransferase (SPT), 5-aminolevulinate synthase (ALAS); Region: KBL_like; cd06454 667015001170 substrate-cofactor binding pocket; other site 667015001171 pyridoxal 5'-phosphate binding site [chemical binding]; other site 667015001172 catalytic residue [active] 667015001173 Uncharacterized protein containing a ferredoxin domain [Function unknown]; Region: COG4739 667015001174 Uncharacterized protein containing a ferredoxin domain (DUF2148); Region: DUF2148; pfam09918 667015001175 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 667015001176 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 667015001177 active site 667015001178 motif I; other site 667015001179 motif II; other site 667015001180 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 667015001181 MgtC family; Region: MgtC; pfam02308 667015001182 Protein of unknown function (DUF2582); Region: DUF2582; pfam10771 667015001183 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 667015001184 active site 667015001185 UGMP family protein; Validated; Region: PRK09604 667015001186 tRNA threonylcarbamoyl adenosine modification protein YeaZ; Region: T6A_YeaZ; TIGR03725 667015001187 Competence-damaged protein; Region: CinA; pfam02464 667015001188 50S ribosomal protein L28; Reviewed; Region: rpmB; PRK00359 667015001189 ribosomal protein L33; Region: rpl33; CHL00104 667015001190 Domain of unknown function (DUF4295); Region: DUF4295; pfam14128 667015001191 signal recognition particle-docking protein FtsY; Provisional; Region: PRK10416 667015001192 SRP54-type protein, helical bundle domain; Region: SRP54_N; pfam02881 667015001193 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 667015001194 ribosomal protein S12 methylthiotransferase RimO; Region: TIGR01125 667015001195 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 667015001196 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 667015001197 FeS/SAM binding site; other site 667015001198 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 667015001199 IHF dimer interface [polypeptide binding]; other site 667015001200 IHF - DNA interface [nucleotide binding]; other site 667015001201 Integration host factor (IHF) and HU are small heterodimeric members of the DNABII protein family that bind and bend DNA, functioning as architectural factors in many cellular processes including transcription, site-specific recombination, and...; Region: HU_IHF; cl00257 667015001202 IHF dimer interface [polypeptide binding]; other site 667015001203 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cl00107 667015001204 MoxR-like ATPases [General function prediction only]; Region: COG0714 667015001205 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 667015001206 Walker A motif; other site 667015001207 ATP binding site [chemical binding]; other site 667015001208 Walker B motif; other site 667015001209 arginine finger; other site 667015001210 Tctex-1 family; Region: Tctex-1; pfam03645 667015001211 Uncharacterized conserved protein (some members contain a von Willebrand factor type A (vWA) domain) [General function prediction only]; Region: COG1721 667015001212 Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b para-rossmann type of...; Region: vWFA; cd00198 667015001213 metal ion-dependent adhesion site (MIDAS); other site 667015001214 Oxygen tolerance; Region: BatD; pfam13584 667015001215 Aerotolerance regulator N-terminal; Region: BatA; pfam07584 667015001216 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 667015001217 metal ion-dependent adhesion site (MIDAS); other site 667015001218 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 667015001219 metal ion-dependent adhesion site (MIDAS); other site 667015001220 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 667015001221 binding surface 667015001222 TPR repeat; Region: TPR_11; pfam13414 667015001223 TPR motif; other site 667015001224 TPR repeat; Region: TPR_11; pfam13414 667015001225 Oxygen tolerance; Region: BatD; pfam13584 667015001226 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 667015001227 binding surface 667015001228 Tetratricopeptide repeat; Region: TPR_16; pfam13432 667015001229 TPR motif; other site 667015001230 peptide ligand binding site [polypeptide binding]; other site 667015001231 Src Homology 3 domain superfamily; Region: SH3; cl17036 667015001232 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 667015001233 active site 667015001234 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 667015001235 Domain of unknown function (DUF2007); Region: DUF2007; pfam09413 667015001236 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 667015001237 Ligand Binding Site [chemical binding]; other site 667015001238 Adenine nucleotide alpha hydrolases superfamily including N type ATP PPases, ATP sulphurylases Universal Stress Response protein and electron transfer flavoprotein (ETF). The domain forms a apha/beta/apha fold which binds to Adenosine nucleotide; Region: AANH_like; cl00292 667015001239 Putative heavy-metal-binding; Region: YbjQ_1; cl00426 667015001240 IclR helix-turn-helix domain; Region: HTH_IclR; cl17605 667015001241 putative transposase OrfB; Reviewed; Region: PHA02517 667015001242 Integrase core domain; Region: rve; pfam00665 667015001243 Integrase core domain; Region: rve_3; pfam13683 667015001244 Protein of unknown function (DUF3575); Region: DUF3575; pfam12099 667015001245 Domain of unknown function, B. Theta Gene description (DUF3868); Region: DUF3868; pfam12984 667015001246 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cl02931 667015001247 ligand binding site [chemical binding]; other site 667015001248 Fimbrillin-A associated anchor proteins Mfa1 and Mfa2; Region: Mfa2; pfam08842 667015001249 Fimbrillin-A associated anchor proteins Mfa1 and Mfa2; Region: Mfa2; pfam08842 667015001250 IS66 Orf2 like protein; Region: TnpB_IS66; pfam05717 667015001251 Transposase C of IS166 homeodomain; Region: LZ_Tnp_IS66; pfam13007 667015001252 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 667015001253 putative Helix-turn-helix domain of transposase IS66; Region: HTH_Tnp_IS66; pfam13005 667015001254 Transposase IS66 family; Region: DDE_Tnp_IS66; pfam03050 667015001255 IS66 C-terminal element; Region: DDE_Tnp_IS66_C; pfam13817 667015001256 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: RssA; COG1752 667015001257 Patatin-like phospholipase domain containing protein 6, protein 7, and fungal NTE1; Region: Pat_PNPLA6_PNPLA7_NTE1_like; cd07205 667015001258 active site 667015001259 nucleophile elbow; other site 667015001260 heat shock protein 90; Provisional; Region: PRK05218 667015001261 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 667015001262 ATP binding site [chemical binding]; other site 667015001263 Mg2+ binding site [ion binding]; other site 667015001264 G-X-G motif; other site 667015001265 ATP-binding subunits of Clp protease and DnaK/DnaJ chaperones [Posttranslational modification, protein turnover, chaperones]; Region: clpA; COG0542 667015001266 Clp amino terminal domain; Region: Clp_N; pfam02861 667015001267 Clp amino terminal domain; Region: Clp_N; pfam02861 667015001268 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 667015001269 Walker A motif; other site 667015001270 ATP binding site [chemical binding]; other site 667015001271 Walker B motif; other site 667015001272 arginine finger; other site 667015001273 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 667015001274 Walker A motif; other site 667015001275 ATP binding site [chemical binding]; other site 667015001276 Walker B motif; other site 667015001277 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 667015001278 DNA gyrase subunit A; Validated; Region: PRK05560 667015001279 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 667015001280 CAP-like domain; other site 667015001281 active site 667015001282 primary dimer interface [polypeptide binding]; other site 667015001283 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 667015001284 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 667015001285 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 667015001286 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 667015001287 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 667015001288 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 667015001289 prolyl-tRNA synthetase; Provisional; Region: PRK08661 667015001290 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 667015001291 dimer interface [polypeptide binding]; other site 667015001292 motif 1; other site 667015001293 active site 667015001294 motif 2; other site 667015001295 motif 3; other site 667015001296 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 667015001297 anticodon binding site; other site 667015001298 zinc-binding site [ion binding]; other site 667015001299 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; cl00253 667015001300 1,4-alpha-glucan branching enzyme [Carbohydrate transport and metabolism]; Region: GlgB; COG0296 667015001301 N-terminal Early set domain associated with the catalytic domain of eukaryotic glycogen branching enzyme (also called 1,4 alpha glucan branching enzyme); Region: E_set_GBE_euk_N; cd02854 667015001302 Alpha amylase catalytic domain found in bacterial and eukaryotic branching enzymes; Region: AmyAc_bac_euk_BE; cd11321 667015001303 active site 667015001304 catalytic site [active] 667015001305 Alpha amylase, C-terminal all-beta domain; Region: Alpha-amylase_C; pfam02806 667015001306 Domain of unknown function (DUF386); Region: DUF386; cl01047 667015001307 TIGR02453 family protein; Region: TIGR02453 667015001308 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 667015001309 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 667015001310 active site 667015001311 dimerization interface [polypeptide binding]; other site 667015001312 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4642 667015001313 MORN repeat; Region: MORN; cl14787 667015001314 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4642 667015001315 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4642 667015001316 MORN repeat; Region: MORN; cl14787 667015001317 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 667015001318 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 667015001319 7,8-dihydro-6-hydroxymethylpterin-pyrophosphokinase (HPPK). Folate derivatives are essential cofactors in the biosynthesis of purines, pyrimidines, and amino acids as well as formyl-tRNA. Mammalian cells are able to utilize pre-formed folates after...; Region: HPPK; cl00233 667015001320 catalytic center binding site [active] 667015001321 ATP binding site [chemical binding]; other site 667015001322 Uncharacterized protein conserved in bacteria [Function unknown]; Region: DedD; COG3147 667015001323 Sporulation related domain; Region: SPOR; pfam05036 667015001324 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 667015001325 phosphopeptide binding site; other site 667015001326 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 667015001327 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 667015001328 Gram-negative bacterial tonB protein; Region: TonB; pfam03544 667015001329 Gram-negative bacterial tonB protein; Region: TonB; cl10048 667015001330 CT domains found N-terminal of phosphoserine phosphatase (PSP, SerB); Region: ACT_PSP_1; cd04870 667015001331 ACT domains found N-terminal of phosphoserine phosphatase (PSP, SerB); Region: ACT_PSP_2; cd04871 667015001332 phosphoserine phosphatase SerB; Region: serB; TIGR00338 667015001333 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 667015001334 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 667015001335 motif II; other site 667015001336 helicase 45; Provisional; Region: PTZ00424 667015001337 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 667015001338 ATP binding site [chemical binding]; other site 667015001339 Mg++ binding site [ion binding]; other site 667015001340 motif III; other site 667015001341 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 667015001342 nucleotide binding region [chemical binding]; other site 667015001343 ATP-binding site [chemical binding]; other site 667015001344 Helix-turn-helix domain; Region: HTH_18; pfam12833 667015001345 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 667015001346 Helix-turn-helix domain; Region: HTH_18; pfam12833 667015001347 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 667015001348 Protein of unknown function (DUF2582); Region: DUF2582; pfam10771 667015001349 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 667015001350 dihydrodipicolinate synthase; Region: dapA; TIGR00674 667015001351 dimer interface [polypeptide binding]; other site 667015001352 active site 667015001353 catalytic residue [active] 667015001354 NAD-dependent DNA ligase LigA; Validated; Region: ligA; PRK07956 667015001355 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 667015001356 nucleotide binding pocket [chemical binding]; other site 667015001357 K-X-D-G motif; other site 667015001358 catalytic site [active] 667015001359 NAD-dependent DNA ligase OB-fold domain; Region: DNA_ligase_OB; pfam03120 667015001360 NAD-dependent DNA ligase C4 zinc finger domain; Region: DNA_ligase_ZBD; pfam03119 667015001361 RelA- and SpoT-like ppGpp Synthetases and Hydrolases, catalytic domain; Region: Rel-Spo_like; cl11966 667015001362 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 667015001363 Dimer interface [polypeptide binding]; other site 667015001364 BRCT sequence motif; other site 667015001365 Membrane protein of unknown function (DUF340); Region: DUF340; pfam03956 667015001366 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 667015001367 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 667015001368 Coenzyme A binding pocket [chemical binding]; other site 667015001369 tRNA (guanine-N(1)-)-methyltransferase; Reviewed; Region: trmD; PRK00026 667015001370 dihydroorotate dehydrogenase (subfamily 1) family protein; Region: pyrD_sub1_fam; TIGR01037 667015001371 Dihydroorotate dehydrogenase (DHOD) class 1B FMN-binding domain. DHOD catalyzes the oxidation of (S)-dihydroorotate to orotate. This is the fourth step and the only redox reaction in the de novo biosynthesis of UMP, the precursor of all pyrimidine...; Region: DHOD_1B_like; cd04740 667015001372 heterodimer interface [polypeptide binding]; other site 667015001373 active site 667015001374 FMN binding site [chemical binding]; other site 667015001375 homodimer interface [polypeptide binding]; other site 667015001376 substrate binding site [chemical binding]; other site 667015001377 2-polyprenylphenol hydroxylase and related flavodoxin oxidoreductases [Coenzyme metabolism / Energy production and conversion]; Region: UbiB; COG0543 667015001378 FAD/NAD binding domain in the electron transfer subunit of dihydroorotate dehydrogenase. Dihydroorotate dehydrogenases (DHODs) catalyze the only redox reaction in pyrimidine de novo biosynthesis. They catalyze the oxidation of (S)-dihydroorotate to...; Region: DHOD_e_trans; cd06218 667015001379 FAD binding pocket [chemical binding]; other site 667015001380 FAD binding motif [chemical binding]; other site 667015001381 phosphate binding motif [ion binding]; other site 667015001382 beta-alpha-beta structure motif; other site 667015001383 NAD binding pocket [chemical binding]; other site 667015001384 Iron coordination center [ion binding]; other site 667015001385 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 667015001386 non-specific DNA binding site [nucleotide binding]; other site 667015001387 salt bridge; other site 667015001388 sequence-specific DNA binding site [nucleotide binding]; other site 667015001389 DNA polymerase III, delta subunit; Region: DNA_pol3_delta; pfam06144 667015001390 DNA polymerase III, delta subunit; Region: holA; TIGR01128 667015001391 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N_2; pfam13588 667015001392 Zn-ribbon protein, possibly nucleic acid-binding [General function prediction only]; Region: COG1579 667015001393 Putative zinc ribbon domain; Region: DUF164; pfam02591 667015001394 Uncharacterized conserved protein [Function unknown]; Region: COG0327 667015001395 NIF3 (NGG1p interacting factor 3); Region: NIF3; pfam01784 667015001396 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3323 667015001397 NIF3 (NGG1p interacting factor 3); Region: NIF3; pfam01784 667015001398 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 667015001399 catalytic core [active] 667015001400 Transcription-repair coupling factor (superfamily II helicase) [DNA replication, recombination, and repair / Transcription]; Region: Mfd; COG1197 667015001401 CarD-like/TRCF domain; Region: CarD_TRCF; smart01058 667015001402 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 667015001403 ATP binding site [chemical binding]; other site 667015001404 putative Mg++ binding site [ion binding]; other site 667015001405 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 667015001406 nucleotide binding region [chemical binding]; other site 667015001407 ATP-binding site [chemical binding]; other site 667015001408 TRCF domain; Region: TRCF; pfam03461 667015001409 FOG: TPR repeat [General function prediction only]; Region: NrfG; COG0457 667015001410 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 667015001411 binding surface 667015001412 TPR motif; other site 667015001413 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 667015001414 binding surface 667015001415 TPR motif; other site 667015001416 Uncharacterized protein family (UPF0157); Region: UPF0157; pfam04229 667015001417 Aminoglycoside-2''-adenylyltransferase; Region: Aminoglyc_resit; pfam10706 667015001418 Uncharacterized ArCR, COG2043; Region: DUF169; cl00894 667015001419 glycine dehydrogenase; Provisional; Region: PRK05367 667015001420 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 667015001421 tetramer interface [polypeptide binding]; other site 667015001422 pyridoxal 5'-phosphate binding site [chemical binding]; other site 667015001423 catalytic residue [active] 667015001424 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 667015001425 tetramer interface [polypeptide binding]; other site 667015001426 pyridoxal 5'-phosphate binding site [chemical binding]; other site 667015001427 catalytic residue [active] 667015001428 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 667015001429 Predicted S-adenosylmethionine-dependent methyltransferase involved in bacterial cell division [Cell envelope biogenesis, outer membrane]; Region: GidB; COG0357 667015001430 16S rRNA methyltransferase GidB; Reviewed; Region: gidB; PRK00107 667015001431 Domain of unknown function (DUF4163); Region: DUF4163; pfam13739 667015001432 Protein of unknown function (DUF3298); Region: DUF3298; pfam11738 667015001433 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; cl14057 667015001434 exodeoxyribonuclease X; Provisional; Region: PRK07983 667015001435 Membrane carboxypeptidase/penicillin-binding protein [Cell envelope biogenesis, outer membrane]; Region: MrcA; COG5009 667015001436 Transglycosylase; Region: Transgly; pfam00912 667015001437 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 667015001438 aspartate carbamoyltransferase catalytic subunit; Provisional; Region: pyrB; PRK00856 667015001439 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 667015001440 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 667015001441 aspartate carbamoyltransferase regulatory subunit; Reviewed; Region: PRK00893 667015001442 Aspartate carbamoyltransferase regulatory chain, allosteric domain; Region: PyrI; pfam01948 667015001443 Aspartate carbamoyltransferase regulatory chain, metal binding domain; Region: PyrI_C; pfam02748 667015001444 Conserved protein/domain typically associated with flavoprotein oxygenases, DIM6/NTAB family [General function prediction only]; Region: COG1853 667015001445 Outer membrane protein beta-barrel domain; Region: OMP_b-brl_2; pfam13568 667015001446 serine hydroxymethyltransferase; Reviewed; Region: glyA; PRK00011 667015001447 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 667015001448 dimer interface [polypeptide binding]; other site 667015001449 active site 667015001450 glycine-pyridoxal phosphate binding site [chemical binding]; other site 667015001451 folate binding site [chemical binding]; other site 667015001452 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 667015001453 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 667015001454 ligand binding site [chemical binding]; other site 667015001455 ACT domain-containing protein [General function prediction only]; Region: COG4747 667015001456 N-terminal ACT domain of a novel protein composed almost entirely of two tandem ACT domains; Region: ACT_Bt0572_1; cd04908 667015001457 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 667015001458 Coenzyme F390 synthetase [Coenzyme metabolism]; Region: PaaK; COG1541 667015001459 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 667015001460 acyl-activating enzyme (AAE) consensus motif; other site 667015001461 AMP binding site [chemical binding]; other site 667015001462 active site 667015001463 CoA binding site [chemical binding]; other site 667015001464 Predicted membrane protein [Function unknown]; Region: COG2246 667015001465 GtrA-like protein; Region: GtrA; pfam04138 667015001466 aspartyl-tRNA synthetase; Validated; Region: aspS; PRK00476 667015001467 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 667015001468 dimer interface [polypeptide binding]; other site 667015001469 anticodon binding site; other site 667015001470 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 667015001471 homodimer interface [polypeptide binding]; other site 667015001472 motif 1; other site 667015001473 active site 667015001474 motif 2; other site 667015001475 GAD domain; Region: GAD; pfam02938 667015001476 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 667015001477 motif 3; other site 667015001478 L,D-transpeptidase catalytic domain; Region: YkuD_2; pfam13645 667015001479 putative peptidase; Provisional; Region: PRK11649 667015001480 Peptidase family M23; Region: Peptidase_M23; pfam01551 667015001481 formate--tetrahydrofolate ligase; Provisional; Region: PRK13505 667015001482 Formyltetrahydrofolate synthetase (FTHFS) catalyzes the ATP-dependent activation of formate ion via its addition to the N10 position of tetrahydrofolate. FTHFS is a highly expressed key enzyme in both the Wood-Ljungdahl pathway of autotrophic CO2...; Region: FTHFS; cd00477 667015001483 Potassium binding sites [ion binding]; other site 667015001484 Cesium cation binding sites [ion binding]; other site 667015001485 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 667015001486 non-specific DNA binding site [nucleotide binding]; other site 667015001487 salt bridge; other site 667015001488 sequence-specific DNA binding site [nucleotide binding]; other site 667015001489 thioredoxin-disulfide reductase; Region: TRX_reduct; TIGR01292 667015001490 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 667015001491 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 667015001492 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 667015001493 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 667015001494 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 667015001495 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 667015001496 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 667015001497 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 667015001498 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 667015001499 Walker A/P-loop; other site 667015001500 ATP binding site [chemical binding]; other site 667015001501 Q-loop/lid; other site 667015001502 ABC transporter signature motif; other site 667015001503 Walker B; other site 667015001504 D-loop; other site 667015001505 H-loop/switch region; other site 667015001506 NlpC/P60 family; Region: NLPC_P60; pfam00877 667015001507 L,L-diaminopimelate aminotransferase; Validated; Region: PRK07590 667015001508 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 667015001509 pyridoxal 5'-phosphate binding site [chemical binding]; other site 667015001510 homodimer interface [polypeptide binding]; other site 667015001511 catalytic residue [active] 667015001512 Uncharacterized protein related to glutamine synthetase [General function prediction only]; Region: COG3968 667015001513 Glutamine synthetase type III N terminal; Region: GSIII_N; pfam12437 667015001514 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 667015001515 putative transporter; Validated; Region: PRK03818 667015001516 Predicted Permease Membrane Region; Region: Asp-Al_Ex; pfam06826 667015001517 TrkA-C domain; Region: TrkA_C; pfam02080 667015001518 TrkA-C domain; Region: TrkA_C; pfam02080 667015001519 Predicted Permease Membrane Region; Region: Asp-Al_Ex; cl06061 667015001520 Firmicute fructose-1,6-bisphosphatase; Region: FBPase_2; pfam06874 667015001521 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 667015001522 active site 667015001523 metal binding site [ion binding]; metal-binding site 667015001524 Transglutaminase-like superfamily; Region: Transglut_core; cl17362 667015001525 Glycosyl hydrolase families: GH43, GH62, GH32, GH68; Region: GH43_62_32_68; cl14647 667015001526 Beta-xylosidase [Carbohydrate transport and metabolism]; Region: XynB; COG3507 667015001527 active site 667015001528 glucosamine--fructose-6-phosphate aminotransferase; Reviewed; Region: PRK00331 667015001529 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 667015001530 glutaminase active site [active] 667015001531 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 667015001532 dimer interface [polypeptide binding]; other site 667015001533 active site 667015001534 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 667015001535 dimer interface [polypeptide binding]; other site 667015001536 active site 667015001537 Predicted SAM-dependent methyltransferases [General function prediction only]; Region: COG1092 667015001538 Middle domain of the SAM-dependent methyltransferase RlmI and related proteins; Region: RlmI_M_like; cd11572 667015001539 putative RNA binding site [nucleotide binding]; other site 667015001540 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 667015001541 S-adenosylmethionine binding site [chemical binding]; other site 667015001542 DEDDy 3'-5' exonuclease domain of WRN and similar proteins; Region: WRN_exo; cd06141 667015001543 catalytic site [active] 667015001544 putative active site [active] 667015001545 putative substrate binding site [chemical binding]; other site 667015001546 Domain of unknown function (DUF4117); Region: DUF4117; pfam13491 667015001547 DNA segregation ATPase FtsK/SpoIIIE and related proteins [Cell division and chromosome partitioning]; Region: FtsK; COG1674 667015001548 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 667015001549 This domain directs oriented DNA translocation and forms a winged helix structure; Region: Ftsk_gamma; smart00843 667015001550 Outer membrane lipoprotein-sorting protein [Cell envelope biogenesis, outer membrane]; Region: LolA; COG2834 667015001551 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 667015001552 Cna protein B-type domain; Region: Cna_B_2; pfam13715 667015001553 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 667015001554 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 667015001555 starch binding outer membrane protein SusD; Region: SusD; cl17845 667015001556 SusD family; Region: SusD; pfam07980 667015001557 Glycosyl hydrolase family 66; Region: Glyco_hydro_66; pfam13199 667015001558 Glycoside hydrolase 97; Region: Glyco_hydro_97; pfam10566 667015001559 Domain of unknown function (DUF4369); Region: DUF4369; pfam14289 667015001560 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 667015001561 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 667015001562 catalytic residues [active] 667015001563 AbgT putative transporter family; Region: ABG_transport; cl17431 667015001564 AbgT putative transporter family; Region: ABG_transport; cl17431 667015001565 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 667015001566 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 667015001567 active site 667015001568 phosphorylation site [posttranslational modification] 667015001569 intermolecular recognition site; other site 667015001570 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 667015001571 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 667015001572 ATP binding site [chemical binding]; other site 667015001573 Mg2+ binding site [ion binding]; other site 667015001574 G-X-G motif; other site 667015001575 GAF domain; Region: GAF_3; pfam13492 667015001576 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 667015001577 Histidine kinase-, DNA gyrase B-, and HSP90-like ATPase; Region: HATPase_c; pfam02518 667015001578 Co/Zn/Cd efflux system component [Inorganic ion transport and metabolism]; Region: CzcD; COG1230 667015001579 altronate oxidoreductase; Provisional; Region: PRK03643 667015001580 Mannitol dehydrogenase Rossmann domain; Region: Mannitol_dh; pfam01232 667015001581 Mannitol dehydrogenase C-terminal domain; Region: Mannitol_dh_C; pfam08125 667015001582 glucuronate isomerase; Reviewed; Region: PRK02925 667015001583 Glucuronate isomerase [Carbohydrate transport and metabolism]; Region: UxaC; COG1904 667015001584 Metal-dependent hydrolases of the beta-lactamase superfamily I [General function prediction only]; Region: PhnP; COG1235 667015001585 Transposase C of IS166 homeodomain; Region: LZ_Tnp_IS66; pfam13007 667015001586 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 667015001587 putative Helix-turn-helix domain of transposase IS66; Region: HTH_Tnp_IS66; pfam13005 667015001588 Transposase IS66 family; Region: DDE_Tnp_IS66; pfam03050 667015001589 IS66 C-terminal element; Region: DDE_Tnp_IS66_C; pfam13817 667015001590 IS66 Orf2 like protein; Region: TnpB_IS66; pfam05717 667015001591 Carbohydrate binding domain; Region: CBM_4_9; pfam02018 667015001592 Alpha-L-arabinofuranosidase [Carbohydrate transport and metabolism]; Region: AbfA; COG3534 667015001593 Alpha-L-arabinofuranosidase C-terminus; Region: Alpha-L-AF_C; pfam06964 667015001594 Alpha-L-arabinofuranosidase [Carbohydrate transport and metabolism]; Region: AbfA; COG3534 667015001595 Alpha-L-arabinofuranosidase C-terminus; Region: Alpha-L-AF_C; pfam06964 667015001596 L-ribulokinase-like proteins; a subfamily of the FGGY family of carbohydrate kinases; Region: FGGY_L-RBK_like; cd07778 667015001597 Sugar (pentulose and hexulose) kinases [Carbohydrate transport and metabolism]; Region: XylB; COG1070 667015001598 putative N- and C-terminal domain interface [polypeptide binding]; other site 667015001599 putative active site [active] 667015001600 MgATP binding site [chemical binding]; other site 667015001601 catalytic site [active] 667015001602 metal binding site [ion binding]; metal-binding site 667015001603 putative carbohydrate binding site [chemical binding]; other site 667015001604 L-arabinose isomerase; Provisional; Region: PRK02929 667015001605 L-fucose isomerase (FucIase) and L-arabinose isomerase (AI) family; composed of FucIase, AI and similar proteins. FucIase converts L-fucose, an aldohexose, to its ketose form, which prepares it for aldol cleavage (similar to the isomerization of glucose...; Region: L-fuc_L-ara-isomerases; cl00947 667015001606 hexamer (dimer of trimers) interface [polypeptide binding]; other site 667015001607 trimer interface [polypeptide binding]; other site 667015001608 substrate binding site [chemical binding]; other site 667015001609 Mn binding site [ion binding]; other site 667015001610 L-ribulose-5-phosphate 4-epimerase; Reviewed; Region: araD; PRK08193 667015001611 Class II Aldolase and Adducin head (N-terminal) domain. Aldolases are ubiquitous enzymes catalyzing central steps of carbohydrate metabolism. Based on enzymatic mechanisms, this superfamily has been divided into two distinct classes (Class I and II); Region: Aldolase_II; cd00398 667015001612 intersubunit interface [polypeptide binding]; other site 667015001613 active site 667015001614 Zn2+ binding site [ion binding]; other site 667015001615 Nudix hydrolase is a superfamily of enzymes found in all three kingdoms of life, and it catalyzes the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+...; Region: Nudix_Hydrolase; cd02883 667015001616 nudix motif; other site 667015001617 Uncharacterized conserved protein [General function prediction only]; Region: COG4111 667015001618 galactose mutarotase_like; Region: galactose_mutarotase_like; cd09019 667015001619 active site 667015001620 catalytic residues [active] 667015001621 Solute carrier families 5 and 6-like; solute binding domain; Region: SLC5-6-like_sbd; cl00456 667015001622 Na binding site [ion binding]; other site 667015001623 Pyridoxal kinase plays a key role in the synthesis of the active coenzyme pyridoxal-5'-phosphate (PLP), by catalyzing the phosphorylation of the precursor vitamin B6 in the presence of Zn2+ and ATP. Mammals are unable to synthesize PLP de novo and...; Region: pyridoxal_pyridoxamine_kinase; cd01173 667015001624 dimer interface [polypeptide binding]; other site 667015001625 pyridoxal binding site [chemical binding]; other site 667015001626 ATP binding site [chemical binding]; other site 667015001627 Helix-turn-helix domain; Region: HTH_18; pfam12833 667015001628 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 667015001629 SnoaL-like domain; Region: SnoaL_4; pfam13577 667015001630 Maltose O-acetyltransferase (MAT) and Galactoside O-acetyltransferase (GAT): MAT and GAT catalyze the CoA-dependent acetylation of the 6-hydroxyl group of their respective sugar substrates. MAT acetylates maltose and glucose exclusively at the C6...; Region: LbH_MAT_GAT; cd03357 667015001631 trimer interface [polypeptide binding]; other site 667015001632 Acetyltransferase (isoleucine patch superfamily) [General function prediction only]; Region: WbbJ; COG0110 667015001633 active site 667015001634 substrate binding site [chemical binding]; other site 667015001635 CoA binding site [chemical binding]; other site 667015001636 Hydrolases of the alpha/beta superfamily [General function prediction only]; Region: COG1073 667015001637 Carboxymuconolactone decarboxylase family; Region: CMD; pfam02627 667015001638 Uncharacterized homolog of gamma-carboxymuconolactone decarboxylase subunit [Function unknown]; Region: COG0599 667015001639 Zn-dependent alcohol dehydrogenases [General function prediction only]; Region: AdhP; COG1064 667015001640 Cinnamyl alcohol dehydrogenases (CAD); Region: CAD1; cd05283 667015001641 putative NAD(P) binding site [chemical binding]; other site 667015001642 putative substrate binding site [chemical binding]; other site 667015001643 catalytic Zn binding site [ion binding]; other site 667015001644 structural Zn binding site [ion binding]; other site 667015001645 dimer interface [polypeptide binding]; other site 667015001646 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 667015001647 short chain dehydrogenase; Provisional; Region: PRK06940 667015001648 classical (c) SDRs; Region: SDR_c; cd05233 667015001649 NAD(P) binding site [chemical binding]; other site 667015001650 active site 667015001651 Uncharacterized Fe-S center protein [General function prediction only]; Region: COG2768 667015001652 Uncharacterized conserved protein [Function unknown]; Region: COG2006 667015001653 Homo sapiens acid phosphatase 5 and related proteins, metallophosphatase domain; Region: MPP_ACP5; cd07378 667015001654 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 667015001655 active site 667015001656 metal binding site [ion binding]; metal-binding site 667015001657 Cna protein B-type domain; Region: Cna_B_2; pfam13715 667015001658 TonB-dependent receptor; Region: TonB-Xanth-Caul; TIGR01782 667015001659 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 667015001660 N-terminal plug; other site 667015001661 ligand-binding site [chemical binding]; other site 667015001662 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 667015001663 Transmembrane subunit (TM), of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters involved in the uptake of siderophores, heme, vitamin B12, or the divalent cations Mg2+ and Zn2+. PBP-dependent ABC transporters consist of...; Region: TM_ABC_iron-siderophores_like; cd06550 667015001664 ABC-ATPase subunit interface; other site 667015001665 dimer interface [polypeptide binding]; other site 667015001666 putative PBP binding regions; other site 667015001667 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 667015001668 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 667015001669 intersubunit interface [polypeptide binding]; other site 667015001670 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 667015001671 Multimeric flavodoxin WrbA [General function prediction only]; Region: WrbA; COG0655 667015001672 TSCPD domain; Region: TSCPD; cl14834 667015001673 Uncharacterized conserved protein [Function unknown]; Region: COG1284 667015001674 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 667015001675 Uncharacterized protein conserved in bacteria (DUF2179); Region: DUF2179; pfam10035 667015001676 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 667015001677 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 667015001678 ligand binding site [chemical binding]; other site 667015001679 flexible hinge region; other site 667015001680 tRNA delta(2)-isopentenylpyrophosphate transferase [Translation, ribosomal structure and biogenesis]; Region: MiaA; COG0324 667015001681 tRNA delta(2)-isopentenylpyrophosphate transferase; Reviewed; Region: miaA; PRK00091 667015001682 Sphingosine kinase and enzymes related to eukaryotic diacylglycerol kinase [Lipid metabolism / General function prediction only]; Region: LCB5; COG1597 667015001683 Diacylglycerol kinase catalytic domain; Region: DAGK_cat; pfam00781 667015001684 seryl-tRNA synthetase; Provisional; Region: PRK05431 667015001685 Seryl-tRNA synthetase N-terminal domain; Region: Seryl_tRNA_N; pfam02403 667015001686 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 667015001687 dimer interface [polypeptide binding]; other site 667015001688 active site 667015001689 motif 1; other site 667015001690 motif 2; other site 667015001691 motif 3; other site 667015001692 Glycogen debranching enzyme N terminal; Region: GDE_N; pfam12439 667015001693 glycogen debranching enzyme, archaeal type, putative; Region: gde_arch; TIGR01561 667015001694 Amylo-alpha-1,6-glucosidase; Region: GDE_C; pfam06202 667015001695 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 667015001696 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 667015001697 N-terminal catalytic domain of a thermoactive alpha-amylase from Methanococcus jannaschii and similar proteins; glycoside hydrolase family 57 (GH57); Region: GH57N_MJA1_like; cd10795 667015001698 Glycosyl hydrolase family 57; Region: Glyco_hydro_57; pfam03065 667015001699 putative active site [active] 667015001700 catalytic site [active] 667015001701 hypothetical protein; Provisional; Region: PRK12378 667015001702 phenylalanyl-tRNA synthetase subunit beta; Reviewed; Region: pheT; PRK00629 667015001703 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 667015001704 putative tRNA-binding site [nucleotide binding]; other site 667015001705 B3/4 domain; Region: B3_4; pfam03483 667015001706 tRNA synthetase B5 domain; Region: B5; smart00874 667015001707 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 667015001708 dimer interface [polypeptide binding]; other site 667015001709 motif 1; other site 667015001710 motif 3; other site 667015001711 motif 2; other site 667015001712 Ferredoxin-fold anticodon binding domain; Region: FDX-ACB; pfam03147 667015001713 Integral membrane protein possibly involved in chromosome condensation [Cell division and chromosome partitioning]; Region: CrcB; COG0239 667015001714 rRNA methylases [Translation, ribosomal structure and biogenesis]; Region: SpoU; COG0566 667015001715 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 667015001716 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 667015001717 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 667015001718 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 667015001719 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 667015001720 ABC-type Na+ transport system, ATPase component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatA; COG4555 667015001721 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 667015001722 Walker A/P-loop; other site 667015001723 ATP binding site [chemical binding]; other site 667015001724 Q-loop/lid; other site 667015001725 ABC transporter signature motif; other site 667015001726 Walker B; other site 667015001727 D-loop; other site 667015001728 H-loop/switch region; other site 667015001729 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 667015001730 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 667015001731 Walker A/P-loop; other site 667015001732 ATP binding site [chemical binding]; other site 667015001733 Q-loop/lid; other site 667015001734 ABC transporter signature motif; other site 667015001735 Walker B; other site 667015001736 D-loop; other site 667015001737 H-loop/switch region; other site 667015001738 putative efflux pump membrane fusion protein; Provisional; Region: PRK03598 667015001739 HlyD family secretion protein; Region: HlyD_3; pfam13437 667015001740 Outer membrane efflux protein; Region: OEP; pfam02321 667015001741 Outer membrane efflux protein; Region: OEP; pfam02321 667015001742 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 667015001743 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 667015001744 Predicted membrane protein [Function unknown]; Region: COG2860 667015001745 UPF0126 domain; Region: UPF0126; pfam03458 667015001746 UPF0126 domain; Region: UPF0126; pfam03458 667015001747 Protein of unknown function (DUF3078); Region: DUF3078; pfam11276 667015001748 CTP synthetase; Validated; Region: pyrG; PRK05380 667015001749 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 667015001750 Catalytic site [active] 667015001751 active site 667015001752 UTP binding site [chemical binding]; other site 667015001753 Type 1 glutamine amidotransferase (GATase1) domain found in Cytidine Triphosphate Synthetase; Region: GATase1_CTP_Synthase; cd01746 667015001754 active site 667015001755 putative oxyanion hole; other site 667015001756 catalytic triad [active] 667015001757 membrane protein insertase; Provisional; Region: PRK01318 667015001758 membrane protein insertase, YidC/Oxa1 family, C-terminal domain; Region: yidC_oxa1_cterm; TIGR03592 667015001759 peptide chain release factor 3; Provisional; Region: prfC; PRK00741 667015001760 Release Factor 3 (RF3) protein involved in the terminal step of translocation in bacteria; Region: RF3; cd04169 667015001761 G1 box; other site 667015001762 putative GEF interaction site [polypeptide binding]; other site 667015001763 GTP/Mg2+ binding site [chemical binding]; other site 667015001764 Switch I region; other site 667015001765 G2 box; other site 667015001766 G3 box; other site 667015001767 Switch II region; other site 667015001768 G4 box; other site 667015001769 G5 box; other site 667015001770 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 667015001771 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 667015001772 Helix-turn-helix domain; Region: HTH_18; pfam12833 667015001773 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 667015001774 phosphoribosylformylglycinamidine synthase; Provisional; Region: PRK05297 667015001775 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 667015001776 dimerization interface [polypeptide binding]; other site 667015001777 ATP binding site [chemical binding]; other site 667015001778 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 667015001779 dimerization interface [polypeptide binding]; other site 667015001780 ATP binding site [chemical binding]; other site 667015001781 Type 1 glutamine amidotransferase (GATase1)-like domain found in Formylglycinamide ribonucleotide amidotransferase; Region: GATase1_FGAR_AT; cd01740 667015001782 putative active site [active] 667015001783 catalytic triad [active] 667015001784 Y_Y_Y domain; Region: Y_Y_Y; pfam07495 667015001785 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 667015001786 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 667015001787 dimer interface [polypeptide binding]; other site 667015001788 phosphorylation site [posttranslational modification] 667015001789 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 667015001790 ATP binding site [chemical binding]; other site 667015001791 Mg2+ binding site [ion binding]; other site 667015001792 G-X-G motif; other site 667015001793 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 667015001794 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 667015001795 active site 667015001796 phosphorylation site [posttranslational modification] 667015001797 intermolecular recognition site; other site 667015001798 dimerization interface [polypeptide binding]; other site 667015001799 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 667015001800 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 667015001801 Chromate transporter; Region: Chromate_transp; pfam02417 667015001802 Chromate transporter; Region: Chromate_transp; pfam02417 667015001803 Domain of unknown function (DUF4293); Region: DUF4293; pfam14126 667015001804 RNA polymerase Rpb6; Region: RNA_pol_Rpb6; cl14651 667015001805 outer membrane assembly lipoprotein YfiO; Region: OM_YfiO; TIGR03302 667015001806 excinuclease ABC subunit B; Provisional; Region: PRK05298 667015001807 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 667015001808 ATP binding site [chemical binding]; other site 667015001809 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 667015001810 nucleotide binding region [chemical binding]; other site 667015001811 ATP-binding site [chemical binding]; other site 667015001812 Ultra-violet resistance protein B; Region: UvrB; pfam12344 667015001813 UvrB/uvrC motif; Region: UVR; pfam02151 667015001814 Na(+)-translocating NADH-quinone reductase subunit F; Provisional; Region: PRK05464 667015001815 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 667015001816 catalytic loop [active] 667015001817 iron binding site [ion binding]; other site 667015001818 Na+-translocating NADH:quinone oxidoreductase (Na+-NQR) FAD/NADH binding domain. (Na+-NQR) provides a means of storing redox reaction energy via the transmembrane translocation of Na2+ ions. The C-terminal domain resembles ferredoxin:NADP+ oxidoreductase; Region: NADH_quinone_reductase; cd06188 667015001819 FAD binding pocket [chemical binding]; other site 667015001820 FAD binding motif [chemical binding]; other site 667015001821 phosphate binding motif [ion binding]; other site 667015001822 beta-alpha-beta structure motif; other site 667015001823 NAD binding pocket [chemical binding]; other site 667015001824 Na(+)-translocating NADH-quinone reductase subunit E; Provisional; Region: PRK02830 667015001825 Na(+)-translocating NADH-quinone reductase subunit D; Validated; Region: PRK09292 667015001826 Na(+)-translocating NADH-quinone reductase subunit C; Provisional; Region: PRK05346 667015001827 NADH:ubiquinone oxidoreductase, Na(+)-translocating, C subunit; Region: nqrC; TIGR01938 667015001828 Na(+)-translocating NADH-quinone reductase subunit B; Provisional; Region: PRK05349 667015001829 Na(+)-translocating NADH-quinone reductase subunit A; Provisional; Region: PRK05352 667015001830 NQRA C-terminal domain; Region: NQRA_SLBB; pfam11973 667015001831 Predicted membrane protein [Function unknown]; Region: COG2311 667015001832 Protein of unknown function (DUF418); Region: DUF418; cl12135 667015001833 Protein of unknown function (DUF418); Region: DUF418; pfam04235 667015001834 Family of unknown function (DUF490); Region: DUF490; pfam04357 667015001835 Peptidylarginine deiminase and related enzymes [Amino acid transport and metabolism]; Region: COG2957; cl01113 667015001836 Porphyromonas-type peptidyl-arginine deiminase; Region: PAD_porph; pfam04371 667015001837 N-carbamoylputrescine amidohydrolase (CPA) (class 11 nitrilases); Region: CPA; cd07573 667015001838 N-carbamoylputrescine amidase; Region: agmatine_aguB; TIGR03381 667015001839 putative active site; other site 667015001840 catalytic triad [active] 667015001841 putative dimer interface [polypeptide binding]; other site 667015001842 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 667015001843 Ribokinase-like subgroup D. Found in bacteria and archaea, this subgroup is part of the ribokinase/pfkB superfamily. Its oligomerization state is unknown at this time; Region: ribokinase_group_D; cd01937 667015001844 substrate binding site [chemical binding]; other site 667015001845 ATP binding site [chemical binding]; other site 667015001846 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 667015001847 active site 667015001848 multimer interface [polypeptide binding]; other site 667015001849 Myo-inositol-1-phosphate synthase [Lipid metabolism]; Region: INO1; COG1260 667015001850 Myo-inositol-1-phosphate synthase; Region: NAD_binding_5; pfam07994 667015001851 Fucose permease [Carbohydrate transport and metabolism]; Region: FucP; COG0738 667015001852 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 667015001853 putative substrate translocation pore; other site 667015001854 Predicted hydrolase (HAD superfamily) [General function prediction only]; Region: COG1011 667015001855 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 667015001856 motif II; other site 667015001857 Uncharacterized protein family (UPF0104); Region: UPF0104; pfam03706 667015001858 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; pfam01066 667015001859 alpha-L-glutamate ligases, RimK family; Region: rimK_fam; TIGR00768 667015001860 Nucleoside-diphosphate-sugar pyrophosphorylase involved in lipopolysaccharide biosynthesis/translation initiation factor 2B, gamma/epsilon subunits (eIF-2Bgamma/eIF-2Bepsilon) [Cell envelope biogenesis, outer membrane / Translation, ribosomal structure...; Region: GCD1; COG1208 667015001861 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cl11394 667015001862 active site 667015001863 4-hydroxythreonine-4-phosphate dehydrogenase; Validated; Region: pdxA; PRK03743 667015001864 4-hydroxythreonine-4-phosphate dehydrogenase; Region: pdxA; TIGR00557 667015001865 ribosomal RNA large subunit methyltransferase N; Provisional; Region: PRK14466 667015001866 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 667015001867 FeS/SAM binding site; other site 667015001868 Peptidase C1B subfamily (MEROPS database nomenclature); composed of eukaryotic bleomycin hydrolases (BH) and bacterial aminopeptidases C (pepC). The proteins of this subfamily contain a large insert relative to the C1A peptidase (papain) subfamily. BH is...; Region: Peptidase_C1B; cd00585 667015001869 trimer interface [polypeptide binding]; other site 667015001870 active site 667015001871 G bulge; other site 667015001872 N-acetylmuramoyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: AmiC; COG0860 667015001873 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 667015001874 active site 667015001875 metal binding site [ion binding]; metal-binding site 667015001876 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 667015001877 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 667015001878 catalytic residues [active] 667015001879 methylmalonyl-CoA decarboxylase alpha subunit; Region: mmdA; TIGR01117 667015001880 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189; cl17682 667015001881 Acetyl-CoA carboxylase alpha subunit [Lipid metabolism]; Region: AccA; cl17345 667015001882 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 667015001883 carboxyltransferase (CT) interaction site; other site 667015001884 biotinylation site [posttranslational modification]; other site 667015001885 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK08591 667015001886 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 667015001887 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 667015001888 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; pfam02785 667015001889 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 667015001890 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cd00761 667015001891 active site 667015001892 GDP-L-galactose-hexose-1-phosphate guanyltransferase; Provisional; Region: PLN03103 667015001893 Stage II sporulation protein; Region: SpoIID; pfam08486 667015001894 SpoIID/LytB domain; Region: SpoIID_LytB; TIGR02669 667015001895 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 667015001896 FMN binding site [chemical binding]; other site 667015001897 dimer interface [polypeptide binding]; other site 667015001898 Formaldehyde dehydrogenases; Region: FDH_like; cd05278 667015001899 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 667015001900 catalytic Zn binding site [ion binding]; other site 667015001901 NAD(P) binding site [chemical binding]; other site 667015001902 structural Zn binding site [ion binding]; other site 667015001903 muropeptide transporter; Reviewed; Region: ampG; PRK11902 667015001904 muropeptide transporter; Validated; Region: ampG; cl17669 667015001905 conserved hypothetical protein (putative transposase or invertase); Region: T_den_put_tspse; TIGR01784 667015001906 PD-(D/E)XK nuclease family transposase; Region: PDDEXK_2; pfam12784 667015001907 Domain of unknown function (DUF1735); Region: DUF1735; pfam08522 667015001908 The GH18 (glycosyl hydrolase, family 18) type II chitinases hydrolyze chitin, an abundant polymer of beta-1,4-linked N-acetylglucosamine (GlcNAc) which is a major component of the cell wall of fungi and the exoskeleton of arthropods. Chitinases have...; Region: GH18_chitinase-like; cl10447 667015001909 active site 667015001910 Domain of unknown function (DUF1735); Region: DUF1735; pfam08522 667015001911 Concanavalin A-like lectin/glucanases superfamily; Region: Laminin_G_3; pfam13385 667015001912 intermolecular salt bridges; other site 667015001913 calcium mediated ligand binding site; other site 667015001914 Susd and RagB outer membrane lipoprotein; Region: SusD-like; pfam12741 667015001915 starch binding outer membrane protein SusD; Region: SusD; cd08977 667015001916 Secretin and TonB N terminus short domain; Region: STN; pfam07660 667015001917 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 667015001918 Cna protein B-type domain; Region: Cna_B_2; pfam13715 667015001919 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 667015001920 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 667015001921 RNA polymerase sigma-70 factor, Bacteroides expansion family 1; Region: Sig70_bacteroi1; TIGR02985 667015001922 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 667015001923 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 667015001924 DNA binding residues [nucleotide binding] 667015001925 Putative alpha-1,2-mannosidase [Carbohydrate transport and metabolism]; Region: COG3537 667015001926 Glycosyl hydrolase family 92; Region: Glyco_hydro_92; pfam07971 667015001927 Fe2+-dicitrate sensor, membrane component [Inorganic ion transport and metabolism / Signal transduction mechanisms]; Region: FecR; COG3712 667015001928 FecR protein; Region: FecR; pfam04773 667015001929 Putative alpha-1,2-mannosidase [Carbohydrate transport and metabolism]; Region: COG3537 667015001930 Glycosyl hydrolase family 92; Region: Glyco_hydro_92; pfam07971 667015001931 Putative alpha-1,2-mannosidase [Carbohydrate transport and metabolism]; Region: COG3537 667015001932 Glycosyl hydrolase family 92; Region: Glyco_hydro_92; pfam07971 667015001933 muropeptide transporter; Reviewed; Region: ampG; PRK11902 667015001934 muropeptide transporter; Validated; Region: ampG; cl17669 667015001935 Domain of unknown function (DUF377); Region: DUF377; pfam04041 667015001936 Glycosyl hydrolase families: GH43, GH62, GH32, GH68; Region: GH43_62_32_68; cl14647 667015001937 active site 667015001938 Putative alpha-1,2-mannosidase [Carbohydrate transport and metabolism]; Region: COG3537 667015001939 Glycosyl hydrolase family 92; Region: Glyco_hydro_92; pfam07971 667015001940 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvN; pfam07991 667015001941 ketol-acid reductoisomerase; Region: ilvC; TIGR00465 667015001942 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvC; pfam01450 667015001943 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 667015001944 active site 667015001945 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 667015001946 active site 2 [active] 667015001947 N-terminal ACT domain of the Escherichia coli IlvH-like regulatory subunit of acetohydroxyacid synthase (AHAS); Region: ACT_AHAS; cd04878 667015001948 acetolactate synthase, small subunit; Region: acolac_sm; TIGR00119 667015001949 putative valine binding site [chemical binding]; other site 667015001950 dimer interface [polypeptide binding]; other site 667015001951 Small subunit of acetolactate synthase; Region: ALS_ss_C; pfam10369 667015001952 acetolactate synthase, large subunit, biosynthetic type; Region: acolac_lg; TIGR00118 667015001953 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 667015001954 PYR/PP interface [polypeptide binding]; other site 667015001955 dimer interface [polypeptide binding]; other site 667015001956 TPP binding site [chemical binding]; other site 667015001957 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 667015001958 Thiamine pyrophosphate (TPP) family, Acetohydroxyacid synthase (AHAS) subfamily, TPP-binding module; composed of proteins similar to the large catalytic subunit of AHAS. AHAS catalyzes the condensation of two molecules of pyruvate to give the...; Region: TPP_AHAS; cd02015 667015001959 TPP-binding site [chemical binding]; other site 667015001960 dimer interface [polypeptide binding]; other site 667015001961 dihydroxy-acid dehydratase; Provisional; Region: PRK12448 667015001962 putative transposase OrfB; Reviewed; Region: PHA02517 667015001963 Integrase core domain; Region: rve; pfam00665 667015001964 Integrase core domain; Region: rve_3; pfam13683 667015001965 IclR helix-turn-helix domain; Region: HTH_IclR; cl17605 667015001966 Haloacid dehalogenase-like hydrolase; Region: HAD_2; pfam13419 667015001967 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 667015001968 motif II; other site 667015001969 maltose O-acetyltransferase; Provisional; Region: PRK10092 667015001970 Maltose O-acetyltransferase (MAT) and Galactoside O-acetyltransferase (GAT): MAT and GAT catalyze the CoA-dependent acetylation of the 6-hydroxyl group of their respective sugar substrates. MAT acetylates maltose and glucose exclusively at the C6...; Region: LbH_MAT_GAT; cd03357 667015001971 active site 667015001972 substrate binding site [chemical binding]; other site 667015001973 trimer interface [polypeptide binding]; other site 667015001974 CoA binding site [chemical binding]; other site 667015001975 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 667015001976 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 667015001977 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 667015001978 FKBP-type peptidyl-prolyl cis-trans isomerases 2 [Posttranslational modification, protein turnover, chaperones]; Region: SlpA; COG1047 667015001979 BadF/BadG/BcrA/BcrD ATPase family; Region: BcrAD_BadFG; cl17271 667015001980 replicative DNA helicase; Region: DnaB; TIGR00665 667015001981 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 667015001982 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 667015001983 Walker A motif; other site 667015001984 ATP binding site [chemical binding]; other site 667015001985 Walker B motif; other site 667015001986 DNA binding loops [nucleotide binding] 667015001987 NTP pyrophosphohydrolases containing a Zn-finger, probably nucleic-acid-binding [DNA replication, recombination, and repair]; Region: NPY1; COG2816 667015001988 NADH pyrophosphatase-like rudimentary NUDIX domain; Region: NUDIX-like; pfam09296 667015001989 NADH pyrophosphatase zinc ribbon domain; Region: zf-NADH-PPase; pfam09297 667015001990 NADH pyrophosphatase, a member of the Nudix hydrolase superfamily, catalyzes the cleavage of NADH into reduced nicotinamide mononucleotide (NMNH) and AMP. Like other members of the Nudix family, it requires a divalent cation, such as Mg2+ or Mn2+, for...; Region: NADH_pyrophosphatase; cd03429 667015001991 putative NADH binding site [chemical binding]; other site 667015001992 putative active site [active] 667015001993 nudix motif; other site 667015001994 putative metal binding site [ion binding]; other site 667015001995 Transcriptional accessory protein [Transcription]; Region: Tex; COG2183 667015001996 Tex-like protein N-terminal domain; Region: Tex_N; pfam09371 667015001997 Likely ribonuclease with RNase H fold; Region: YqgFc; smart00732 667015001998 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 667015001999 RNA binding site [nucleotide binding]; other site 667015002000 MerR HTH family regulatory protein; Region: MerR_2; pfam13591 667015002001 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 667015002002 chaperone protein DnaJ; Provisional; Region: PRK14299 667015002003 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 667015002004 HSP70 interaction site [polypeptide binding]; other site 667015002005 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 667015002006 substrate binding site [polypeptide binding]; other site 667015002007 dimer interface [polypeptide binding]; other site 667015002008 5'-nucleotidase/2',3'-cyclic phosphodiesterase and related esterases [Nucleotide transport and metabolism]; Region: UshA; COG0737 667015002009 Escherichia coli CpdB and related proteins, N-terminal metallophosphatase domain; Region: MPP_CpdB_N; cd07410 667015002010 active site 667015002011 metal binding site [ion binding]; metal-binding site 667015002012 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 667015002013 Bacillus subtilis YkuE and related proteins, C-terminal metallophosphatase domain; Region: MPP_YkuE_C; cd07385 667015002014 putative active site [active] 667015002015 putative metal binding site [ion binding]; other site 667015002016 Histidine kinase; Region: His_kinase; pfam06580 667015002017 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 667015002018 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 667015002019 active site 667015002020 phosphorylation site [posttranslational modification] 667015002021 intermolecular recognition site; other site 667015002022 dimerization interface [polypeptide binding]; other site 667015002023 LytTr DNA-binding domain; Region: LytTR; smart00850 667015002024 phosphoglucomutase-2-like protein; Provisional; Region: PTZ00150 667015002025 This CD includes PGM2 (phosphoglucomutase 2) and PGM2L1 (phosphoglucomutase 2-like 1). The mammalian PGM2 is thought to be a phosphopentomutase that catalyzes the conversion of the nucleoside breakdown products, ribose-1-phosphate and...; Region: PGM2; cd05799 667015002026 active site 667015002027 substrate binding site [chemical binding]; other site 667015002028 metal binding site [ion binding]; metal-binding site 667015002029 DNA-binding protein, histone-like, putative; Region: HU_rel; TIGR01201 667015002030 AsmA-like C-terminal region; Region: AsmA_2; pfam13502 667015002031 rod shape-determining protein MreB; Provisional; Region: PRK13930 667015002032 Catalytic NodB homology domain of the carbohydrate esterase 4 superfamily; Region: CE4_SF; cl15692 667015002033 Domain of unknown function (DUF389); Region: DUF389; pfam04087 667015002034 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cl02931 667015002035 ligand binding site [chemical binding]; other site 667015002036 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 667015002037 Domain of unknown function (DUF1848); Region: DUF1848; pfam08902 667015002038 Peptidase family C69; Region: Peptidase_C69; cl17793 667015002039 Peptidase family M23; Region: Peptidase_M23; pfam01551 667015002040 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 667015002041 Predicted membrane protein [Function unknown]; Region: COG2855 667015002042 Carbon starvation protein, predicted membrane protein [Signal transduction mechanisms]; Region: CstA; COG1966 667015002043 Carbon starvation protein CstA; Region: CstA; pfam02554 667015002044 C-terminal domain on CstA (DUF4161); Region: DUF4161; pfam13722 667015002045 ATP-dependent chaperone ClpB; Region: chaperone_ClpB; TIGR03346 667015002046 Clp amino terminal domain; Region: Clp_N; pfam02861 667015002047 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 667015002048 Walker A motif; other site 667015002049 ATP binding site [chemical binding]; other site 667015002050 Walker B motif; other site 667015002051 arginine finger; other site 667015002052 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 667015002053 Walker A motif; other site 667015002054 ATP binding site [chemical binding]; other site 667015002055 Walker B motif; other site 667015002056 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 667015002057 beta-D-glucoside glucohydrolase; Provisional; Region: PRK15098 667015002058 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; pfam00933 667015002059 Fibronectin type III-like domain; Region: Fn3-like; pfam14310 667015002060 Beta-galactosidase/beta-glucuronidase [Carbohydrate transport and metabolism]; Region: LacZ; COG3250 667015002061 Glycosyl hydrolases family 2, sugar binding domain; Region: Glyco_hydro_2_N; pfam02837 667015002062 Glycosyl hydrolases family 2; Region: Glyco_hydro_2; pfam00703 667015002063 Glycosyl hydrolases family 2, TIM barrel domain; Region: Glyco_hydro_2_C; pfam02836 667015002064 Galactose mutarotase-like; Region: Gal_mutarotas_2; pfam13802 667015002065 PA14 domain; Region: PA14; cl08459 667015002066 Alpha-glucosidases, family 31 of glycosyl hydrolases [Carbohydrate transport and metabolism]; Region: COG1501 667015002067 XylS is a glycosyl hydrolase family 31 (GH31) alpha-xylosidase found in prokaryotes, eukaryotes, and archaea, that catalyzes the release of alpha-xylose from the non-reducing terminal side of the alpha-xyloside substrate. XylS has been characterized in...; Region: GH31_xylosidase_XylS; cd06591 667015002068 putative active site [active] 667015002069 putative catalytic site [active] 667015002070 Predicted periplasmic ligand-binding sensor domain [Signal transduction mechanisms]; Region: COG3292 667015002071 Two component regulator propeller; Region: Reg_prop; pfam07494 667015002072 Two component regulator propeller; Region: Reg_prop; pfam07494 667015002073 Y_Y_Y domain; Region: Y_Y_Y; pfam07495 667015002074 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 667015002075 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 667015002076 dimer interface [polypeptide binding]; other site 667015002077 phosphorylation site [posttranslational modification] 667015002078 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 667015002079 ATP binding site [chemical binding]; other site 667015002080 Mg2+ binding site [ion binding]; other site 667015002081 G-X-G motif; other site 667015002082 Response regulator receiver domain; Region: Response_reg; pfam00072 667015002083 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 667015002084 active site 667015002085 phosphorylation site [posttranslational modification] 667015002086 intermolecular recognition site; other site 667015002087 dimerization interface [polypeptide binding]; other site 667015002088 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 667015002089 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 667015002090 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 667015002091 Fimbrillin-A associated anchor proteins Mfa1 and Mfa2; Region: Mfa2; pfam08842 667015002092 Bacteroidetes-Associated Carbohydrate-binding Often N-terminal; Region: BACON; pfam13004 667015002093 Bacteroidetes-Associated Carbohydrate-binding Often N-terminal; Region: BACON; pfam13004 667015002094 Cellulase (glycosyl hydrolase family 5); Region: Cellulase; pfam00150 667015002095 Starch-binding associating with outer membrane; Region: SusD-like_3; pfam14322 667015002096 starch binding outer membrane protein SusD; Region: SusD; cd08977 667015002097 SusD family; Region: SusD; pfam07980 667015002098 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 667015002099 Cna protein B-type domain; Region: Cna_B_2; pfam13715 667015002100 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 667015002101 TonB-dependent outer membrane receptor, SusC/RagA subfamily, signature region; Region: SusC_RagA_signa; TIGR04057 667015002102 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 667015002103 TonB dependent receptor; Region: TonB_dep_Rec; pfam00593 667015002104 SGNH_hydrolase subfamily. SGNH hydrolases are 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...; Region: SGNH_hydrolase_like_2; cd01834 667015002105 active site 667015002106 catalytic triad [active] 667015002107 oxyanion hole [active] 667015002108 Beta-xylosidase [Carbohydrate transport and metabolism]; Region: XynB; COG3507 667015002109 Glycosyl hydrolase family 43, beta-D-xylosidase; Region: GH43_XYL_1; cd09000 667015002110 inhibitor binding site; inhibition site 667015002111 active site 667015002112 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 667015002113 active site 667015002114 catalytic triad [active] 667015002115 oxyanion hole [active] 667015002116 beta-D-glucoside glucohydrolase; Provisional; Region: PRK15098 667015002117 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; pfam00933 667015002118 Fibronectin type III-like domain; Region: Fn3-like; pfam14310 667015002119 4-diphosphocytidyl-2-C-methyl-D-erythritol kinase; Provisional; Region: PRK14609 667015002120 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 667015002121 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 667015002122 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 667015002123 active site 667015002124 Part of AAA domain; Region: AAA_19; pfam13245 667015002125 putative recombination protein RecB; Provisional; Region: PRK13909 667015002126 UvrD-like helicase C-terminal domain; Region: UvrD_C; pfam13361 667015002127 Family description; Region: UvrD_C_2; pfam13538 667015002128 CRISPR/Cas system-associated protein Cas4; Region: Cas4_I-A_I-B_I-C_I-D_II-B; cl00641 667015002129 probable DNA repair protein; Region: TIGR03623 667015002130 PD-(D/E)XK nuclease superfamily; Region: PDDEXK_1; pfam12705 667015002131 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 667015002132 Sodium/hydrogen exchanger family; Region: Na_H_Exchanger; pfam00999 667015002133 TrkA-C domain; Region: TrkA_C; pfam02080 667015002134 membrane-bound proton-translocating pyrophosphatase; Validated; Region: hppA; PRK00733 667015002135 H(+) -translocating inorganic pyrophosphatase; Region: PLN02255; cl11452 667015002136 N-terminal ACT domain of a novel protein composed almost entirely of two tandem ACT domains; Region: ACT_Bt0572_1; cd04908 667015002137 C-terminal ACT domain of a novel protein composed of just two ACT domains; Region: ACT_Bt0572_2; cd04882 667015002138 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 667015002139 phenylacetate-CoA ligase; Region: PA_CoA_ligase; TIGR02155 667015002140 acyl-activating enzyme (AAE) consensus motif; other site 667015002141 AMP binding site [chemical binding]; other site 667015002142 active site 667015002143 CoA binding site [chemical binding]; other site 667015002144 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 667015002145 pyridoxal 5'-phosphate binding site [chemical binding]; other site 667015002146 homodimer interface [polypeptide binding]; other site 667015002147 catalytic residue [active] 667015002148 indolepyruvate oxidoreductase subunit beta; Reviewed; Region: PRK06853 667015002149 2-oxoglutarate ferredoxin oxidoreductase subunit gamma; Validated; Region: PRK08537 667015002150 2-ketoisovalerate ferredoxin reductase; Validated; Region: PRK07119 667015002151 Pyrimidine (PYR) binding domain of pyruvate ferredoxin oxidoreductase (PFOR), indolepyruvate ferredoxin oxidoreductase alpha subunit (IOR-alpha), and related proteins; Region: TPP_PYR_PFOR_IOR-alpha_like; cd07034 667015002152 dimer interface [polypeptide binding]; other site 667015002153 PYR/PP interface [polypeptide binding]; other site 667015002154 TPP binding site [chemical binding]; other site 667015002155 substrate binding site [chemical binding]; other site 667015002156 Thiamine pyrophosphate (TPP) family, IOR-alpha subfamily, TPP-binding module; composed of proteins similar to indolepyruvate ferredoxin oxidoreductase (IOR) alpha subunit. IOR catalyzes the oxidative decarboxylation of arylpyruvates, such as...; Region: TPP_IOR_alpha; cd02008 667015002157 TPP-binding site; other site 667015002158 C-N hydrolase family amidase; Provisional; Region: PRK10438 667015002159 Xanthomonas campestris XC1258 and related proteins, members of the nitrilase superfamily (putative class 13 nitrilases); Region: Xc-1258_like; cd07575 667015002160 putative active site [active] 667015002161 catalytic triad [active] 667015002162 dimer interface [polypeptide binding]; other site 667015002163 multimer interface [polypeptide binding]; other site 667015002164 YceG-like family; Region: YceG; pfam02618 667015002165 proteins similar to Escherichia coli yceG; Region: yceG_like; cd08010 667015002166 dimerization interface [polypeptide binding]; other site 667015002167 Capsule assembly protein Wzi; Region: Caps_assemb_Wzi; pfam14052 667015002168 Transketolase [Carbohydrate transport and metabolism]; Region: TktA; COG0021 667015002169 Thiamine pyrophosphate (TPP) family, Transketolase (TK) subfamily, TPP-binding module; TK catalyzes the transfer of a two-carbon unit from ketose phosphates to aldose phosphates. In heterotrophic organisms, TK provides a link between glycolysis and the...; Region: TPP_TK; cd02012 667015002170 TPP-binding site [chemical binding]; other site 667015002171 dimer interface [polypeptide binding]; other site 667015002172 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 667015002173 PYR/PP interface [polypeptide binding]; other site 667015002174 dimer interface [polypeptide binding]; other site 667015002175 TPP binding site [chemical binding]; other site 667015002176 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 667015002177 Ribose/Galactose Isomerase; Region: LacAB_rpiB; pfam02502 667015002178 Uncharacterized proteins similar to Bacteroides ovatus 4320; Region: Bacova_04320_like; cd12190 667015002179 Probable polygalacturonase At3g15720; Region: PLN03003; cl14103 667015002180 Pectate lyase superfamily protein; Region: Pectate_lyase_3; pfam12708 667015002181 ABC transporter ATP-binding protein; Provisional; Region: PRK15064 667015002182 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 667015002183 Walker A/P-loop; other site 667015002184 ATP binding site [chemical binding]; other site 667015002185 Q-loop/lid; other site 667015002186 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 667015002187 ABC transporter; Region: ABC_tran_2; pfam12848 667015002188 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 667015002189 GrpE; Region: GrpE; pfam01025 667015002190 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 667015002191 dimer interface [polypeptide binding]; other site 667015002192 hsp70 (ATPase domain) interactions [polypeptide binding]; other site 667015002193 chaperone protein DnaJ; Provisional; Region: PRK14289 667015002194 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 667015002195 HSP70 interaction site [polypeptide binding]; other site 667015002196 Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cd10719 667015002197 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 667015002198 dimer interface [polypeptide binding]; other site 667015002199 folylpolyglutamate synthase/dihydrofolate synthase; Region: folC; TIGR01499 667015002200 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 667015002201 galactose mutarotase_like; Region: galactose_mutarotase_like; cd09019 667015002202 active site 667015002203 catalytic residues [active] 667015002204 L-fucose transporter; Provisional; Region: PRK10133; cl17665 667015002205 Galactokinase galactose-binding signature; Region: GalKase_gal_bdg; pfam10509 667015002206 Galactokinase [Carbohydrate transport and metabolism]; Region: GalK; COG0153 667015002207 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 667015002208 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 667015002209 Helix-turn-helix domain; Region: HTH_18; pfam12833 667015002210 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 667015002211 lipoprotein releasing system, transmembrane protein, LolC/E family; Region: lolCE; TIGR02212 667015002212 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 667015002213 FtsX-like permease family; Region: FtsX; pfam02687 667015002214 aspartate aminotransferase; Provisional; Region: PRK07568 667015002215 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 667015002216 pyridoxal 5'-phosphate binding site [chemical binding]; other site 667015002217 homodimer interface [polypeptide binding]; other site 667015002218 catalytic residue [active] 667015002219 L-fucose isomerase (FucIase) and L-arabinose isomerase (AI) family; composed of FucIase, AI and similar proteins. FucIase converts L-fucose, an aldohexose, to its ketose form, which prepares it for aldol cleavage (similar to the isomerization of glucose...; Region: L-fuc_L-ara-isomerases; cl00947 667015002220 trimer interface [polypeptide binding]; other site 667015002221 hexamer (dimer of trimers) interface [polypeptide binding]; other site 667015002222 Mn binding site [ion binding]; other site 667015002223 substrate binding site [chemical binding]; other site 667015002224 Transposase C of IS166 homeodomain; Region: LZ_Tnp_IS66; pfam13007 667015002225 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 667015002226 putative Helix-turn-helix domain of transposase IS66; Region: HTH_Tnp_IS66; pfam13005 667015002227 Transposase IS66 family; Region: DDE_Tnp_IS66; pfam03050 667015002228 IS66 C-terminal element; Region: DDE_Tnp_IS66_C; pfam13817 667015002229 IS66 Orf2 like protein; Region: TnpB_IS66; pfam05717 667015002230 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 667015002231 multiple promoter invertase; Provisional; Region: mpi; PRK13413 667015002232 catalytic residues [active] 667015002233 catalytic nucleophile [active] 667015002234 Presynaptic Site I dimer interface [polypeptide binding]; other site 667015002235 Synaptic Antiparallel dimer interface [polypeptide binding]; other site 667015002236 Synaptic Flat tetramer interface [polypeptide binding]; other site 667015002237 Synaptic Site I dimer interface [polypeptide binding]; other site 667015002238 DNA binding site [nucleotide binding] 667015002239 Homeodomain-like domain; Region: HTH_23; pfam13384 667015002240 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; pfam13505 667015002241 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, YBL036c-like proteins; Region: PLPDE_III_YBL036c_like; cd00635 667015002242 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 667015002243 catalytic residue [active] 667015002244 dihydroorotate dehydrogenase 2; Reviewed; Region: PRK07565 667015002245 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 667015002246 phosphate binding site [ion binding]; other site 667015002247 Long-chain acyl-CoA synthetases (AMP-forming) [Lipid metabolism]; Region: FAA1; COG1022 667015002248 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 667015002249 Long-chain fatty acid CoA synthetases and Bubblegum-like very long-chain fatty acid CoA synthetases; Region: VL_LC_FACS_like; cd05907 667015002250 acyl-activating enzyme (AAE) consensus motif; other site 667015002251 acyl-activating enzyme (AAE) consensus motif; other site 667015002252 putative AMP binding site [chemical binding]; other site 667015002253 putative active site [active] 667015002254 putative CoA binding site [chemical binding]; other site 667015002255 Type 1 glutamine amidotransferase (GATase1) domain found in imidazole glycerol phosphate synthase (IGPS); Region: GATase1_IGP_Synthase; cd01748 667015002256 imidazole glycerol phosphate synthase subunit HisH; Provisional; Region: hisH; PRK13181 667015002257 putative active site [active] 667015002258 oxyanion strand; other site 667015002259 catalytic triad [active] 667015002260 HisA. Phosphoribosylformimino-5-aminoimidazole carboxamide ribonucleotide (ProFAR) isomerase catalyzes the fourth step in histidine biosynthesis, an isomerisation of the aminoaldose moiety of ProFAR to the aminoketose of PRFAR (N-(5'-phospho-D-1...; Region: HisA; cd04732 667015002261 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 667015002262 catalytic residues [active] 667015002263 The cyclase subunit of imidazoleglycerol phosphate synthase (HisF). Imidazole glycerol phosphate synthase (IGPS) catalyzes the fifth step of histidine biosynthesis, the formation of the imidazole ring. IGPS converts N1-(5'-phosphoribulosyl)...; Region: HisF; cd04731 667015002264 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 667015002265 substrate binding site [chemical binding]; other site 667015002266 glutamase interaction surface [polypeptide binding]; other site 667015002267 bifunctional phosphoribosyl-AMP cyclohydrolase/phosphoribosyl-ATP pyrophosphatase protein; Reviewed; Region: PRK02759 667015002268 Phosphoribosyl-AMP cyclohydrolase [Amino acid transport and metabolism]; Region: HisI; COG0139 667015002269 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) MazG-like domain found in Escherichia coli phosphoribosyl-ATP pyrophosphohydrolase (HisIE or PRATP-PH) and its homologs; Region: NTP-PPase_HisIE_like; cd11534 667015002270 metal binding site [ion binding]; metal-binding site 667015002271 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 667015002272 Predicted ATPase involved in cell division [Cell division and chromosome partitioning]; Region: FtsE; COG2884 667015002273 Walker A/P-loop; other site 667015002274 ATP binding site [chemical binding]; other site 667015002275 Q-loop/lid; other site 667015002276 ABC transporter signature motif; other site 667015002277 Walker B; other site 667015002278 D-loop; other site 667015002279 H-loop/switch region; other site 667015002280 aspartate kinase III; Validated; Region: PRK09084 667015002281 AAK_AK-HSDH-like: Amino Acid Kinase Superfamily (AAK), AK-HSDH-like; this family includes the N-terminal catalytic domain of aspartokinase (AK) of the bifunctional enzyme AK- homoserine dehydrogenase (HSDH). These aspartokinases are found in such...; Region: AAK_AK-HSDH-like; cd04243 667015002282 putative catalytic residues [active] 667015002283 nucleotide binding site [chemical binding]; other site 667015002284 aspartate binding site [chemical binding]; other site 667015002285 ACT domains located C-terminal to the catalytic domain of the lysine-sensitive aspartokinase isoenzyme AKIII; Region: ACT_AKiii-LysC-EC-like_1; cd04912 667015002286 dimer interface [polypeptide binding]; other site 667015002287 allosteric regulatory binding pocket; other site 667015002288 ACT domains located C-terminal to the catalytic domain of the lysine-sensitive aspartokinase isoenzyme AKIII; Region: ACT_AKiii-LysC-EC_2; cd04917 667015002289 dimer interface [polypeptide binding]; other site 667015002290 Diaminopimelate decarboxylase [Amino acid transport and metabolism]; Region: LysA; COG0019 667015002291 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Diaminopimelate Decarboxylase; Region: PLPDE_III_DapDC; cd06828 667015002292 active site 667015002293 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 667015002294 substrate binding site [chemical binding]; other site 667015002295 catalytic residues [active] 667015002296 dimer interface [polypeptide binding]; other site 667015002297 valyl-tRNA synthetase; Reviewed; Region: valS; PRK05729 667015002298 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 667015002299 active site 667015002300 HIGH motif; other site 667015002301 nucleotide binding site [chemical binding]; other site 667015002302 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 667015002303 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 667015002304 active site 667015002305 KMSKS motif; other site 667015002306 Anticodon-binding domain of valyl tRNA synthetases; Region: Anticodon_Ia_Val; cd07962 667015002307 tRNA binding surface [nucleotide binding]; other site 667015002308 anticodon binding site; other site 667015002309 Valyl tRNA synthetase tRNA binding arm; Region: Val_tRNA-synt_C; pfam10458 667015002310 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 667015002311 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 667015002312 active site 667015002313 catalytic tetrad [active] 667015002314 Hydrolases of the alpha/beta superfamily [General function prediction only]; Region: COG1073 667015002315 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 667015002316 Multimeric flavodoxin WrbA [General function prediction only]; Region: WrbA; COG0655 667015002317 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 667015002318 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 667015002319 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 667015002320 active site 667015002321 catalytic tetrad [active] 667015002322 Maltose O-acyltransferase (MAT)-like: This family is composed of maltose O-acetyltransferase, galactoside O-acetyltransferase (GAT), xenobiotic acyltransferase (XAT) and similar proteins. MAT and GAT catalyze the CoA-dependent acetylation of the...; Region: LbH_MAT_like; cd04647 667015002323 trimer interface [polypeptide binding]; other site 667015002324 active site 667015002325 substrate binding site [chemical binding]; other site 667015002326 CoA binding site [chemical binding]; other site 667015002327 Maltose O-acetyltransferase (MAT) and Galactoside O-acetyltransferase (GAT): MAT and GAT catalyze the CoA-dependent acetylation of the 6-hydroxyl group of their respective sugar substrates. MAT acetylates maltose and glucose exclusively at the C6...; Region: LbH_MAT_GAT; cd03357 667015002328 Acetyltransferase (isoleucine patch superfamily) [General function prediction only]; Region: WbbJ; COG0110 667015002329 trimer interface [polypeptide binding]; other site 667015002330 active site 667015002331 substrate binding site [chemical binding]; other site 667015002332 CoA binding site [chemical binding]; other site 667015002333 Predicted Zn-dependent hydrolases of the beta-lactamase fold [General function prediction only]; Region: COG2220 667015002334 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 667015002335 Tetratricopeptide repeat; Region: TPR_12; pfam13424 667015002336 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 667015002337 C-terminal processing peptidase-like; serine protease family S41; Region: Peptidase_S41_CPP_like; cd07561 667015002338 Catalytic dyad [active] 667015002339 NAD synthetase; Reviewed; Region: nadE; PRK02628 667015002340 Glutamine aminotransferase (GAT, glutaminase) domain of glutamine-dependent NAD synthetases (class 7 and 8 nitrilases); Region: GAT_Gln-NAD-synth; cd07570 667015002341 multimer interface [polypeptide binding]; other site 667015002342 active site 667015002343 catalytic triad [active] 667015002344 protein interface 1 [polypeptide binding]; other site 667015002345 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 667015002346 homodimer interface [polypeptide binding]; other site 667015002347 NAD binding pocket [chemical binding]; other site 667015002348 ATP binding pocket [chemical binding]; other site 667015002349 Mg binding site [ion binding]; other site 667015002350 active-site loop [active] 667015002351 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 667015002352 metal binding site 2 [ion binding]; metal-binding site 667015002353 putative DNA binding helix; other site 667015002354 metal binding site 1 [ion binding]; metal-binding site 667015002355 dimer interface [polypeptide binding]; other site 667015002356 structural Zn2+ binding site [ion binding]; other site 667015002357 Rubredoxin, Small Modular nonheme iron binding domain containing a [Fe(SCys)4] center, present in rubrerythrin and nigerythrin and detected either N- or C-terminal to such proteins as flavin reductase, NAD(P)H-nitrite reductase, and...; Region: rubredoxin_SM; cd00729 667015002358 Rubredoxin; Region: Rubredoxin; pfam00301 667015002359 iron binding site [ion binding]; other site 667015002360 rubrerythrin-like, diiron-binding domain; Region: Rubrerythrin_like; cd01046 667015002361 Rubrerythrin [Energy production and conversion]; Region: COG1592 667015002362 diiron binding motif [ion binding]; other site 667015002363 30S ribosomal protein S1; Reviewed; Region: rpsA; PRK06299 667015002364 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 667015002365 RNA binding site [nucleotide binding]; other site 667015002366 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 667015002367 RNA binding site [nucleotide binding]; other site 667015002368 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 667015002369 RNA binding site [nucleotide binding]; other site 667015002370 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 667015002371 RNA binding site [nucleotide binding]; other site 667015002372 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 667015002373 RNA binding site [nucleotide binding]; other site 667015002374 Ribosomal protein S1-like RNA-binding domain; Region: S1; smart00316 667015002375 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2859 667015002376 Outer membrane cobalamin receptor protein [Coenzyme metabolism]; Region: BtuB; COG4206 667015002377 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 667015002378 N-terminal plug; other site 667015002379 ligand-binding site [chemical binding]; other site 667015002380 Domain of unknown function (DUF362); Region: DUF362; pfam04015 667015002381 Putative GTPases (G3E family) [General function prediction only]; Region: COG0523 667015002382 CobW/HypB/UreG, nucleotide-binding domain; Region: cobW; pfam02492 667015002383 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; pfam07683 667015002384 YihA (EngB) GTPase family; Region: YihA_EngB; cd01876 667015002385 G1 box; other site 667015002386 GTP/Mg2+ binding site [chemical binding]; other site 667015002387 Switch I region; other site 667015002388 G2 box; other site 667015002389 G3 box; other site 667015002390 Switch II region; other site 667015002391 G4 box; other site 667015002392 G5 box; other site 667015002393 Protein of unknown function, DUF608; Region: DUF608; pfam04685 667015002394 Glycosyl Hydrolase Family 88; Region: Glyco_hydro_88; pfam07470 667015002395 Glycoside hydrolase 97; Region: Glyco_hydro_97; pfam10566 667015002396 Predicted phosphohydrolases [General function prediction only]; Region: Icc; COG1409 667015002397 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 667015002398 active site 667015002399 metal binding site [ion binding]; metal-binding site 667015002400 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cd00838 667015002401 ribosomal protein L11 methyltransferase; Reviewed; Region: prmA; PRK00517 667015002402 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 667015002403 S-adenosylmethionine binding site [chemical binding]; other site 667015002404 hypothetical protein; Provisional; Region: PRK11770 667015002405 Domain of unknown function (DUF307); Region: DUF307; pfam03733 667015002406 Domain of unknown function (DUF307); Region: DUF307; pfam03733 667015002407 YegX is an uncharacterized bacterial protein with a glycosyl hydrolase family 25 (GH25) catalytic domain that is similar in sequence to the CH-type (Chalaropsis-type) lysozymes of the GH25 family of endolysins; Region: GH25_YegX-like; cd06524 667015002408 active site 667015002409 Glycosyl hydrolases family 25; Region: Glyco_hydro_25; pfam01183 667015002410 diphosphate--fructose-6-phosphate 1-phosphotransferase; Provisional; Region: PRK07085 667015002411 pyrophosphate-dependent phosphofructokinase; Region: PLN02251 667015002412 active site 667015002413 ADP/pyrophosphate binding site [chemical binding]; other site 667015002414 dimerization interface [polypeptide binding]; other site 667015002415 allosteric effector site; other site 667015002416 fructose-1,6-bisphosphate binding site; other site 667015002417 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: Unknown ABO13168; Region: LPLAT_ABO13168-like; cd07988 667015002418 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 667015002419 putative acyl-acceptor binding pocket; other site 667015002420 Carbohydrate Binding Module 6 (CBM6); appended to several carbohydrate binding enzymes, including several glycoside hydrolase (GH) family 26 mannanase domains; Region: CBM6_mannanase-like; cd04086 667015002421 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; cl02713 667015002422 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 667015002423 Interdomain contacts; other site 667015002424 Cytokine receptor motif; other site 667015002425 This family contains NADPH-dependent flavin reductase and oxygen-insensitive nitroreductase. These enzymes are homodimeric flavoproteins that contain one FMN per monomer as a cofactor. Flavin reductase catalyzes the reduction of flavin by using NADPH as...; Region: NfsA_FRP; cd02146 667015002426 dimer interface [polypeptide binding]; other site 667015002427 FMN binding site [chemical binding]; other site 667015002428 NADPH bind site [chemical binding]; other site 667015002429 Metal-dependent hydrolases of the beta-lactamase superfamily I [General function prediction only]; Region: PhnP; COG1235 667015002430 putative hydrolase; Provisional; Region: PRK02113 667015002431 UDP-N-acetylenolpyruvoylglucosamine reductase; Provisional; Region: murB; PRK00046 667015002432 FAD binding domain; Region: FAD_binding_4; pfam01565 667015002433 UDP-N-acetylenolpyruvoylglucosamine reductase, C-terminal domain; Region: MurB_C; pfam02873 667015002434 Domain of unknown function (DUF4348); Region: DUF4348; pfam14254 667015002435 phenylalanyl-tRNA synthetase subunit alpha; Validated; Region: pheS; PRK00488 667015002436 Aminoacyl tRNA synthetase class II, N-terminal domain; Region: Phe_tRNA-synt_N; pfam02912 667015002437 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 667015002438 dimer interface [polypeptide binding]; other site 667015002439 motif 1; other site 667015002440 active site 667015002441 motif 2; other site 667015002442 motif 3; other site 667015002443 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 667015002444 Major Facilitator Superfamily; Region: MFS_1; pfam07690 667015002445 putative substrate translocation pore; other site 667015002446 Bacterial capsule synthesis protein PGA_cap; Region: PGA_cap; smart00854 667015002447 CapA and related proteins, metallophosphatase domain; Region: MPP_CapA; cd07381 667015002448 putative active site [active] 667015002449 putative metal binding site [ion binding]; other site 667015002450 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional; Region: PRK14185 667015002451 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 667015002452 NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080 667015002453 homodimer interface [polypeptide binding]; other site 667015002454 NADP binding site [chemical binding]; other site 667015002455 substrate binding site [chemical binding]; other site 667015002456 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 667015002457 Subfamily of Glycosyltransferase Family GT2 of unknown function; Region: GT_2_like_c; cd04186 667015002458 Probable Catalytic site; other site 667015002459 metal-binding site 667015002460 MiaB-like tRNA modifying enzyme; Region: MiaB-like-C; TIGR01579 667015002461 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 667015002462 Radical SAM superfamily. Enzymes of this family generate radicals by combining a 4Fe-4S cluster and S-adenosylmethionine (SAM) in close proximity. They are characterized by a conserved CxxxCxxC motif, which coordinates the conserved iron-sulfur cluster; Region: Radical_SAM; cl15377 667015002463 FeS/SAM binding site; other site 667015002464 Fimbrillin-A associated anchor proteins Mfa1 and Mfa2; Region: Mfa2; pfam08842 667015002465 Domain of unknown function, B. Theta Gene description (DUF3868); Region: DUF3868; pfam12984 667015002466 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cl02931 667015002467 ligand binding site [chemical binding]; other site 667015002468 Protein of unknown function (DUF3575); Region: DUF3575; pfam12099 667015002469 50S ribosomal protein L9; Reviewed; Region: rplI; PRK00137 667015002470 Ribosomal protein L9, N-terminal domain; Region: Ribosomal_L9_N; pfam01281 667015002471 Ribosomal protein L9, C-terminal domain; Region: Ribosomal_L9_C; pfam03948 667015002472 30S ribosomal protein S18; Reviewed; Region: rpsR; PRK00391 667015002473 30S ribosomal protein S6; Reviewed; Region: rpsF; PRK00453 667015002474 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 667015002475 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 667015002476 active site 667015002477 phosphorylation site [posttranslational modification] 667015002478 intermolecular recognition site; other site 667015002479 dimerization interface [polypeptide binding]; other site 667015002480 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 667015002481 DNA binding site [nucleotide binding] 667015002482 Predicted signal transduction protein with a C-terminal ATPase domain [Signal transduction mechanisms]; Region: COG2972 667015002483 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 667015002484 dimer interface [polypeptide binding]; other site 667015002485 phosphorylation site [posttranslational modification] 667015002486 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 667015002487 ATP binding site [chemical binding]; other site 667015002488 Mg2+ binding site [ion binding]; other site 667015002489 G-X-G motif; other site 667015002490 Elongation factor G (EF-G) family; Region: EF-G_bact; cd04170 667015002491 elongation factor G; Reviewed; Region: PRK12740 667015002492 G1 box; other site 667015002493 putative GEF interaction site [polypeptide binding]; other site 667015002494 GTP/Mg2+ binding site [chemical binding]; other site 667015002495 Switch I region; other site 667015002496 G2 box; other site 667015002497 G3 box; other site 667015002498 Switch II region; other site 667015002499 G4 box; other site 667015002500 G5 box; other site 667015002501 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 667015002502 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 667015002503 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 667015002504 Na+/H+ antiporter [Energy production and conversion]; Region: NhaC; COG1757 667015002505 TPR repeat; Region: TPR_11; pfam13414 667015002506 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 667015002507 binding surface 667015002508 TPR motif; other site 667015002509 Na(+)/iodide (NIS) and Na(+)/multivitamin (SMVT) cotransporters, and related proteins; solute binding domain; Region: SLC5sbd_NIS-like; cd10326 667015002510 Na binding site [ion binding]; other site 667015002511 Protein of unknown function (DUF1044); Region: DUF1044; cl01955 667015002512 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 667015002513 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 667015002514 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 667015002515 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 667015002516 dimer interface [polypeptide binding]; other site 667015002517 phosphorylation site [posttranslational modification] 667015002518 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 667015002519 ATP binding site [chemical binding]; other site 667015002520 Mg2+ binding site [ion binding]; other site 667015002521 G-X-G motif; other site 667015002522 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 667015002523 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 667015002524 active site 667015002525 phosphorylation site [posttranslational modification] 667015002526 intermolecular recognition site; other site 667015002527 dimerization interface [polypeptide binding]; other site 667015002528 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 667015002529 DNA binding site [nucleotide binding] 667015002530 recombination protein RecR; Reviewed; Region: recR; PRK00076 667015002531 RecR protein; Region: RecR; pfam02132 667015002532 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 667015002533 putative active site [active] 667015002534 putative metal-binding site [ion binding]; other site 667015002535 tetramer interface [polypeptide binding]; other site 667015002536 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 667015002537 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 667015002538 Uncharacterized ACR, COG1678; Region: DUF179; pfam02622 667015002539 Tn4399 and related integrases, DNA breaking-rejoining enzymes, integrase/recombinases, N- and C-terminal domains. This CD includes various bacterial integrases, including cLV25, a Bacteroides fragilis chromosomal transfer factor integrase similar to the...; Region: INT_Tn4399; cd01185 667015002540 tyrosine recombinase XerC; Region: recomb_XerC; TIGR02224 667015002541 Int/Topo IB signature motif; other site 667015002542 Helix-turn-helix domain; Region: HTH_17; pfam12728 667015002543 Helix-turn-helix domain; Region: HTH_17; pfam12728 667015002544 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 667015002545 active site 667015002546 Transposase DDE domain; Region: DDE_Tnp_1_3; pfam13612 667015002547 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 667015002548 Transposase DDE domain; Region: DDE_Tnp_1_3; pfam13612 667015002549 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 667015002550 IS66 Orf2 like protein; Region: TnpB_IS66; pfam05717 667015002551 Transposase C of IS166 homeodomain; Region: LZ_Tnp_IS66; pfam13007 667015002552 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 667015002553 putative Helix-turn-helix domain of transposase IS66; Region: HTH_Tnp_IS66; pfam13005 667015002554 Transposase IS66 family; Region: DDE_Tnp_IS66; pfam03050 667015002555 IS66 C-terminal element; Region: DDE_Tnp_IS66_C; pfam13817 667015002556 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 667015002557 RHS Repeat; Region: RHS_repeat; cl11982 667015002558 RHS Repeat; Region: RHS_repeat; cl11982 667015002559 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 667015002560 RHS Repeat; Region: RHS_repeat; pfam05593 667015002561 RHS Repeat; Region: RHS_repeat; cl11982 667015002562 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 667015002563 Helix-turn-helix domain; Region: HTH_17; pfam12728 667015002564 PRTRC system ThiF family protein; Region: PRTRC_ThiF; TIGR03736 667015002565 Superfamily of activating enzymes (E1) of the ubiquitin-like proteins. This family includes classical ubiquitin-activating enzymes E1, ubiquitin-like (ubl) activating enzymes and other mechanistic homologes, like MoeB, Thif1 and others. The common...; Region: E1_enzyme_family; cd01483 667015002566 ATP binding site [chemical binding]; other site 667015002567 substrate interface [chemical binding]; other site 667015002568 Prokaryotic E2 family D; Region: Prok-E2_D; cl14019 667015002569 Prokaryotic Ubiquitin; Region: Prok_Ub; cl14020 667015002570 PRTRC system protein E; Region: PRTRC_E; TIGR03741 667015002571 DNA topoisomerase III; Provisional; Region: PRK07726 667015002572 TOPRIM_TopoIA_TopoIII: The topoisomerase-primase (TORPIM) domain found in members of the type IA family of DNA topoisomerases (Topo IA) similar to topoisomerase III. Type IA DNA topoisomerases remove (relax) negative supercoils in the DNA by: cleaving...; Region: TOPRIM_TopoIA_TopoIII; cd03362 667015002573 active site 667015002574 putative interdomain interaction site [polypeptide binding]; other site 667015002575 putative metal-binding site [ion binding]; other site 667015002576 putative nucleotide binding site [chemical binding]; other site 667015002577 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 667015002578 domain I; other site 667015002579 DNA binding groove [nucleotide binding] 667015002580 phosphate binding site [ion binding]; other site 667015002581 domain II; other site 667015002582 domain III; other site 667015002583 nucleotide binding site [chemical binding]; other site 667015002584 catalytic site [active] 667015002585 domain IV; other site 667015002586 Protein of unknown function (DUF4099); Region: DUF4099; pfam13351 667015002587 Protein of unknown function (DUF4099); Region: DUF4099; pfam13351 667015002588 Protein of unknown function (DUF3945); Region: DUF3945; pfam13101 667015002589 Protein of unknown function (DUF3945); Region: DUF3945; pfam13101 667015002590 Protein of unknown function (DUF3945); Region: DUF3945; pfam13101 667015002591 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 667015002592 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 667015002593 active site 667015002594 phosphorylation site [posttranslational modification] 667015002595 intermolecular recognition site; other site 667015002596 dimerization interface [polypeptide binding]; other site 667015002597 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 667015002598 Walker A motif; other site 667015002599 ATP binding site [chemical binding]; other site 667015002600 Walker B motif; other site 667015002601 arginine finger; other site 667015002602 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 667015002603 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 667015002604 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 667015002605 dimer interface [polypeptide binding]; other site 667015002606 phosphorylation site [posttranslational modification] 667015002607 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 667015002608 ATP binding site [chemical binding]; other site 667015002609 Mg2+ binding site [ion binding]; other site 667015002610 G-X-G motif; other site 667015002611 Response regulator receiver domain; Region: Response_reg; pfam00072 667015002612 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 667015002613 active site 667015002614 phosphorylation site [posttranslational modification] 667015002615 intermolecular recognition site; other site 667015002616 dimerization interface [polypeptide binding]; other site 667015002617 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 667015002618 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 667015002619 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK06816 667015002620 "initiating" condensing enzymes are a subclass of decarboxylating condensing enzymes, including beta-ketoacyl [ACP] synthase, type III and polyketide synthases, type III, which include chalcone synthase and related enzymes. They are...; Region: init_cond_enzymes; cd00827 667015002621 dimer interface [polypeptide binding]; other site 667015002622 active site 667015002623 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 667015002624 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 667015002625 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 667015002626 AAA domain; Region: AAA_21; pfam13304 667015002627 Walker A/P-loop; other site 667015002628 ATP binding site [chemical binding]; other site 667015002629 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cd00267 667015002630 ABC transporter signature motif; other site 667015002631 Walker B; other site 667015002632 D-loop; other site 667015002633 H-loop/switch region; other site 667015002634 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 667015002635 RHS Repeat; Region: RHS_repeat; cl11982 667015002636 RHS Repeat; Region: RHS_repeat; cl11982 667015002637 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 667015002638 RHS Repeat; Region: RHS_repeat; pfam05593 667015002639 RHS Repeat; Region: RHS_repeat; cl11982 667015002640 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 667015002641 Protein of unknown function (DUF877); Region: DUF877; pfam05943 667015002642 Phage late control gene D protein (GPD); Region: Phage_GPD; pfam05954 667015002643 Rhs element Vgr protein; Region: vgr_GE; TIGR01646 667015002644 Phage-related baseplate assembly protein; Region: Phage_base_V; pfam04717 667015002645 ATP-binding subunits of Clp protease and DnaK/DnaJ chaperones [Posttranslational modification, protein turnover, chaperones]; Region: clpA; COG0542 667015002646 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 667015002647 Walker A motif; other site 667015002648 ATP binding site [chemical binding]; other site 667015002649 Walker B motif; other site 667015002650 arginine finger; other site 667015002651 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 667015002652 Walker A motif; other site 667015002653 ATP binding site [chemical binding]; other site 667015002654 Walker B motif; other site 667015002655 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 667015002656 Gene 25-like lysozyme; Region: GPW_gp25; pfam04965 667015002657 Bacterial protein of unknown function (DUF876); Region: DUF876; pfam05936 667015002658 Protein of unknown function (DUF1305); Region: DUF1305; cl01404 667015002659 Repeats in polycystic kidney disease 1 (PKD1) and other proteins; Region: PKD; smart00089 667015002660 FOG: PKD repeat [General function prediction only]; Region: COG3291 667015002661 PKD domain; Region: PKD; pfam00801 667015002662 DYW family of nucleic acid deaminases; Region: DYW_deaminase; pfam14432 667015002663 Immunity protein Imm5; Region: Imm5; pfam14423 667015002664 AAA ATPase domain; Region: AAA_16; pfam13191 667015002665 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 667015002666 AAA domain; Region: AAA_21; pfam13304 667015002667 Walker A/P-loop; other site 667015002668 ATP binding site [chemical binding]; other site 667015002669 YWFCY protein; Region: YWFCY; pfam14293 667015002670 AAA-like domain; Region: AAA_10; pfam12846 667015002671 TraM recognition site of TraD and TraG; Region: TraG-D_C; cl17375 667015002672 Relaxase/Mobilisation nuclease domain; Region: Relaxase; pfam03432 667015002673 Protein of unknown function (DUF3408); Region: DUF3408; pfam11888 667015002674 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 667015002675 AAA domain; Region: AAA_31; pfam13614 667015002676 P-loop; other site 667015002677 Magnesium ion binding site [ion binding]; other site 667015002678 Protein of unknown function (DUF3408); Region: DUF3408; pfam11888 667015002679 Domain of unknown function (DUF4122); Region: DUF4122; pfam13498 667015002680 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 667015002681 AAA domain; Region: AAA_21; pfam13304 667015002682 Walker A/P-loop; other site 667015002683 ATP binding site [chemical binding]; other site 667015002684 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 667015002685 ABC transporter signature motif; other site 667015002686 Walker B; other site 667015002687 D-loop; other site 667015002688 H-loop/switch region; other site 667015002689 Domain of unknown function (DUF4134); Region: DUF4134; pfam13572 667015002690 Domain of unknown function (DUF4133); Region: DUF4133; pfam13571 667015002691 Bacteroides conjugation system ATPase, TraG family; Region: Bac_Flav_CT_G; TIGR03783 667015002692 Domain of unknown function, B. Theta Gene description (DUF3875); Region: DUF3875; pfam12991 667015002693 Domain of unknown function, B. Theta Gene description (DUF3876); Region: DUF3876; pfam12992 667015002694 Domain of unknown function (DUF4141); Region: DUF4141; pfam13605 667015002695 Bacteroides conjugative transposon TraJ protein; Region: Bac_Flav_CT_J; TIGR03782 667015002696 Bacteroides conjugative transposon TraK protein; Region: Bac_Flav_CT_K; TIGR03781 667015002697 Protein of unknown function (DUF3989); Region: DUF3989; pfam13150 667015002698 Bacteroides conjugative transposon TraM protein; Region: Bac_Flav_CT_M; TIGR03779 667015002699 Protein of unknown function (DUF3714); Region: DUF3714; pfam12508 667015002700 Bacteroides conjugative transposon TraN protein; Region: Bac_Flav_CT_N; TIGR03780 667015002701 Domain of unknown function (DUF4138); Region: DUF4138; pfam13595 667015002702 Conjugative transposon protein TraO; Region: TraO; pfam10626 667015002703 Domain of unknown function, B. Theta Gene description (DUF3872); Region: DUF3872; pfam12988 667015002704 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 667015002705 catalytic residue [active] 667015002706 TOPRIM_primases: The topoisomerase-primase (TORPIM) nucleotidyl transferase/hydrolase domain found in the active site regions of bacterial DnaG-type primases and their homologs. Primases synthesize RNA primers for the initiation of DNA replication. DnaG...; Region: TOPRIM_primases; cd01029 667015002707 active site 667015002708 metal binding site [ion binding]; metal-binding site 667015002709 interdomain interaction site; other site 667015002710 Virulence determinant; Region: UK; pfam02512 667015002711 Domain of unknown function (DUF4120); Region: DUF4120; pfam13496 667015002712 Zinc peptidases M18, M20, M28, and M42; Region: Zinc_peptidase_like; cl14876 667015002713 metal binding site [ion binding]; metal-binding site 667015002714 Zinc peptidases M18, M20, M28, and M42; Region: Zinc_peptidase_like; cl14876 667015002715 Type I restriction-modification system methyltransferase subunit [Defense mechanisms]; Region: HsdM; COG0286 667015002716 UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase; Provisional; Region: murD; PRK00683 667015002717 DpnD/PcfM-like protein; Region: DpnD-PcfM; pfam14207 667015002718 Predicted phosphohydrolases [General function prediction only]; Region: Icc; COG1409 667015002719 Bacillus subtilis YydB and related proteins, metallophosphatase domain; Region: MPP_YydB; cd07400 667015002720 putative active site [active] 667015002721 putative metal binding site [ion binding]; other site 667015002722 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 667015002723 active site 667015002724 metal binding site [ion binding]; metal-binding site 667015002725 Tn4399 and related integrases, DNA breaking-rejoining enzymes, integrase/recombinases, N- and C-terminal domains. This CD includes various bacterial integrases, including cLV25, a Bacteroides fragilis chromosomal transfer factor integrase similar to the...; Region: INT_Tn4399; cd01185 667015002726 site-specific tyrosine recombinase XerC; Reviewed; Region: xerC; PRK00236 667015002727 Int/Topo IB signature motif; other site 667015002728 Phage associated DNA primase [General function prediction only]; Region: COG3378 667015002729 CHC2 zinc finger; Region: zf-CHC2; cl17510 667015002730 Toprim-like; Region: Toprim_2; pfam13155 667015002731 Plasmid recombination enzyme; Region: Mob_Pre; pfam01076 667015002732 Part of AAA domain; Region: AAA_19; pfam13245 667015002733 Family description; Region: UvrD_C_2; pfam13538 667015002734 Domain of unknown function (DUF4095); Region: DUF4095; pfam13338 667015002735 Nucleotidyl transferase of unknown function (DUF1814); Region: DUF1814; pfam08843 667015002736 Tn4399 and related integrases, DNA breaking-rejoining enzymes, integrase/recombinases, N- and C-terminal domains. This CD includes various bacterial integrases, including cLV25, a Bacteroides fragilis chromosomal transfer factor integrase similar to the...; Region: INT_Tn4399; cd01185 667015002737 Int/Topo IB signature motif; other site 667015002738 Cobalamin adenosyltransferase; Region: Cob_adeno_trans; cl00920 667015002739 Tn4399 and related integrases, DNA breaking-rejoining enzymes, integrase/recombinases, N- and C-terminal domains. This CD includes various bacterial integrases, including cLV25, a Bacteroides fragilis chromosomal transfer factor integrase similar to the...; Region: INT_Tn4399; cd01185 667015002740 Int/Topo IB signature motif; other site 667015002741 Virulence protein [General function prediction only]; Region: COG3943 667015002742 Helix-turn-helix domain; Region: HTH_17; pfam12728 667015002743 Helix-turn-helix domain; Region: HTH_17; pfam12728 667015002744 Protein of unknown function (DUF3408); Region: DUF3408; pfam11888 667015002745 Bacterial mobilisation protein (MobC); Region: MobC; pfam05713 667015002746 Relaxase/Mobilisation nuclease domain; Region: Relaxase; pfam03432 667015002747 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 667015002748 active site 667015002749 DNA binding site [nucleotide binding] 667015002750 Int/Topo IB signature motif; other site 667015002751 Transposase zinc-ribbon domain; Region: Zn_Tnp_IS1595; pfam12760 667015002752 ISXO2-like transposase domain; Region: DDE_Tnp_IS1595; pfam12762 667015002753 IS66 Orf2 like protein; Region: TnpB_IS66; pfam05717 667015002754 Transposase C of IS166 homeodomain; Region: LZ_Tnp_IS66; pfam13007 667015002755 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 667015002756 putative Helix-turn-helix domain of transposase IS66; Region: HTH_Tnp_IS66; pfam13005 667015002757 Transposase IS66 family; Region: DDE_Tnp_IS66; pfam03050 667015002758 IS66 C-terminal element; Region: DDE_Tnp_IS66_C; pfam13817 667015002759 Prokaryotic homologs of the JAB domain; Region: Prok-JAB; pfam14464 667015002760 Superfamily of activating enzymes (E1) of the ubiquitin-like proteins. This family includes classical ubiquitin-activating enzymes E1, ubiquitin-like (ubl) activating enzymes and other mechanistic homologes, like MoeB, Thif1 and others. The common...; Region: E1_enzyme_family; cl17196 667015002761 ATP binding site [chemical binding]; other site 667015002762 RelA- and SpoT-like ppGpp Synthetases and Hydrolases, catalytic domain; Region: Rel-Spo_like; cl11966 667015002763 metal binding triad [ion binding]; metal-binding site 667015002764 RloB-like protein; Region: RloB; pfam13707 667015002765 Predicted ATPases [General function prediction only]; Region: COG1106 667015002766 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 667015002767 Walker A/P-loop; other site 667015002768 ATP binding site [chemical binding]; other site 667015002769 Thymidylate synthase; Region: Thymidylat_synt; pfam00303 667015002770 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 667015002771 active site 667015002772 dimerization interface [polypeptide binding]; other site 667015002773 IS66 Orf2 like protein; Region: TnpB_IS66; pfam05717 667015002774 Mor transcription activator family; Region: Mor; cl02360 667015002775 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4877 667015002776 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3041 667015002777 UDP-galactopyranose mutase [Cell envelope biogenesis, outer membrane]; Region: Glf; COG0562 667015002778 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 667015002779 UDP-galactopyranose mutase; Region: GLF; pfam03275 667015002780 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 667015002781 extended (e) SDRs; Region: SDR_e; cd08946 667015002782 NAD(P) binding site [chemical binding]; other site 667015002783 active site 667015002784 substrate binding site [chemical binding]; other site 667015002785 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 667015002786 This family is most closely related to the GT1 family of glycosyltransferases. cap1E in Streptococcus pneumoniae is required for the synthesis of type 1 capsular polysaccharides; Region: GT1_cap1E_like; cd03808 667015002787 putative ADP-binding pocket [chemical binding]; other site 667015002788 PIN domain; Region: PIN_3; pfam13470 667015002789 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 667015002790 sepiapterin reductase; Region: sepiapter_red; TIGR01500 667015002791 NAD(P) binding site [chemical binding]; other site 667015002792 active site 667015002793 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 667015002794 Cytidylyltransferase; Region: CTP_transf_2; pfam01467 667015002795 active site 667015002796 nucleotide binding site [chemical binding]; other site 667015002797 HIGH motif; other site 667015002798 KMSKS motif; other site 667015002799 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 667015002800 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 667015002801 Glycerophosphoryl diester phosphodiesterase [Energy production and conversion]; Region: UgpQ; COG0584 667015002802 Catalytic domain of phosphoinositide-specific phospholipase C-like phosphodiesterases superfamily; Region: PI-PLCc_GDPD_SF; cl14615 667015002803 active site 667015002804 catalytic site [active] 667015002805 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 667015002806 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 667015002807 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 667015002808 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 667015002809 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 667015002810 Wzx, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_Wzx_like; cd13128 667015002811 Transcription antiterminator [Transcription]; Region: NusG; COG0250 667015002812 N-Utilization Substance G (NusG) N-terminal domain in the NusG Specialized Paralog (SP), UpxY; Region: NGN_SP_UpxY; cd09895 667015002813 NusG contains an NGN domain at its N-terminus and KOW motif at its C-terminus; Region: KOW_NusG; cd06091 667015002814 homodimer interface [polypeptide binding]; other site 667015002815 Uncharacterized homolog of gamma-carboxymuconolactone decarboxylase subunit [Function unknown]; Region: COG0599 667015002816 Uncharacterized homolog of gamma-carboxymuconolactone decarboxylase subunit [Function unknown]; Region: COG0599 667015002817 Uncharacterized conserved protein [Function unknown]; Region: COG1359 667015002818 Flavin reductase like domain; Region: Flavin_Reduct; pfam01613 667015002819 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 667015002820 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 667015002821 active site 667015002822 catalytic tetrad [active] 667015002823 Uncharacterized conserved protein [Function unknown]; Region: COG4925 667015002824 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 667015002825 Iron-containing alcohol dehydrogenases-like; Region: Fe-ADH1; cd08185 667015002826 putative active site [active] 667015002827 metal binding site [ion binding]; metal-binding site 667015002828 Predicted oxidoreductases of the aldo/keto reductase family [General function prediction only]; Region: COG1453 667015002829 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 667015002830 active site 667015002831 catalytic tetrad [active] 667015002832 Class I aldolases; Region: Aldolase_Class_I; cl17187 667015002833 Helix-turn-helix domain; Region: HTH_18; pfam12833 667015002834 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 667015002835 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 667015002836 tyrosine recombinase XerC; Region: recomb_XerC; TIGR02224 667015002837 active site 667015002838 DNA binding site [nucleotide binding] 667015002839 Int/Topo IB signature motif; other site 667015002840 Superfamily II helicase [General function prediction only]; Region: COG1204 667015002841 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 667015002842 ATP binding site [chemical binding]; other site 667015002843 putative Mg++ binding site [ion binding]; other site 667015002844 CRISPR/Cas system-associated DinG family helicase Csf4; Region: Csf4_U; cl17460 667015002845 Predicted amidophosphoribosyltransferases [General function prediction only]; Region: ComFC; COG1040 667015002846 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 667015002847 active site 667015002848 Virulence protein RhuM family; Region: Virulence_RhuM; pfam13310 667015002849 Tn4399 and related integrases, DNA breaking-rejoining enzymes, integrase/recombinases, N- and C-terminal domains. This CD includes various bacterial integrases, including cLV25, a Bacteroides fragilis chromosomal transfer factor integrase similar to the...; Region: INT_Tn4399; cd01185 667015002850 tyrosine recombinase XerD; Region: recomb_XerD; TIGR02225 667015002851 Int/Topo IB signature motif; other site 667015002852 recombination and DNA strand exchange inhibitor protein; Reviewed; Region: PRK00409 667015002853 MutS domain III; Region: MutS_III; pfam05192 667015002854 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 667015002855 Walker A/P-loop; other site 667015002856 ATP binding site [chemical binding]; other site 667015002857 Q-loop/lid; other site 667015002858 ABC transporter signature motif; other site 667015002859 Walker B; other site 667015002860 D-loop; other site 667015002861 H-loop/switch region; other site 667015002862 Smr domain; Region: Smr; pfam01713 667015002863 L-serine dehydratase, iron-sulfur-dependent, single chain form; Region: sda_mono; TIGR00720 667015002864 Serine dehydratase beta chain; Region: SDH_beta; pfam03315 667015002865 Serine dehydratase alpha chain; Region: SDH_alpha; pfam03313 667015002866 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 667015002867 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 667015002868 active site 667015002869 motif I; other site 667015002870 motif II; other site 667015002871 50S ribosomal protein L21/unknown domain fusion protein; Provisional; Region: PRK12278 667015002872 50S ribosomal protein L21; Validated; Region: rplU; PRK05573 667015002873 50S ribosomal protein L27; Validated; Region: rpmA; PRK05435 667015002874 Dephospho-CoA kinase [Coenzyme metabolism]; Region: CoaE; COG0237 667015002875 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 667015002876 CoA-binding site [chemical binding]; other site 667015002877 ATP-binding [chemical binding]; other site 667015002878 Preprotein translocase subunit; Region: YajC; pfam02699 667015002879 transcription antitermination factor NusB; Region: nusB; TIGR01951 667015002880 Protein of unknown function (DUF3276); Region: DUF3276; pfam11680 667015002881 50S ribosomal protein L25/general stress protein Ctc; Reviewed; Region: PRK05618 667015002882 Ribosomal L25/TL5/CTC N-terminal 5S rRNA binding domain; Region: Ribosomal_L25_TL5_CTC; cd00495 667015002883 5S rRNA interface [nucleotide binding]; other site 667015002884 CTC domain interface [polypeptide binding]; other site 667015002885 L16 interface [polypeptide binding]; other site 667015002886 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 667015002887 putative active site [active] 667015002888 catalytic residue [active] 667015002889 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 667015002890 RNA binding surface [nucleotide binding]; other site 667015002891 Diadenosine tetraphosphate (Ap4A) hydrolase and other HIT family hydrolases [Nucleotide transport and metabolism / Carbohydrate transport and metabolism / General function prediction only]; Region: Hit; COG0537 667015002892 nucleotide binding site/active site [active] 667015002893 HIT family signature motif; other site 667015002894 catalytic residue [active] 667015002895 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; COG0475 667015002896 Sodium/hydrogen exchanger family; Region: Na_H_Exchanger; pfam00999 667015002897 TrkA-C domain; Region: TrkA_C; pfam02080 667015002898 Putative regulatory, ligand-binding protein related to C-terminal domains of K+ channels [Inorganic ion transport and metabolism]; Region: COG0490 667015002899 TrkA-C domain; Region: TrkA_C; pfam02080 667015002900 DNA topoisomerase III; Provisional; Region: PRK07726 667015002901 TOPRIM_TopoIA_TopoIII: The topoisomerase-primase (TORPIM) domain found in members of the type IA family of DNA topoisomerases (Topo IA) similar to topoisomerase III. Type IA DNA topoisomerases remove (relax) negative supercoils in the DNA by: cleaving...; Region: TOPRIM_TopoIA_TopoIII; cd03362 667015002902 active site 667015002903 putative interdomain interaction site [polypeptide binding]; other site 667015002904 putative metal-binding site [ion binding]; other site 667015002905 putative nucleotide binding site [chemical binding]; other site 667015002906 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 667015002907 domain I; other site 667015002908 DNA binding groove [nucleotide binding] 667015002909 phosphate binding site [ion binding]; other site 667015002910 domain II; other site 667015002911 domain III; other site 667015002912 nucleotide binding site [chemical binding]; other site 667015002913 catalytic site [active] 667015002914 domain IV; other site 667015002915 rRNA (cytosine-C(5)-)-methyltransferase RsmF; Reviewed; Region: yebU; PRK11933 667015002916 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 667015002917 S-adenosylmethionine binding site [chemical binding]; other site 667015002918 pre-rRNA processing and ribosome biogenesis; Region: Nol1_Nop2_Fmu_2; pfam13636 667015002919 thymidylate synthase; Reviewed; Region: thyA; PRK01827 667015002920 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 667015002921 dimerization interface [polypeptide binding]; other site 667015002922 active site 667015002923 Dihydrofolate reductase [Coenzyme metabolism]; Region: FolA; COG0262 667015002924 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 667015002925 folate binding site [chemical binding]; other site 667015002926 NADP+ binding site [chemical binding]; other site 667015002927 WYL domain; Region: WYL; pfam13280 667015002928 Uncharacterized protein family UPF0027; Region: UPF0027; pfam01139 667015002929 PD-(D/E)XK nuclease superfamily; Region: PDDEXK_4; pfam14281 667015002930 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cd00138 667015002931 PLD-like domain; Region: PLDc_2; pfam13091 667015002932 putative active site [active] 667015002933 catalytic site [active] 667015002934 Protein of unknown function (DUF3988); Region: DUF3988; pfam13149 667015002935 N-terminal domain found in Bacteroides fragilis Nctc 9343 BF2867 and related proteins; Region: BF2867_like_N; cd13120 667015002936 C-terminal domain found in Bacteroides fragilisNctc 9343 BF2867 and related proteins; Region: BF2867_like_C; cd13121 667015002937 Protein of unknown function (DUF3988); Region: DUF3988; pfam13149 667015002938 N-terminal domain found in Bacteroides fragilis Nctc 9343 BF2867 and related proteins; Region: BF2867_like_N; cd13120 667015002939 C-terminal domain found in Bacteroides fragilisNctc 9343 BF2867 and related proteins; Region: BF2867_like_C; cd13121 667015002940 Protein of unknown function (DUF3988); Region: DUF3988; pfam13149 667015002941 N-terminal domain found in Bacteroides fragilis Nctc 9343 BF2867 and related proteins; Region: BF2867_like_N; cd13120 667015002942 Tandemly repeated domain found in Bacteroides fragilis Nctc 9343 BF2867 and related proteins; Region: BF2867_like; cl17916 667015002943 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 667015002944 non-specific DNA binding site [nucleotide binding]; other site 667015002945 salt bridge; other site 667015002946 sequence-specific DNA binding site [nucleotide binding]; other site 667015002947 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 667015002948 nucleoside/Zn binding site; other site 667015002949 dimer interface [polypeptide binding]; other site 667015002950 catalytic motif [active] 667015002951 hypothetical protein; Reviewed; Region: PRK12497 667015002952 Biotin-(acetyl-CoA carboxylase) ligase [Coenzyme metabolism]; Region: BirA; COG0340 667015002953 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; pfam03099 667015002954 DNA-damage-inducible SOS response protein; Provisional; Region: PRK10367 667015002955 DinF and similar proteins, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_DinF_like; cd13136 667015002956 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 667015002957 Predicted Zn-dependent hydrolases of the beta-lactamase fold [General function prediction only]; Region: COG2220 667015002958 DNA repair protein RadA; Provisional; Region: PRK11823 667015002959 Sms (bacterial radA) DNA repair protein. This protein is not related to archael radA any more than is to other RecA-like NTPases. Sms has a role in recombination and recombinational repair and is responsible for the stabilization or processing of...; Region: Sms; cd01121 667015002960 Walker A motif/ATP binding site; other site 667015002961 ATP binding site [chemical binding]; other site 667015002962 Walker B motif; other site 667015002963 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 667015002964 GxxExxY protein; Region: GxxExxY; TIGR04256 667015002965 Uncharacterized FAD-dependent dehydrogenases [General function prediction only]; Region: COG2509 667015002966 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 667015002967 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 667015002968 DNA binding residues [nucleotide binding] 667015002969 dimerization interface [polypeptide binding]; other site 667015002970 N-terminal Early set domain associated with the catalytic domain of putative esterases; Region: E_set_Esterase_like_N; cd11294 667015002971 Putative esterase; Region: Esterase; pfam00756 667015002972 Predicted hydrolase of the alpha/beta superfamily [General function prediction only]; Region: COG2819 667015002973 Domain of unknown function (DUF3127); Region: DUF3127; pfam11325 667015002974 DNA polymerase III subunit beta; Validated; Region: PRK05643 667015002975 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 667015002976 putative DNA binding surface [nucleotide binding]; other site 667015002977 dimer interface [polypeptide binding]; other site 667015002978 beta-clamp/translesion DNA polymerase binding surface; other site 667015002979 beta-clamp/clamp loader binding surface; other site 667015002980 DNA polymerase III subunit epsilon; Validated; Region: PRK06309 667015002981 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 667015002982 active site 667015002983 catalytic site [active] 667015002984 substrate binding site [chemical binding]; other site 667015002985 bifunctional phosphopantothenoylcysteine decarboxylase/phosphopantothenate synthase; Validated; Region: PRK05579 667015002986 Flavoprotein; Region: Flavoprotein; pfam02441 667015002987 DNA / pantothenate metabolism flavoprotein; Region: DFP; pfam04127 667015002988 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: RecN; COG0497 667015002989 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 667015002990 Walker A/P-loop; other site 667015002991 ATP binding site [chemical binding]; other site 667015002992 Q-loop/lid; other site 667015002993 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 667015002994 ABC transporter signature motif; other site 667015002995 Walker B; other site 667015002996 D-loop; other site 667015002997 H-loop/switch region; other site 667015002998 rRNA methylases [Translation, ribosomal structure and biogenesis]; Region: SpoU; COG0566 667015002999 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; smart00967 667015003000 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 667015003001 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 667015003002 TPR repeat; Region: TPR_11; pfam13414 667015003003 TPR repeat; Region: TPR_11; pfam13414 667015003004 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 667015003005 binding surface 667015003006 TPR motif; other site 667015003007 Tetratricopeptide repeat; Region: TPR_16; pfam13432 667015003008 ribonuclease Z; Region: RNase_Z; TIGR02651 667015003009 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 667015003010 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 667015003011 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 667015003012 DNA binding residues [nucleotide binding] 667015003013 Domain of unknown function (DUF1848); Region: DUF1848; pfam08902 667015003014 DEAD-like helicases superfamily; Region: DEXDc; smart00487 667015003015 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 667015003016 ATP binding site [chemical binding]; other site 667015003017 putative Mg++ binding site [ion binding]; other site 667015003018 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 667015003019 nucleotide binding region [chemical binding]; other site 667015003020 ATP-binding site [chemical binding]; other site 667015003021 Photosystem I reaction centre subunit III; Region: PSI_PsaF; cl03627 667015003022 Divergent AAA domain; Region: AAA_4; pfam04326 667015003023 Predicted transcriptional regulator containing an HTH domain and an uncharacterized domain shared with the mammalian protein Schlafen [Transcription]; Region: COG2865 667015003024 ATP-dependent DNA helicase recG C-terminal; Region: HATPase_c_4; pfam13749 667015003025 RmuC family; Region: RmuC; pfam02646 667015003026 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 667015003027 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 667015003028 Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]; Region: COG0826 667015003029 Peptidase family U32; Region: Peptidase_U32; pfam01136 667015003030 Collagenase; Region: DUF3656; pfam12392 667015003031 Homoserine O-succinyltransferase; Region: HTS; pfam04204 667015003032 Type 1 glutamine amidotransferase (GATase1)-like domain found in homoserine trans-succinylase (HTS); Region: GATase1_HTS; cd03131 667015003033 proposed active site lysine [active] 667015003034 conserved cys residue [active] 667015003035 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 667015003036 dimer interface [polypeptide binding]; other site 667015003037 catalytic triad [active] 667015003038 peroxidatic and resolving cysteines [active] 667015003039 PaaI_thioesterase is a tetrameric acyl-CoA thioesterase with a hot dog fold and one of several proteins responsible for phenylacetic acid (PA) degradation in bacteria. Although orthologs of PaaI exist in archaea and eukaryotes, their function has not...; Region: PaaI_thioesterase; cd03443 667015003040 CoenzymeA binding site [chemical binding]; other site 667015003041 subunit interaction site [polypeptide binding]; other site 667015003042 PHB binding site; other site 667015003043 Stress responsive A/B Barrel Domain; Region: Dabb; smart00886 667015003044 Cupin domain; Region: Cupin_2; pfam07883 667015003045 Primase C terminal 1 (PriCT-1); Region: PriCT_1; cl07362 667015003046 Outer membrane efflux protein; Region: OEP; pfam02321 667015003047 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 667015003048 Putative silver efflux pump [Inorganic ion transport and metabolism]; Region: COG3696 667015003049 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 667015003050 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 667015003051 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 667015003052 Domain of unknown function DUF21; Region: DUF21; pfam01595 667015003053 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 667015003054 Transporter associated domain; Region: CorC_HlyC; smart01091 667015003055 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 667015003056 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 667015003057 DNA binding residues [nucleotide binding] 667015003058 dimerization interface [polypeptide binding]; other site 667015003059 Hemerythrin HHE cation binding domain; Region: Hemerythrin; pfam01814 667015003060 FOG: Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3385 667015003061 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 667015003062 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 667015003063 The (Largely Gram-negative Bacterial) Hydrophobe/Amphiphile Efflux-1 (HAE1) Family; Region: 2A0602; TIGR00915 667015003064 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 667015003065 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 667015003066 HlyD family secretion protein; Region: HlyD_3; pfam13437 667015003067 Protein of unknown function (DUF1212); Region: DUF1212; pfam06738 667015003068 Protein of unknown function (DUF3815); Region: DUF3815; pfam12821 667015003069 FOG: Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3385 667015003070 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 667015003071 Uncharacterized protein related to glutamine synthetase [General function prediction only]; Region: COG3968 667015003072 Glutamine synthetase type III N terminal; Region: GSIII_N; pfam12437 667015003073 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 667015003074 phosphoribosylglycinamide formyltransferase 2; Validated; Region: purT; PRK09288 667015003075 ATP-grasp domain; Region: ATP-grasp; pfam02222 667015003076 ResB protein required for cytochrome c biosynthesis [Posttranslational modification, protein turnover, chaperones]; Region: ResB; cl09125 667015003077 cytochrome c-type biogenesis protein CcsB; Region: cytochr_II_ccsB; TIGR03144 667015003078 Protein of unknown function (DUF1111); Region: DUF1111; pfam06537 667015003079 Predicted thiol oxidoreductase [Energy production and conversion]; Region: COG3488 667015003080 Imelysin; Region: Peptidase_M75; pfam09375 667015003081 A new structural DNA glycosylase; Region: AlkD_like; cd06561 667015003082 active site 667015003083 Protein of unknown function (DUF4199); Region: DUF4199; pfam13858 667015003084 undecaprenyl phosphate 4-deoxy-4-formamido-L-arabinose transferase; Provisional; Region: PRK10714 667015003085 Bacterial DPM1_like enzymes are related to eukaryotic DPM1; Region: DPM1_like_bac; cd04187 667015003086 Ligand binding site; other site 667015003087 Putative Catalytic site; other site 667015003088 DXD motif; other site 667015003089 Predicted membrane protein [Function unknown]; Region: COG1971 667015003090 Domain of unknown function DUF; Region: DUF204; pfam02659 667015003091 Domain of unknown function DUF; Region: DUF204; pfam02659 667015003092 Membrane-associated lipoprotein involved in thiamine biosynthesis [Coenzyme metabolism]; Region: ApbE; COG1477 667015003093 ApbE family; Region: ApbE; pfam02424 667015003094 putative oligopeptide transporter, OPT family; Region: TIGR00733 667015003095 OPT oligopeptide transporter protein; Region: OPT; pfam03169 667015003096 Esterase/lipase [Lipid metabolism]; Region: Aes; COG0657 667015003097 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 667015003098 IS66 Orf2 like protein; Region: TnpB_IS66; pfam05717 667015003099 Transposase C of IS166 homeodomain; Region: LZ_Tnp_IS66; pfam13007 667015003100 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 667015003101 putative Helix-turn-helix domain of transposase IS66; Region: HTH_Tnp_IS66; pfam13005 667015003102 Transposase IS66 family; Region: DDE_Tnp_IS66; pfam03050 667015003103 IS66 C-terminal element; Region: DDE_Tnp_IS66_C; pfam13817 667015003104 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 667015003105 FOG: FHA domain [Signal transduction mechanisms]; Region: COG1716 667015003106 phosphopeptide binding site; other site 667015003107 FOG: FHA domain [Signal transduction mechanisms]; Region: COG1716 667015003108 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 667015003109 phosphopeptide binding site; other site 667015003110 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 667015003111 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 667015003112 FOG: FHA domain [Signal transduction mechanisms]; Region: COG1716 667015003113 phosphopeptide binding site; other site 667015003114 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 667015003115 active site 667015003116 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 667015003117 Catalytic domain of Protein Kinases; Region: PKc; cd00180 667015003118 active site 667015003119 ATP binding site [chemical binding]; other site 667015003120 substrate binding site [chemical binding]; other site 667015003121 activation loop (A-loop); other site 667015003122 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 667015003123 Catalytic domain of Protein Kinases; Region: PKc; cd00180 667015003124 active site 667015003125 ATP binding site [chemical binding]; other site 667015003126 substrate binding site [chemical binding]; other site 667015003127 activation loop (A-loop); other site 667015003128 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 667015003129 phosphopeptide binding site; other site 667015003130 30S ribosomal protein S16; Provisional; Region: rpsP; PRK14521 667015003131 30S ribosomal protein S16; Reviewed; Region: rpsP; PRK00040 667015003132 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 667015003133 putative catalytic site [active] 667015003134 putative metal binding site [ion binding]; other site 667015003135 putative phosphate binding site [ion binding]; other site 667015003136 DNA/RNA non-specific endonuclease; prokaryotic and eukaryotic double- and single-stranded DNA and RNA endonucleases also present in phosphodiesterases. They exists as monomers and homodimers; Region: NUC; cd00091 667015003137 DNA/RNA non-specific endonuclease; Region: Endonuclease_NS; smart00892 667015003138 active site 667015003139 substrate binding site [chemical binding]; other site 667015003140 Mg2+ binding site [ion binding]; other site 667015003141 Protein of unknown function (DUF2378); Region: DUF2378; cl15288 667015003142 Cna protein B-type domain; Region: Cna_B_2; pfam13715 667015003143 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 667015003144 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 667015003145 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 667015003146 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 667015003147 active site 667015003148 catalytic triad [active] 667015003149 oxyanion hole [active] 667015003150 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 667015003151 DNA/RNA non-specific endonuclease; prokaryotic and eukaryotic double- and single-stranded DNA and RNA endonucleases also present in phosphodiesterases. They exists as monomers and homodimers; Region: NUC; cd00091 667015003152 DNA/RNA non-specific endonuclease; Region: Endonuclease_NS; smart00892 667015003153 active site 667015003154 substrate binding site [chemical binding]; other site 667015003155 Mg2+ binding site [ion binding]; other site 667015003156 PspC domain; Region: PspC; pfam04024 667015003157 Predicted transcriptional regulators [Transcription]; Region: COG1695 667015003158 Transcriptional regulator PadR-like family; Region: PadR; pfam03551 667015003159 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 667015003160 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 667015003161 Coenzyme A binding pocket [chemical binding]; other site 667015003162 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 667015003163 putative catalytic site [active] 667015003164 putative metal binding site [ion binding]; other site 667015003165 putative phosphate binding site [ion binding]; other site 667015003166 Xaa-His dipeptidase; Region: aa-his-dipept; TIGR01893 667015003167 M20 Peptidase D has specificity for beta-alanyl-L-histidine dipeptide; Region: M20_pepD; cd03890 667015003168 metal binding site [ion binding]; metal-binding site 667015003169 dimer interface [polypeptide binding]; other site 667015003170 Outer membrane protein (OmpH-like); Region: OmpH; pfam03938 667015003171 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 667015003172 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 667015003173 catalytic residues [active] 667015003174 membrane-bound lytic transglycosylase F; Provisional; Region: PRK10859 667015003175 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 667015003176 substrate binding pocket [chemical binding]; other site 667015003177 membrane-bound complex binding site; other site 667015003178 hinge residues; other site 667015003179 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 667015003180 N-acetyl-D-glucosamine binding site [chemical binding]; other site 667015003181 catalytic residue [active] 667015003182 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 667015003183 Uridine kinase [Nucleotide transport and metabolism]; Region: Udk; COG0572 667015003184 Sugar specificity; other site 667015003185 Pyrimidine base specificity; other site 667015003186 ATP-binding site [chemical binding]; other site 667015003187 Threonine synthase [Amino acid transport and metabolism]; Region: ThrC; COG0498 667015003188 Threonine synthase catalyzes the final step of threonine biosynthesis. The conversion of O-phosphohomoserine into threonine and inorganic phosphate is pyridoxal 5'-phosphate dependent. The Thr-synth_1 CD includes members from higher plants; Region: Thr-synth_2; cd01560 667015003189 pyridoxal 5'-phosphate binding site [chemical binding]; other site 667015003190 catalytic residue [active] 667015003191 cofactor-independent phosphoglycerate mutase; Provisional; Region: PRK04200 667015003192 2,3-bisphosphoglycerate-independent phosphoglycerate mutase; Region: PhosphMutase; cl17294 667015003193 bifunctional aspartokinase I/homoserine dehydrogenase I; Provisional; Region: thrA; PRK09436 667015003194 AAK_AK-HSDH: Amino Acid Kinase Superfamily (AAK), AK-HSDH; this CD includes the N-terminal catalytic domain of aspartokinase (AK) of the bifunctional enzyme AK - homoserine dehydrogenase (HSDH). These aspartokinases are found in bacteria (E. coli...; Region: AAK_AK-HSDH; cd04257 667015003195 putative catalytic residues [active] 667015003196 putative nucleotide binding site [chemical binding]; other site 667015003197 putative aspartate binding site [chemical binding]; other site 667015003198 ACT domains of the bifunctional enzyme aspartokinase (AK) - homoserine dehydrogenase (HSDH); Region: ACT_AKi-HSDH-ThrA-like_1; cd04921 667015003199 dimer interface [polypeptide binding]; other site 667015003200 putative threonine allosteric regulatory site; other site 667015003201 ACT domains of the bifunctional enzyme aspartokinase (AK) - homoserine dehydrogenase (HSDH); Region: ACT_AKi-HSDH-ThrA_2; cd04922 667015003202 putative threonine allosteric regulatory site; other site 667015003203 Homoserine dehydrogenase, NAD binding domain; Region: NAD_binding_3; pfam03447 667015003204 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 667015003205 ribosome recycling factor; Reviewed; Region: frr; PRK00083 667015003206 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 667015003207 hinge region; other site 667015003208 GTPase RsgA; Reviewed; Region: PRK00098 667015003209 S1_YloQ_GTPase: YloQ GTase family (also known as YjeQ and CpgA), S1-like RNA-binding domain. Proteins in the YloQ GTase family bind the ribosome and have GTPase activity. The precise role of this family is unknown. The protein structure is composed of...; Region: S1_YloQ_GTPase; cd04466 667015003210 RNA binding site [nucleotide binding]; other site 667015003211 homodimer interface [polypeptide binding]; other site 667015003212 Ribosomal interacting GTPase YjeQ/EngC, a circularly permuted subfamily of the Ras GTPases; Region: YjeQ_EngC; cd01854 667015003213 GTPase/Zn-binding domain interface [polypeptide binding]; other site 667015003214 GTP/Mg2+ binding site [chemical binding]; other site 667015003215 G4 box; other site 667015003216 G5 box; other site 667015003217 G1 box; other site 667015003218 Switch I region; other site 667015003219 G2 box; other site 667015003220 G3 box; other site 667015003221 Switch II region; other site 667015003222 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 667015003223 putative substrate translocation pore; other site 667015003224 Methylenetetrahydrofolate reductase (MTHFR). 5,10-Methylenetetrahydrofolate is reduced to 5-methyltetrahydrofolate by methylenetetrahydrofolate reductase, a cytoplasmic, NAD(P)-dependent enzyme. 5-methyltetrahydrofolate is utilized by methionine synthase...; Region: MTHFR; cd00537 667015003225 FAD binding site [chemical binding]; other site 667015003226 Adenine nucleotide alpha hydrolases superfamily including N type ATP PPases, ATP sulphurylases Universal Stress Response protein and electron transfer flavoprotein (ETF). The domain forms a apha/beta/apha fold which binds to Adenosine nucleotide; Region: AANH_like; cl00292 667015003227 DNA polymerase III, delta' subunit; Region: holB; TIGR00678 667015003228 DNA polymerase III subunit delta'; Validated; Region: PRK08485 667015003229 PSP1 C-terminal conserved region; Region: PSP1; cl00770 667015003230 GldH lipoprotein; Region: GldH_lipo; pfam14109 667015003231 Cell cycle protein; Region: FTSW_RODA_SPOVE; cl00511 667015003232 rod shape-determining protein RodA; Region: rodA_shape; TIGR02210 667015003233 penicillin-binding protein 2; Region: pbp2_mrdA; TIGR03423 667015003234 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 667015003235 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 667015003236 rod shape-determining protein MreC; Provisional; Region: PRK13922 667015003237 rod shape-determining protein MreC; Region: MreC; pfam04085 667015003238 rod shape-determining protein MreB; Provisional; Region: PRK13927 667015003239 MreB and similar proteins; Region: MreB_like; cd10225 667015003240 nucleotide binding site [chemical binding]; other site 667015003241 Mg binding site [ion binding]; other site 667015003242 putative protofilament interaction site [polypeptide binding]; other site 667015003243 RodZ interaction site [polypeptide binding]; other site 667015003244 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 667015003245 purine monophosphate binding site [chemical binding]; other site 667015003246 dimer interface [polypeptide binding]; other site 667015003247 putative catalytic residues [active] 667015003248 Phosphate transporter family; Region: PHO4; pfam01384 667015003249 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 667015003250 active site 667015003251 Cyclophilin type peptidyl-prolyl cis-trans isomerase/CLD; Region: Pro_isomerase; pfam00160 667015003252 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 667015003253 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 667015003254 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 667015003255 multidrug efflux protein; Reviewed; Region: PRK01766 667015003256 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Vibrio cholerae NorM; Region: MATE_NorM_like; cd13131 667015003257 cation binding site [ion binding]; other site 667015003258 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 667015003259 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 667015003260 dimer interface [polypeptide binding]; other site 667015003261 phosphorylation site [posttranslational modification] 667015003262 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 667015003263 ATP binding site [chemical binding]; other site 667015003264 Mg2+ binding site [ion binding]; other site 667015003265 G-X-G motif; other site 667015003266 Response regulator receiver domain; Region: Response_reg; pfam00072 667015003267 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 667015003268 active site 667015003269 phosphorylation site [posttranslational modification] 667015003270 intermolecular recognition site; other site 667015003271 dimerization interface [polypeptide binding]; other site 667015003272 Glycerophosphoryl diester phosphodiesterase [Energy production and conversion]; Region: UgpQ; COG0584 667015003273 Catalytic domain of phosphoinositide-specific phospholipase C-like phosphodiesterases superfamily; Region: PI-PLCc_GDPD_SF; cl14615 667015003274 active site 667015003275 catalytic site [active] 667015003276 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 667015003277 putative nucleotide binding site [chemical binding]; other site 667015003278 uridine monophosphate binding site [chemical binding]; other site 667015003279 homohexameric interface [polypeptide binding]; other site 667015003280 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 667015003281 catalytic core [active] 667015003282 putative ABC transporter ATP-binding protein; Reviewed; Region: PRK11819 667015003283 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 667015003284 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 667015003285 ABC transporter; Region: ABC_tran_2; pfam12848 667015003286 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 667015003287 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 667015003288 Major Facilitator Superfamily; Region: MFS_1; pfam07690 667015003289 putative substrate translocation pore; other site 667015003290 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 667015003291 oligomerization interface [polypeptide binding]; other site 667015003292 active site 667015003293 metal binding site [ion binding]; metal-binding site 667015003294 Predicted phosphatase/phosphohexomutase [General function prediction only]; Region: COG0637 667015003295 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 667015003296 motif II; other site 667015003297 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 667015003298 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Streptococcus aureus MepA; Region: MATE_MepA_like; cd13143 667015003299 Mn2+ and Fe2+ transporters of the NRAMP family [Inorganic ion transport and metabolism]; Region: MntH; cl15845 667015003300 Natural resistance-associated macrophage protein; Region: Nramp; pfam01566 667015003301 putative DNA modification/repair radical SAM protein; Region: rSAM_link_UDG; TIGR03916 667015003302 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 667015003303 FeS/SAM binding site; other site 667015003304 Protein of unknown function (DUF3592); Region: DUF3592; pfam12158 667015003305 EamA-like transporter family; Region: EamA; cl17759 667015003306 alpha-galactosidase; Region: PLN02808; cl17638 667015003307 Carbohydrate Binding Module family 35 (CBM35); appended mainly to enzymes that bind alpha-D-galactose (CBM35-Gal), including glycoside hydrolase (GH) families GH31 and GH43; Region: CBM35_galactosidase-like; cd04081 667015003308 Ca binding site [ion binding]; other site 667015003309 Glycosyl hydrolase family 59; Region: Glyco_hydro_59; pfam02057 667015003310 Septum formation initiator; Region: DivIC; pfam04977 667015003311 DNA polymerase III subunits gamma and tau; Provisional; Region: PRK14971 667015003312 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 667015003313 Walker A motif; other site 667015003314 ATP binding site [chemical binding]; other site 667015003315 Walker B motif; other site 667015003316 arginine finger; other site 667015003317 7-cyano-7-deazaguanine reductase; Provisional; Region: PRK13258 667015003318 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 667015003319 Ligand Binding Site [chemical binding]; other site 667015003320 Uncharacterized ACR, YhhQ family COG1738; Region: DUF165; pfam02592 667015003321 Thermotoga maritima CorA_like subfamily; Region: TmCorA-like_1; cd12828 667015003322 CorA-like Mg2+ transporter protein; Region: CorA; pfam01544 667015003323 oligomer interface [polypeptide binding]; other site 667015003324 metal binding site [ion binding]; metal-binding site 667015003325 metal binding site [ion binding]; metal-binding site 667015003326 Cl binding site [ion binding]; other site 667015003327 aspartate ring; other site 667015003328 basic sphincter; other site 667015003329 putative hydrophobic gate; other site 667015003330 periplasmic entrance; other site 667015003331 Predicted EndoIII-related endonuclease [DNA replication, recombination, and repair]; Region: Nth; COG0177 667015003332 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 667015003333 minor groove reading motif; other site 667015003334 helix-hairpin-helix signature motif; other site 667015003335 substrate binding pocket [chemical binding]; other site 667015003336 active site 667015003337 Iron-sulfur binding domain of endonuclease III; Region: EndIII_4Fe-2S; pfam10576 667015003338 succinate CoA transferase; Region: YgfH_subfam; TIGR03458 667015003339 Acetyl-CoA hydrolase/transferase N-terminal domain; Region: AcetylCoA_hydro; pfam02550 667015003340 Acetyl-CoA hydrolase/transferase C-terminal domain; Region: AcetylCoA_hyd_C; pfam13336 667015003341 amino acid/peptide transporter (Peptide:H+ symporter), bacterial; Region: yjdL_sub1_fam; TIGR00924 667015003342 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 667015003343 putative substrate translocation pore; other site 667015003344 POT family; Region: PTR2; cl17359 667015003345 glycerate kinase; Region: TIGR00045 667015003346 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 667015003347 putative deacylase active site [active] 667015003348 excinuclease ABC subunit A; Reviewed; Region: uvrA; PRK00349 667015003349 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 667015003350 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 667015003351 ATP-binding cassette domain II of the excision repair protein UvrA; Region: ABC_UvrA_II; cd03271 667015003352 AmmeMemoRadiSam system radical SAM enzyme; Region: AmmeMemoSam_rS; TIGR04337 667015003353 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 667015003354 FeS/SAM binding site; other site 667015003355 Memo (mediator of ErbB2-driven cell motility) is co-precipitated with the C terminus of ErbB2, a protein involved in cell motility; Region: MEMO_like; cd07361 667015003356 putative ligand binding pocket/active site [active] 667015003357 putative metal binding site [ion binding]; other site 667015003358 AmmeMemoRadiSam system protein A; Region: AmmeMemoSam_A; TIGR04335 667015003359 AMMECR1; Region: AMMECR1; pfam01871 667015003360 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 667015003361 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 667015003362 putative dimer interface [polypeptide binding]; other site 667015003363 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 667015003364 Coenzyme A binding pocket [chemical binding]; other site 667015003365 Uncharacterized conserved protein [Function unknown]; Region: COG1284 667015003366 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 667015003367 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 667015003368 Uncharacterized protein conserved in bacteria (DUF2179); Region: DUF2179; pfam10035 667015003369 Predicted transcriptional regulator containing an HTH domain and an uncharacterized domain shared with the mammalian protein Schlafen [Transcription]; Region: COG2865 667015003370 Divergent AAA domain; Region: AAA_4; pfam04326 667015003371 ATP-dependent DNA helicase recG C-terminal; Region: HATPase_c_4; pfam13749 667015003372 Winged helix-turn-helix DNA-binding; Region: HTH_24; pfam13412 667015003373 iron-dicitrate transporter ATP-binding subunit; Provisional; Region: fecE; PRK11231 667015003374 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 667015003375 Walker A/P-loop; other site 667015003376 ATP binding site [chemical binding]; other site 667015003377 Q-loop/lid; other site 667015003378 ABC transporter signature motif; other site 667015003379 Walker B; other site 667015003380 D-loop; other site 667015003381 H-loop/switch region; other site 667015003382 Glyceraldehyde-3-phosphate dehydrogenase/erythrose-4-phosphate dehydrogenase [Carbohydrate transport and metabolism]; Region: GapA; COG0057 667015003383 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; pfam00044 667015003384 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 667015003385 beta-D-glucoside glucohydrolase; Provisional; Region: PRK15098 667015003386 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; pfam00933 667015003387 Fibronectin type III-like domain; Region: Fn3-like; pfam14310 667015003388 GMP synthase; Reviewed; Region: guaA; PRK00074 667015003389 Type 1 glutamine amidotransferase (GATase1) domain found in GMP synthetase; Region: GATase1_GMP_Synthase; cd01742 667015003390 AMP/PPi binding site [chemical binding]; other site 667015003391 candidate oxyanion hole; other site 667015003392 catalytic triad [active] 667015003393 potential glutamine specificity residues [chemical binding]; other site 667015003394 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 667015003395 ATP Binding subdomain [chemical binding]; other site 667015003396 Ligand Binding sites [chemical binding]; other site 667015003397 Dimerization subdomain; other site 667015003398 Putative glycoside hydrolase xylanase; Region: Xylanase; pfam13201 667015003399 Lipocalin-like domain; Region: Lipocalin_6; pfam13944 667015003400 elongation factor P; Validated; Region: PRK00529 667015003401 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 667015003402 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 667015003403 RNA binding site [nucleotide binding]; other site 667015003404 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 667015003405 RNA binding site [nucleotide binding]; other site 667015003406 50S ribosomal protein L34; Reviewed; Region: rpmH; PRK00399 667015003407 PASTA domain of bacterial serine/threonine kinase pknB-like proteins. PknB is a member of a group of related transmembrane sensor kinases present in many gram positive bacteria, which has been shown to regulate cell shape in Mycobacterium tubercolosis; Region: PASTA_pknB; cd06577 667015003408 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 667015003409 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 667015003410 RNA binding surface [nucleotide binding]; other site 667015003411 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 667015003412 active site 667015003413 D-alanyl-alanine synthetase A; Reviewed; Region: ddl; PRK01966 667015003414 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 667015003415 ATP-grasp domain; Region: ATP-grasp_4; cl17255 667015003416 NigD-like protein; Region: NigD; pfam12667 667015003417 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 667015003418 active site residue [active] 667015003419 N-acetylornithine carbamoyltransferase; Reviewed; Region: PRK04523 667015003420 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 667015003421 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 667015003422 Gamma-glutamyl phosphate reductase (GPR), aldehyde dehydrogenase families 18 and 19; Region: ALDH_F18-19_ProA-GPR; cd07079 667015003423 gamma-glutamyl phosphate reductase; Region: proA; TIGR00407 667015003424 putative catalytic cysteine [active] 667015003425 Domain of unknown function (DUF2007); Region: DUF2007; pfam09413 667015003426 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 667015003427 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 667015003428 N-acetyl-D-glucosamine binding site [chemical binding]; other site 667015003429 catalytic residue [active] 667015003430 tRNA threonylcarbamoyl adenosine modification protein YeaZ; Region: T6A_YeaZ; TIGR03725 667015003431 Glycoprotease family; Region: Peptidase_M22; pfam00814 667015003432 Domain of unknown function (DUF4290); Region: DUF4290; pfam14123 667015003433 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Region: murA; TIGR01072 667015003434 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 667015003435 hinge; other site 667015003436 active site 667015003437 16S rRNA-processing protein RimM; Provisional; Region: rimM; PRK00122 667015003438 RimM N-terminal domain; Region: RimM; pfam01782 667015003439 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 667015003440 Peptidase family M23; Region: Peptidase_M23; pfam01551 667015003441 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Provisional; Region: PRK05447 667015003442 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Region: DXP_reductoisom; pfam02670 667015003443 1-deoxy-D-xylulose 5-phosphate reductoisomerase C-terminal; Region: DXP_redisom_C; pfam08436 667015003444 DXP reductoisomerase C-terminal domain; Region: DXPR_C; pfam13288 667015003445 RIP metalloprotease RseP; Region: TIGR00054 667015003446 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 667015003447 active site 667015003448 PDZ domain, also called DHR (Dlg homologous region) or GLGF (after a conserved sequence motif). Many PDZ domains bind C-terminal polypeptides, though binding to internal (non-C-terminal) polypeptides and even to lipids has been demonstrated; Region: PDZ; cl00117 667015003449 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 667015003450 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 667015003451 putative substrate binding region [chemical binding]; other site 667015003452 prolipoprotein diacylglyceryl transferase; Reviewed; Region: PRK00052 667015003453 Dipeptidyl peptidase IV (DPP IV) N-terminal region; Region: DPPIV_N; pfam00930 667015003454 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 667015003455 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 667015003456 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 667015003457 Archaeal ATPase; Region: Arch_ATPase; pfam01637 667015003458 Walker A motif; other site 667015003459 ATP binding site [chemical binding]; other site 667015003460 Walker B motif; other site 667015003461 Domain of unknown function (DUF4143); Region: DUF4143; pfam13635 667015003462 Protein of unknown function (DUF1810); Region: DUF1810; pfam08837 667015003463 ADP-ribosylglycohydrolase; Region: ADP_ribosyl_GH; cl00614 667015003464 Protein of unknown function (DUF3575); Region: DUF3575; pfam12099 667015003465 Domain of unknown function, B. Theta Gene description (DUF3868); Region: DUF3868; pfam12984 667015003466 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cl02931 667015003467 ligand binding site [chemical binding]; other site 667015003468 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 667015003469 TPR motif; other site 667015003470 binding surface 667015003471 Fimbrillin-A associated anchor proteins Mfa1 and Mfa2; Region: Mfa2; pfam08842 667015003472 murein hydrolase B; Provisional; Region: PRK10760; cl17906 667015003473 Protein of unknown function (DUF3988); Region: DUF3988; pfam13149 667015003474 C-terminal domain found in Bacteroides fragilisNctc 9343 BF2867 and related proteins; Region: BF2867_like_C; cd13121 667015003475 N-terminal domain found in Bacteroides fragilis Nctc 9343 BF2867 and related proteins; Region: BF2867_like_N; cd13120 667015003476 Protein of unknown function (DUF3988); Region: DUF3988; pfam13149 667015003477 EamA-like transporter family; Region: EamA; pfam00892 667015003478 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 667015003479 EamA-like transporter family; Region: EamA; pfam00892 667015003480 anaerobic sulfatase-maturase; Provisional; Region: PRK13745 667015003481 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 667015003482 FeS/SAM binding site; other site 667015003483 radical SAM additional 4Fe4S-binding SPASM domain; Region: rSAM_more_4Fe4S; TIGR04085 667015003484 Probable polygalacturonase At3g15720; Region: PLN03003; cl14103 667015003485 Pectate lyase superfamily protein; Region: Pectate_lyase_3; pfam12708 667015003486 Arylsulfatase A and related enzymes [Inorganic ion transport and metabolism]; Region: AslA; COG3119 667015003487 Sulfatase; Region: Sulfatase; pfam00884 667015003488 DHPS subgroup of Pterin binding enzymes. DHPS (dihydropteroate synthase), a functional homodimer, catalyzes the condensation of p-aminobenzoic acid (pABA) in the de novo biosynthesis of folate, which is an essential cofactor in both nucleic acid and...; Region: DHPS; cd00739 667015003489 dihydropteroate synthase; Region: DHPS; TIGR01496 667015003490 substrate binding pocket [chemical binding]; other site 667015003491 dimer interface [polypeptide binding]; other site 667015003492 inhibitor binding site; inhibition site 667015003493 Uncharacterized conserved protein [Function unknown]; Region: COG1624 667015003494 DisA bacterial checkpoint controller nucleotide-binding; Region: DisA_N; pfam02457 667015003495 iojap-like ribosome-associated protein; Region: iojap_ybeB; TIGR00090 667015003496 FtsH Extracellular; Region: FtsH_ext; pfam06480 667015003497 ATP-dependent metalloprotease FtsH; Region: FtsH_fam; TIGR01241 667015003498 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 667015003499 Walker A motif; other site 667015003500 ATP binding site [chemical binding]; other site 667015003501 Walker B motif; other site 667015003502 arginine finger; other site 667015003503 Peptidase family M41; Region: Peptidase_M41; pfam01434 667015003504 CDP-diglyceride synthetase [Lipid metabolism]; Region: CdsA; COG0575 667015003505 Cytidylyltransferase family; Region: CTP_transf_1; pfam01148 667015003506 lipid-A-disaccharide synthase; Reviewed; Region: lpxB; PRK00025 667015003507 ipid-A-disaccharide synthase; Provisional; Region: PRK14089 667015003508 5'(3')-nucleotidase/polyphosphatase; Provisional; Region: surE; PRK00346 667015003509 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 667015003510 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 667015003511 P-loop; other site 667015003512 Magnesium ion binding site [ion binding]; other site 667015003513 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 667015003514 Magnesium ion binding site [ion binding]; other site 667015003515 ParB/RepB/Spo0J family partition protein; Region: parB_part; TIGR00180 667015003516 ParB-like nuclease domain; Region: ParB; smart00470 667015003517 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 667015003518 N-acetyl-D-glucosamine binding site [chemical binding]; other site 667015003519 catalytic residue [active] 667015003520 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 667015003521 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 667015003522 HD domain; Region: HD_4; pfam13328 667015003523 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 667015003524 synthetase active site [active] 667015003525 NTP binding site [chemical binding]; other site 667015003526 metal binding site [ion binding]; metal-binding site 667015003527 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 667015003528 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 667015003529 Helix-Turn-Helix DNA binding domain of putative MlrA-like transcription regulators; Region: HTH_MlrA-like_sg2; cd04765 667015003530 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 667015003531 DNA binding residues [nucleotide binding] 667015003532 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 667015003533 Peptidase family M23; Region: Peptidase_M23; pfam01551 667015003534 alanyl-tRNA synthetase; Reviewed; Region: alaS; PRK00252 667015003535 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 667015003536 motif 1; other site 667015003537 active site 667015003538 motif 2; other site 667015003539 motif 3; other site 667015003540 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 667015003541 DHHA1 domain; Region: DHHA1; pfam02272 667015003542 Uncharacterized BCR, COG1636; Region: DUF208; pfam02677 667015003543 Winged helix DNA-binding domain; Region: HTH_27; pfam13463 667015003544 CoA-disulfide reductase; Region: CoA_CoA_reduc; TIGR03385 667015003545 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 667015003546 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 667015003547 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 667015003548 Member of the Rhodanese Homology Domain superfamily. Included in this CD are the Lactococcus lactis NADH oxidase, Bacillus cereus NADH dehydrogenase, and Bacteroides thetaiotaomicron pyridine nucleotide-disulphide oxidoreductase, and similar...; Region: RHOD_Pyr_redox; cd01524 667015003549 active site residue [active] 667015003550 SirA, YedF, and YeeD. Two-layered alpha/beta sandwich domain. SirA (also known as UvrY, and YhhP) belongs to a family of bacterial two-component response regulators that controls secondary metabolism and virulence. The other member of this...; Region: SirA_YedF_YeeD; cl00436 667015003551 CPxP motif; other site 667015003552 DsrE/DsrF/DrsH-like family; Region: DrsE_2; pfam13686 667015003553 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 667015003554 Cna protein B-type domain; Region: Cna_B_2; pfam13715 667015003555 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 667015003556 Starch-binding associating with outer membrane; Region: SusD-like_3; pfam14322 667015003557 starch binding outer membrane protein SusD; Region: SusD; cd08977 667015003558 SusD family; Region: SusD; pfam07980 667015003559 O-Glycosyl hydrolase [Cell envelope biogenesis, outer membrane]; Region: COG5520 667015003560 Beta-galactosidase/beta-glucuronidase [Carbohydrate transport and metabolism]; Region: LacZ; COG3250 667015003561 Glycosyl hydrolases family 2, sugar binding domain; Region: Glyco_hydro_2_N; pfam02837 667015003562 Glycosyl hydrolases family 2; Region: Glyco_hydro_2; pfam00703 667015003563 Glycosyl hydrolases family 2, TIM barrel domain; Region: Glyco_hydro_2_C; pfam02836 667015003564 Predicted periplasmic ligand-binding sensor domain [Signal transduction mechanisms]; Region: COG3292 667015003565 Two component regulator propeller; Region: Reg_prop; pfam07494 667015003566 Y_Y_Y domain; Region: Y_Y_Y; pfam07495 667015003567 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 667015003568 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 667015003569 dimer interface [polypeptide binding]; other site 667015003570 phosphorylation site [posttranslational modification] 667015003571 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 667015003572 ATP binding site [chemical binding]; other site 667015003573 Mg2+ binding site [ion binding]; other site 667015003574 G-X-G motif; other site 667015003575 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 667015003576 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 667015003577 active site 667015003578 phosphorylation site [posttranslational modification] 667015003579 intermolecular recognition site; other site 667015003580 dimerization interface [polypeptide binding]; other site 667015003581 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 667015003582 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 667015003583 Carboxypeptidase regulatory-like domain; Region: CarboxypepD_reg; pfam13620 667015003584 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 667015003585 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 667015003586 Type I phosphodiesterase / nucleotide pyrophosphatase; Region: Phosphodiest; pfam01663 667015003587 phosphonoacetate hydrolase; Region: hydr_PhnA; TIGR02335 667015003588 nucleoside triphosphate pyrophosphohydrolase; Reviewed; Region: mazG; PRK09562 667015003589 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 667015003590 homodimer interface [polypeptide binding]; other site 667015003591 metal binding site [ion binding]; metal-binding site 667015003592 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 667015003593 homodimer interface [polypeptide binding]; other site 667015003594 active site 667015003595 putative chemical substrate binding site [chemical binding]; other site 667015003596 metal binding site [ion binding]; metal-binding site 667015003597 Starch-binding associating with outer membrane; Region: SusD-like_3; pfam14322 667015003598 starch binding outer membrane protein SusD; Region: SusD; cl17845 667015003599 SusD family; Region: SusD; pfam07980 667015003600 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 667015003601 Cna protein B-type domain; Region: Cna_B_2; pfam13715 667015003602 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 667015003603 Carboxypeptidase regulatory-like domain; Region: CarboxypepD_reg; pfam13620 667015003604 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 667015003605 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 667015003606 active site 667015003607 metal binding site [ion binding]; metal-binding site 667015003608 Major intrinsic protein (MIP) superfamily. Members of the MIP superfamily function as membrane channels that selectively transport water, small neutral molecules, and ions out of and between cells. The channel proteins share a common fold: the N-terminal...; Region: MIP; cl00200 667015003609 amphipathic channel; other site 667015003610 Asn-Pro-Ala signature motifs; other site 667015003611 Protein of unknown function (DUF2582); Region: DUF2582; pfam10771 667015003612 Putative redox-active protein (C_GCAxxG_C_C); Region: C_GCAxxG_C_C; pfam09719 667015003613 2-hydroxyacid dehydrogenase; Provisional; Region: PRK08410 667015003614 Putative D-isomer specific 2-hydroxyacid dehydrogenases; Region: 2-Hacid_dh_4; cd12162 667015003615 putative ligand binding site [chemical binding]; other site 667015003616 putative NAD binding site [chemical binding]; other site 667015003617 catalytic site [active] 667015003618 recombination factor protein RarA; Reviewed; Region: PRK13342 667015003619 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 667015003620 Walker A motif; other site 667015003621 ATP binding site [chemical binding]; other site 667015003622 Walker B motif; other site 667015003623 arginine finger; other site 667015003624 MgsA AAA+ ATPase C terminal; Region: MgsA_C; pfam12002 667015003625 phosphonoacetaldehyde hydrolase; Provisional; Region: PRK13478 667015003626 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 667015003627 motif II; other site 667015003628 2-aminoethylphosphonate--pyruvate transaminase; Provisional; Region: PRK13479 667015003629 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 667015003630 catalytic residue [active] 667015003631 Plasmid pRiA4b ORF-3-like protein; Region: PRiA4_ORF3; pfam07929 667015003632 Predicted nuclease of the RNAse H fold, HicB family [General function prediction only]; Region: HicB; COG4226 667015003633 HicB family; Region: HicB; pfam05534 667015003634 Very Short Patch Repair (Vsr) Endonuclease. Endonucleases in DNA repair that recognize damaged DNA and cleave the phosphodiester backbone. Vsr endonucleases have a common endonuclease topology that has been tailored for recognition of TG mismatches; Region: Vsr; cd00221 667015003635 additional DNA contacts [nucleotide binding]; other site 667015003636 mismatch recognition site; other site 667015003637 active site 667015003638 zinc binding site [ion binding]; other site 667015003639 DNA intercalation site [nucleotide binding]; other site 667015003640 HaeIII restriction endonuclease; Region: RE_HaeIII; pfam09556 667015003641 Cytosine-C5 specific DNA methylases; Methyl transfer reactions play an important role in many aspects of biology. Cytosine-specific DNA methylases are found both in prokaryotes and eukaryotes. DNA methylation, or the covalent addition of a methyl group...; Region: Cyt_C5_DNA_methylase; cd00315 667015003642 C-5 cytosine-specific DNA methylase; Region: DNA_methylase; pfam00145 667015003643 cofactor binding site; other site 667015003644 DNA binding site [nucleotide binding] 667015003645 substrate interaction site [chemical binding]; other site 667015003646 Cytosine-C5 specific DNA methylases; Methyl transfer reactions play an important role in many aspects of biology. Cytosine-specific DNA methylases are found both in prokaryotes and eukaryotes. DNA methylation, or the covalent addition of a methyl group...; Region: Cyt_C5_DNA_methylase; cd00315 667015003647 C-5 cytosine-specific DNA methylase; Region: DNA_methylase; pfam00145 667015003648 cofactor binding site; other site 667015003649 DNA binding site [nucleotide binding] 667015003650 substrate interaction site [chemical binding]; other site 667015003651 Y_Y_Y domain; Region: Y_Y_Y; pfam07495 667015003652 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 667015003653 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 667015003654 dimer interface [polypeptide binding]; other site 667015003655 phosphorylation site [posttranslational modification] 667015003656 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 667015003657 ATP binding site [chemical binding]; other site 667015003658 Mg2+ binding site [ion binding]; other site 667015003659 G-X-G motif; other site 667015003660 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 667015003661 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 667015003662 active site 667015003663 phosphorylation site [posttranslational modification] 667015003664 intermolecular recognition site; other site 667015003665 dimerization interface [polypeptide binding]; other site 667015003666 Helix-turn-helix domain; Region: HTH_18; pfam12833 667015003667 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 667015003668 Starch-binding associating with outer membrane; Region: SusD-like_3; pfam14322 667015003669 starch binding outer membrane protein SusD; Region: SusD; cd08977 667015003670 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 667015003671 Cna protein B-type domain; Region: Cna_B_2; pfam13715 667015003672 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 667015003673 TonB dependent receptor; Region: TonB_dep_Rec; pfam00593 667015003674 Glycosyl hydrolase families: GH43, GH62, GH32, GH68; Region: GH43_62_32_68; cl14647 667015003675 active site 667015003676 DNA-binding protein, histone-like, putative; Region: HU_rel; TIGR01201 667015003677 DeoR-like helix-turn-helix domain; Region: HTH_DeoR; cl17531 667015003678 glutaminyl-tRNA synthetase; Provisional; Region: PRK05347 667015003679 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 667015003680 active site 667015003681 HIGH motif; other site 667015003682 nucleotide binding site [chemical binding]; other site 667015003683 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 667015003684 active site 667015003685 KMSKS motif; other site 667015003686 tRNA synthetases class I (E and Q), anti-codon binding domain; Region: tRNA-synt_1c_C; pfam03950 667015003687 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 667015003688 binding surface 667015003689 TPR motif; other site 667015003690 Anaphase-promoting complex, cyclosome, subunit 3; Region: Apc3; pfam12895 667015003691 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 667015003692 binding surface 667015003693 TPR motif; other site 667015003694 TPR repeat; Region: TPR_11; pfam13414 667015003695 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 667015003696 binding surface 667015003697 TPR motif; other site 667015003698 ATP phosphoribosyltransferase; Reviewed; Region: hisG; PRK00489 667015003699 ATP phosphoribosyltransferase; Region: hisG; TIGR00070 667015003700 ATP phosphoribosyltransferase, C-terminal domain; Region: HisG_C-term; TIGR03455 667015003701 Histidinol dehydrogenase, HisD, E.C 1.1.1.23. Histidinol dehydrogenase catalyzes the last two steps in the L-histidine biosynthesis pathway, which is conserved in bacteria, archaea, fungi, and plants. These last two steps are (i) the NAD-dependent...; Region: Histidinol_dh; cd06572 667015003702 histidinol dehydrogenase; Region: hisD; TIGR00069 667015003703 NAD binding site [chemical binding]; other site 667015003704 dimerization interface [polypeptide binding]; other site 667015003705 product binding site; other site 667015003706 substrate binding site [chemical binding]; other site 667015003707 zinc binding site [ion binding]; other site 667015003708 catalytic residues [active] 667015003709 histidinol-phosphate aminotransferase; Region: hisC; TIGR01141 667015003710 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 667015003711 pyridoxal 5'-phosphate binding site [chemical binding]; other site 667015003712 homodimer interface [polypeptide binding]; other site 667015003713 catalytic residue [active] 667015003714 imidazole glycerol-phosphate dehydratase/histidinol phosphatase; Provisional; Region: PRK05446 667015003715 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 667015003716 active site 667015003717 motif I; other site 667015003718 motif II; other site 667015003719 Imidazoleglycerol-phosphate dehydratase; Region: IGPD; cd07914 667015003720 putative active site pocket [active] 667015003721 4-fold oligomerization interface [polypeptide binding]; other site 667015003722 metal binding residues [ion binding]; metal-binding site 667015003723 3-fold/trimer interface [polypeptide binding]; other site 667015003724 Domain of unknown function (DUF4301); Region: DUF4301; pfam14134 667015003725 HD domain; Region: HD_4; pfam13328 667015003726 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 667015003727 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 667015003728 synthetase active site [active] 667015003729 NTP binding site [chemical binding]; other site 667015003730 metal binding site [ion binding]; metal-binding site 667015003731 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 667015003732 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 667015003733 Protein of unknown function (DUF3108); Region: DUF3108; pfam11306 667015003734 AMP-binding domain protein; Validated; Region: PRK08315 667015003735 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 667015003736 Uncharacterized subfamily of fatty acid CoA ligase (FACL); Region: FACL_like_2; cd05917 667015003737 acyl-activating enzyme (AAE) consensus motif; other site 667015003738 putative AMP binding site [chemical binding]; other site 667015003739 putative active site [active] 667015003740 putative CoA binding site [chemical binding]; other site 667015003741 DNA-binding transcriptional repressor PuuR; Provisional; Region: PRK09943 667015003742 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 667015003743 non-specific DNA binding site [nucleotide binding]; other site 667015003744 salt bridge; other site 667015003745 sequence-specific DNA binding site [nucleotide binding]; other site 667015003746 Cupin domain; Region: Cupin_2; pfam07883 667015003747 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 667015003748 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 667015003749 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 667015003750 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 667015003751 HlyD family secretion protein; Region: HlyD_3; pfam13437 667015003752 Helix-turn-helix domain; Region: HTH_18; pfam12833 667015003753 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 667015003754 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 667015003755 EamA-like transporter family; Region: EamA; pfam00892 667015003756 Linear amide C-N hydrolases, choloylglycine hydrolase family; Region: CBAH; pfam02275 667015003757 Penicillin V acylase (PVA), also known as conjugated bile salt acid hydrolase (CBAH), catalyzes the hydrolysis of penicillin V to yield 6-amino penicillanic acid (6-APA), an important key intermediate of semisynthetic penicillins. PVA has an N-terminal...; Region: Ntn_PVA; cd00542 667015003758 active site 667015003759 DEAD-like helicases superfamily; Region: DEXDc; smart00487 667015003760 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 667015003761 ATP binding site [chemical binding]; other site 667015003762 putative Mg++ binding site [ion binding]; other site 667015003763 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 667015003764 nucleotide binding region [chemical binding]; other site 667015003765 ATP-binding site [chemical binding]; other site 667015003766 single-stranded-DNA-specific exonuclease RecJ; Region: recJ; TIGR00644 667015003767 DHH family; Region: DHH; pfam01368 667015003768 DHHA1 domain; Region: DHHA1; pfam02272 667015003769 Peptidase C1-like family; Region: Peptidase_C1_2; cl17447 667015003770 Aminopeptidase P, N-terminal domain; Region: AMP_N; smart01011 667015003771 proline aminopeptidase P II; Provisional; Region: PRK10879 667015003772 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 667015003773 active site 667015003774 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: COG4667 667015003775 Hypothetical patatin similar to yjju protein of Escherichia coli; Region: Pat_hypo_Ecoli_yjju_like; cd07208 667015003776 active site 667015003777 nucleophile elbow; other site 667015003778 Domain of unknown function (DUF4157); Region: DUF4157; pfam13699 667015003779 recombinase A; Provisional; Region: recA; PRK09354 667015003780 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 667015003781 hexamer interface [polypeptide binding]; other site 667015003782 Walker A motif; other site 667015003783 ATP binding site [chemical binding]; other site 667015003784 Walker B motif; other site 667015003785 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 667015003786 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 667015003787 catalytic triad [active] 667015003788 Saccharopine dehydrogenase and related proteins [Amino acid transport and metabolism]; Region: LYS9; COG1748 667015003789 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 667015003790 META domain; Region: META; pfam03724 667015003791 META domain; Region: META; pfam03724 667015003792 Cna protein B-type domain; Region: Cna_B_2; pfam13715 667015003793 molecular chaperone DnaK; Provisional; Region: dnaK; PRK00290 667015003794 Nucleotide-binding domain of human HSPA9 and similar proteins; Region: HSPA9-Ssq1-like_NBD; cd10234 667015003795 nucleotide binding site [chemical binding]; other site 667015003796 NEF interaction site [polypeptide binding]; other site 667015003797 SBD interface [polypeptide binding]; other site 667015003798 Very Short Patch Repair (Vsr) Endonuclease. Endonucleases in DNA repair that recognize damaged DNA and cleave the phosphodiester backbone. Vsr endonucleases have a common endonuclease topology that has been tailored for recognition of TG mismatches; Region: Vsr; cd00221 667015003799 additional DNA contacts [nucleotide binding]; other site 667015003800 mismatch recognition site; other site 667015003801 active site 667015003802 zinc binding site [ion binding]; other site 667015003803 DNA intercalation site [nucleotide binding]; other site 667015003804 Domain of unknown function (DUF2357); Region: DUF2357; pfam09823 667015003805 Protein of unknown function (DUF524); Region: DUF524; pfam04411 667015003806 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 667015003807 C-5 cytosine-specific DNA methylase; Region: DNA_methylase; pfam00145 667015003808 Cytosine-C5 specific DNA methylases; Methyl transfer reactions play an important role in many aspects of biology. Cytosine-specific DNA methylases are found both in prokaryotes and eukaryotes. DNA methylation, or the covalent addition of a methyl group...; Region: Cyt_C5_DNA_methylase; cd00315 667015003809 cofactor binding site; other site 667015003810 DNA binding site [nucleotide binding] 667015003811 substrate interaction site [chemical binding]; other site 667015003812 Cytosine-C5 specific DNA methylases; Methyl transfer reactions play an important role in many aspects of biology. Cytosine-specific DNA methylases are found both in prokaryotes and eukaryotes. DNA methylation, or the covalent addition of a methyl group...; Region: Cyt_C5_DNA_methylase; cd00315 667015003813 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 667015003814 non-specific DNA binding site [nucleotide binding]; other site 667015003815 salt bridge; other site 667015003816 sequence-specific DNA binding site [nucleotide binding]; other site 667015003817 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 667015003818 Shewanella-like phosphatases, metallophosphatase domain; Region: MPP_Shelphs; cd07425 667015003819 active site 667015003820 metal binding site [ion binding]; metal-binding site 667015003821 IS66 Orf2 like protein; Region: TnpB_IS66; pfam05717 667015003822 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 667015003823 Transposase IS66 family; Region: DDE_Tnp_IS66; pfam03050 667015003824 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 667015003825 Transposase; Region: DEDD_Tnp_IS110; pfam01548 667015003826 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 667015003827 Superfamily II DNA helicase [DNA replication, recombination, and repair]; Region: RecQ; COG0514 667015003828 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 667015003829 ATP binding site [chemical binding]; other site 667015003830 putative Mg++ binding site [ion binding]; other site 667015003831 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 667015003832 nucleotide binding region [chemical binding]; other site 667015003833 ATP-binding site [chemical binding]; other site 667015003834 AAA domain; Region: AAA_30; pfam13604 667015003835 Superfamily I DNA and RNA helicases [DNA replication, recombination, and repair]; Region: UvrD; COG0210 667015003836 Family description; Region: UvrD_C_2; pfam13538 667015003837 Alpha-glucosidases, family 31 of glycosyl hydrolases [Carbohydrate transport and metabolism]; Region: COG1501 667015003838 Galactose mutarotase-like; Region: Gal_mutarotas_2; pfam13802 667015003839 Glycosyl hydrolases family 31; Region: Glyco_hydro_31; pfam01055 667015003840 active site 667015003841 catalytic site [active] 667015003842 Abhydrolase family; Region: Abhydrolase_7; pfam12715 667015003843 acyl-CoA thioesterase; Provisional; Region: PRK10531 667015003844 Starch-binding associating with outer membrane; Region: SusD-like_3; pfam14322 667015003845 starch binding outer membrane protein SusD; Region: SusD; cd08977 667015003846 SusD family; Region: SusD; pfam07980 667015003847 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 667015003848 Cna protein B-type domain; Region: Cna_B_2; pfam13715 667015003849 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 667015003850 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 667015003851 Fe2+-dicitrate sensor, membrane component [Inorganic ion transport and metabolism / Signal transduction mechanisms]; Region: FecR; COG3712 667015003852 FecR protein; Region: FecR; pfam04773 667015003853 RNA polymerase sigma-70 factor, Bacteroides expansion family 1; Region: Sig70_bacteroi1; TIGR02985 667015003854 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 667015003855 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 667015003856 DNA binding residues [nucleotide binding] 667015003857 DNA-binding transcriptional regulator AsnC; Provisional; Region: PRK11179 667015003858 AsnC-type helix-turn-helix domain; Region: HTH_AsnC-type; pfam13404 667015003859 putative DNA binding site [nucleotide binding]; other site 667015003860 putative Zn2+ binding site [ion binding]; other site 667015003861 AsnC family; Region: AsnC_trans_reg; pfam01037 667015003862 butyrate kinase; Provisional; Region: PRK03011 667015003863 Phosphate acetyl/butaryl transferase; Region: PTA_PTB; cl17212 667015003864 Peptidase C26; Region: Peptidase_C26; pfam07722 667015003865 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_2; cd01745 667015003866 catalytic triad [active] 667015003867 renal dipeptidase (rDP), best studied in mammals and also called membrane or microsomal dipeptidase, is a membrane-bound glycoprotein hydrolyzing dipeptides and is involved in hydrolytic metabolism of penem and carbapenem beta-lactam antibiotics; Region: rDP_like; cd01301 667015003868 Zn-dependent dipeptidase, microsomal dipeptidase homolog [Amino acid transport and metabolism]; Region: COG2355 667015003869 active site 667015003870 dimer interface [polypeptide binding]; other site 667015003871 Fimbrillin-A associated anchor proteins Mfa1 and Mfa2; Region: Mfa2; pfam08842 667015003872 Protein of unknown function (DUF3109); Region: DUF3109; pfam11307 667015003873 phosphoglyceromutase; Provisional; Region: PRK05434 667015003874 2,3-bisphosphoglycerate-independent phosphoglycerate mutase; Region: pgm_bpd_ind; TIGR01307 667015003875 Glycosyl Hydrolase Family 88; Region: Glyco_hydro_88; pfam07470 667015003876 Uncharacterized protein conserved in bacteria (DUF2264); Region: DUF2264; pfam10022 667015003877 Putative glycosyl hydrolase of unknown function (DUF1680); Region: DUF1680; pfam07944 667015003878 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3533 667015003879 Glycosyl hydrolase family 43; Region: GH43_6; cd08985 667015003880 active site 667015003881 Uncharacterized protein conserved in bacteria (DUF2264); Region: DUF2264; pfam10022 667015003882 Laminarinase, member of the glycosyl hydrolase family 16; Region: GH16_laminarinase_like; cd08023 667015003883 active site 667015003884 catalytic residues [active] 667015003885 Uncharacterized protein conserved in bacteria (DUF2264); Region: DUF2264; pfam10022 667015003886 Starch-binding associating with outer membrane; Region: SusD-like_3; pfam14322 667015003887 starch binding outer membrane protein SusD; Region: SusD; cl17845 667015003888 SusD family; Region: SusD; pfam07980 667015003889 Cna protein B-type domain; Region: Cna_B_2; pfam13715 667015003890 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 667015003891 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 667015003892 TonB dependent receptor; Region: TonB_dep_Rec; pfam00593 667015003893 Predicted AAA-ATPase; Region: AAA-ATPase_like; pfam09820 667015003894 Protein of unknown function (DUF1703); Region: DUF1703; pfam08011 667015003895 Predicted periplasmic ligand-binding sensor domain [Signal transduction mechanisms]; Region: COG3292 667015003896 Y_Y_Y domain; Region: Y_Y_Y; pfam07495 667015003897 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 667015003898 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 667015003899 dimer interface [polypeptide binding]; other site 667015003900 phosphorylation site [posttranslational modification] 667015003901 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 667015003902 ATP binding site [chemical binding]; other site 667015003903 Mg2+ binding site [ion binding]; other site 667015003904 G-X-G motif; other site 667015003905 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 667015003906 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 667015003907 active site 667015003908 phosphorylation site [posttranslational modification] 667015003909 intermolecular recognition site; other site 667015003910 dimerization interface [polypeptide binding]; other site 667015003911 Helix-turn-helix domain; Region: HTH_18; pfam12833 667015003912 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 667015003913 UDP-N-acetylmuramyl pentapeptide synthase [Cell envelope biogenesis, outer membrane]; Region: MurF; COG0770 667015003914 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 667015003915 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 667015003916 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 667015003917 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 667015003918 PDZ domain; Region: PDZ_2; pfam13180 667015003919 C-terminal processing peptidase-like; serine protease family S41; Region: Peptidase_S41_CPP_like; cd07561 667015003920 Catalytic dyad [active] 667015003921 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 667015003922 glutamate dehydrogenase; Provisional; Region: PRK14030 667015003923 Glu/Leu/Phe/Val dehydrogenase, dimerisation domain; Region: ELFV_dehydrog_N; pfam02812 667015003924 NAD(P) binding domain of glutamate dehydrogenase, subgroup 2; Region: NAD_bind_2_Glu_DH; cd05313 667015003925 NAD(P) binding site [chemical binding]; other site 667015003926 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 667015003927 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 667015003928 intermolecular recognition site; other site 667015003929 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 667015003930 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 667015003931 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 667015003932 ligand binding site [chemical binding]; other site 667015003933 flexible hinge region; other site 667015003934 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 667015003935 putative switch regulator; other site 667015003936 non-specific DNA interactions [nucleotide binding]; other site 667015003937 DNA binding site [nucleotide binding] 667015003938 sequence specific DNA binding site [nucleotide binding]; other site 667015003939 putative cAMP binding site [chemical binding]; other site 667015003940 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cl11394 667015003941 active site 667015003942 Protein of unknown function (DUF3988); Region: DUF3988; pfam13149 667015003943 N-terminal domain found in Bacteroides fragilis Nctc 9343 BF2867 and related proteins; Region: BF2867_like_N; cd13120 667015003944 C-terminal domain found in Bacteroides fragilisNctc 9343 BF2867 and related proteins; Region: BF2867_like_C; cd13121 667015003945 Xaa-His dipeptidase; Region: aa-his-dipept; TIGR01893 667015003946 M20 Peptidase D has specificity for beta-alanyl-L-histidine dipeptide; Region: M20_pepD; cd03890 667015003947 metal binding site [ion binding]; metal-binding site 667015003948 dimer interface [polypeptide binding]; other site 667015003949 Uncharacterized protein family (UPF0104); Region: UPF0104; pfam03706 667015003950 16S ribosomal RNA methyltransferase KsgA/Dim1 family protein; Reviewed; Region: ksgA; PRK00274 667015003951 Dimethyladenosine transferase (rRNA methylation) [Translation, ribosomal structure and biogenesis]; Region: KsgA; COG0030 667015003952 Mg/Co/Ni transporter MgtE (contains CBS domain) [Inorganic ion transport and metabolism]; Region: MgtE; COG2239 667015003953 MgtE intracellular N domain; Region: MgtE_N; smart00924 667015003954 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 667015003955 Divalent cation transporter; Region: MgtE; pfam01769 667015003956 Domain of Unknown Function (DUF349); Region: DUF349; pfam03993 667015003957 Domain of Unknown Function (DUF349); Region: DUF349; pfam03993 667015003958 Domain of Unknown Function (DUF349); Region: DUF349; pfam03993 667015003959 Domain of Unknown Function (DUF349); Region: DUF349; pfam03993 667015003960 Domain of unknown function (DUF303); Region: DUF303; pfam03629 667015003961 Endoglucanase E-like members of the SGNH hydrolase family; Endoglucanase E catalyzes the endohydrolysis of 1,4-beta-glucosidic linkages in cellulose, lichenin and cereal beta-D-glucans; Region: Endoglucanase_E_like; cd01831 667015003962 active site 667015003963 catalytic triad [active] 667015003964 oxyanion hole [active] 667015003965 Carboxypeptidase regulatory-like domain; Region: CarboxypepD_reg; pfam13620 667015003966 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 667015003967 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 667015003968 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 667015003969 dimer interface [polypeptide binding]; other site 667015003970 phosphorylation site [posttranslational modification] 667015003971 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 667015003972 ATP binding site [chemical binding]; other site 667015003973 Mg2+ binding site [ion binding]; other site 667015003974 G-X-G motif; other site 667015003975 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 667015003976 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 667015003977 active site 667015003978 phosphorylation site [posttranslational modification] 667015003979 intermolecular recognition site; other site 667015003980 dimerization interface [polypeptide binding]; other site 667015003981 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 667015003982 DNA binding site [nucleotide binding] 667015003983 Predicted AAA-ATPase; Region: AAA-ATPase_like; pfam09820 667015003984 Protein of unknown function (DUF1703); Region: DUF1703; pfam08011 667015003985 isopentenyl-diphosphate delta-isomerase, type 1; Region: IPP_isom_1; TIGR02150 667015003986 Members of the Nudix hydrolase superfamily catalyze the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+, for their activity and contain a highly...; Region: Nudix_Hydrolase_34; cd04693 667015003987 nudix motif; other site 667015003988 radical SAM enzyme, rSAM/lipoprotein system; Region: rSAM_w_lipo; TIGR04133 667015003989 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 667015003990 FeS/SAM binding site; other site 667015003991 radical SAM additional 4Fe4S-binding SPASM domain; Region: rSAM_more_4Fe4S; TIGR04085 667015003992 putative lipoprotein, rSAM/lipoprotein system; Region: lipo_with_rSAM; TIGR04134 667015003993 Predicted membrane protein involved in D-alanine export [Cell envelope biogenesis, outer membrane]; Region: DltB; COG1696 667015003994 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 667015003995 active site 667015003996 catalytic triad [active] 667015003997 oxyanion hole [active] 667015003998 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 667015003999 SGNH_peri1; putative periplasmic member of the SGNH-family of hydrolases, a diverse family of lipases and esterases. The tertiary fold of the enzyme is substantially different from that of the alpha/beta hydrolase family and unique among all known...; Region: SGNH_hydrolase_peri1; cd01825 667015004000 active site 667015004001 oxyanion hole [active] 667015004002 catalytic triad [active] 667015004003 UDP-N-acetylglucosamine acyltransferase; Provisional; Region: PRK12461 667015004004 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 667015004005 active site 667015004006 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 667015004007 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 667015004008 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 667015004009 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 667015004010 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 667015004011 HlyD family secretion protein; Region: HlyD_3; pfam13437 667015004012 bifunctional malic enzyme oxidoreductase/phosphotransacetylase; Reviewed; Region: PRK07232 667015004013 Malic enzyme, N-terminal domain; Region: malic; pfam00390 667015004014 NAD(P) binding domain of malic enzyme (ME), subgroup 2; Region: NAD_bind_2_malic_enz; cd05311 667015004015 putative NAD(P) binding site [chemical binding]; other site 667015004016 Phosphotransacetylase [Energy production and conversion]; Region: Pta; COG0280 667015004017 glutamate dehydrogenase; Provisional; Region: PRK14031 667015004018 Glu/Leu/Phe/Val dehydrogenase, dimerisation domain; Region: ELFV_dehydrog_N; pfam02812 667015004019 NAD(P) binding domain of glutamate dehydrogenase, subgroup 2; Region: NAD_bind_2_Glu_DH; cd05313 667015004020 NAD(P) binding site [chemical binding]; other site 667015004021 Putative glycoside hydrolase xylanase; Region: Xylanase; pfam13201 667015004022 Outer membrane protein beta-barrel domain; Region: OMP_b-brl_2; pfam13568 667015004023 HpaII restriction endonuclease; Region: RE_HpaII; pfam09561 667015004024 Alpha amylase catalytic domain found in an uncharacterized protein family; Region: AmyAc_3; cd11349 667015004025 Glycosidases [Carbohydrate transport and metabolism]; Region: AmyA; COG0366 667015004026 active site 667015004027 catalytic site [active] 667015004028 Alpha amylase, C-terminal all-beta domain; Region: Alpha-amylase_C; pfam02806 667015004029 Beta-xylosidase [Carbohydrate transport and metabolism]; Region: XynB; COG3507 667015004030 Glycosyl hydrolase family 43, beta-D-xylosidase; Region: GH43_XYL_2; cd09001 667015004031 active site 667015004032 Endopygalactorunase [Cell envelope biogenesis, outer membrane]; Region: PGU1; COG5434 667015004033 Probable polygalacturonase At3g15720; Region: PLN03003; cl14103 667015004034 Enoyl acyl carrier protein (ACP) reductase (ENR), divergent SDR; Region: ENR_SDR; cd05372 667015004035 Enoyl-(Acyl carrier protein) reductase; Region: adh_short_C2; pfam13561 667015004036 NAD binding site [chemical binding]; other site 667015004037 homotetramer interface [polypeptide binding]; other site 667015004038 homodimer interface [polypeptide binding]; other site 667015004039 substrate binding site [chemical binding]; other site 667015004040 active site 667015004041 gliding motility-associated lipoprotein GldB; Region: GldB_lipo; TIGR03514 667015004042 Uncharacterized subfamily of the tetrapyrrole methylase family similar to ribosomal RNA small subunit methyltransferase I (RsmI); Region: RsmI_like; cd11649 667015004043 putative SAM binding site [chemical binding]; other site 667015004044 homodimer interface [polypeptide binding]; other site 667015004045 lipoyl synthase; Provisional; Region: PRK05481 667015004046 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 667015004047 FeS/SAM binding site; other site 667015004048 Dipeptidyl peptidase IV (DPP IV) N-terminal region; Region: DPPIV_N; pfam00930 667015004049 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 667015004050 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 667015004051 Catalytic domain, repeat 1, of bacterial cardiolipin synthase and similar proteins; Region: PLDc_CLS_1; cd09110 667015004052 PLD-like domain; Region: PLDc_2; pfam13091 667015004053 putative active site [active] 667015004054 catalytic site [active] 667015004055 catalytic domain repeat 2 of bacterial cardiolipin synthase and similar proteins; Region: PLDc_CLS_2; cd09112 667015004056 PLD-like domain; Region: PLDc_2; pfam13091 667015004057 putative active site [active] 667015004058 catalytic site [active] 667015004059 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 667015004060 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 667015004061 HlyD family secretion protein; Region: HlyD_3; pfam13437 667015004062 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 667015004063 Outer membrane efflux protein; Region: OEP; pfam02321 667015004064 Outer membrane efflux protein; Region: OEP; pfam02321 667015004065 Fimbrillin-A associated anchor proteins Mfa1 and Mfa2; Region: Mfa2; pfam08842 667015004066 Domain of unknown function, B. Theta Gene description (DUF3868); Region: DUF3868; pfam12984 667015004067 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cl02931 667015004068 ligand binding site [chemical binding]; other site 667015004069 Protein of unknown function (DUF3575); Region: DUF3575; pfam12099 667015004070 Flavodoxin domain; Region: Flavodoxin_5; cl17428 667015004071 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 667015004072 4Fe-4S dicluster domain; Region: Fer4_9; pfam13187 667015004073 Ribosomal protein L20; Region: Ribosomal_L20; cd07026 667015004074 23S rRNA binding site [nucleotide binding]; other site 667015004075 L21 binding site [polypeptide binding]; other site 667015004076 L13 binding site [polypeptide binding]; other site 667015004077 50S ribosomal protein L35; Reviewed; Region: rpmI; PRK00172 667015004078 Translation initiation factor IF-3, N-terminal domain; Region: IF3_N; pfam05198 667015004079 translation initiation factor IF-3; Reviewed; Region: infC; PRK00028 667015004080 Translation initiation factor IF-3, C-terminal domain; Region: IF3_C; pfam00707 667015004081 threonyl-tRNA synthetase; Reviewed; Region: thrS; PRK00413 667015004082 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 667015004083 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 667015004084 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 667015004085 active site 667015004086 dimer interface [polypeptide binding]; other site 667015004087 motif 1; other site 667015004088 motif 2; other site 667015004089 motif 3; other site 667015004090 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 667015004091 anticodon binding site; other site 667015004092 TPR repeat; Region: TPR_11; pfam13414 667015004093 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 667015004094 binding surface 667015004095 TPR motif; other site 667015004096 TPR repeat; Region: TPR_11; pfam13414 667015004097 TPR repeat; Region: TPR_11; pfam13414 667015004098 TPR repeat; Region: TPR_11; pfam13414 667015004099 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 667015004100 binding surface 667015004101 TPR motif; other site 667015004102 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 667015004103 binding surface 667015004104 TPR motif; other site 667015004105 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 667015004106 binding surface 667015004107 TPR motif; other site 667015004108 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 667015004109 TPR motif; other site 667015004110 TPR repeat; Region: TPR_11; pfam13414 667015004111 binding surface 667015004112 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 667015004113 active site 667015004114 catalytic residues [active] 667015004115 metal binding site [ion binding]; metal-binding site 667015004116 Uncharacterized protein family (UPF0081); Region: UPF0081; pfam03652 667015004117 Sporulation related domain; Region: SPOR; pfam05036 667015004118 potassium-transporting ATPase subunit B; Provisional; Region: PRK01122 667015004119 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 667015004120 Putative serine esterase (DUF676); Region: DUF676; pfam05057 667015004121 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 667015004122 Helix-turn-helix domain; Region: HTH_18; pfam12833 667015004123 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 667015004124 MreB/Mbl protein; Region: MreB_Mbl; pfam06723 667015004125 Nucleotide-binding domain of the HSP70 family; Region: HSP70_NBD; cd10170 667015004126 nucleotide binding site [chemical binding]; other site 667015004127 putative NEF/HSP70 interaction site [polypeptide binding]; other site 667015004128 SBD interface [polypeptide binding]; other site 667015004129 Melibiase; Region: Melibiase; pfam02065 667015004130 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 667015004131 non-specific DNA binding site [nucleotide binding]; other site 667015004132 salt bridge; other site 667015004133 sequence-specific DNA binding site [nucleotide binding]; other site 667015004134 Peptidase family M48; Region: Peptidase_M48; pfam01435 667015004135 Glycosyl hydrolases family 2, sugar binding domain; Region: Glyco_hydro_2_N; pfam02837 667015004136 Glycosyl hydrolases family 2; Region: Glyco_hydro_2; pfam00703 667015004137 Glycosyl hydrolases family 2, TIM barrel domain; Region: Glyco_hydro_2_C; pfam02836 667015004138 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 667015004139 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 667015004140 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 667015004141 Endo-beta-mannanase [Carbohydrate transport and metabolism]; Region: COG3934 667015004142 Sugar-binding cellulase-like; Region: Cellulase-like; pfam12876 667015004143 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 667015004144 Cna protein B-type domain; Region: Cna_B_2; pfam13715 667015004145 TonB-dependent outer membrane receptor, SusC/RagA subfamily, signature region; Region: SusC_RagA_signa; TIGR04057 667015004146 Starch-binding associating with outer membrane; Region: SusD-like_3; pfam14322 667015004147 starch binding outer membrane protein SusD; Region: SusD; cl17845 667015004148 SusD family; Region: SusD; pfam07980 667015004149 IPT/TIG domain; Region: TIG; pfam01833 667015004150 Domain of unknown function (DUF4426); Region: DUF4426; pfam14467 667015004151 Bacterial Ig-like domain; Region: Big_5; pfam13205 667015004152 Glycosyl hydrolase family 26; Region: Glyco_hydro_26; pfam02156 667015004153 Glycosyl hydrolase family 26; Region: Glyco_hydro_26; pfam02156 667015004154 Glycosyl hydrolase families: GH43, GH62, GH32, GH68; Region: GH43_62_32_68; cl14647 667015004155 active site 667015004156 Na+/melibiose symporter and related transporters [Carbohydrate transport and metabolism]; Region: MelB; COG2211 667015004157 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 667015004158 putative substrate translocation pore; other site 667015004159 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 667015004160 dimerization interface [polypeptide binding]; other site 667015004161 putative active cleft [active] 667015004162 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 667015004163 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 667015004164 substrate binding pocket [chemical binding]; other site 667015004165 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 667015004166 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 667015004167 O-Methyltransferase involved in polyketide biosynthesis [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3315 667015004168 Leucine carboxyl methyltransferase; Region: LCM; pfam04072 667015004169 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 667015004170 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 667015004171 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 667015004172 Walker A/P-loop; other site 667015004173 ATP binding site [chemical binding]; other site 667015004174 Q-loop/lid; other site 667015004175 ABC transporter signature motif; other site 667015004176 Walker B; other site 667015004177 D-loop; other site 667015004178 H-loop/switch region; other site 667015004179 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 667015004180 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 667015004181 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 667015004182 Walker A/P-loop; other site 667015004183 ATP binding site [chemical binding]; other site 667015004184 Q-loop/lid; other site 667015004185 ABC transporter signature motif; other site 667015004186 Walker B; other site 667015004187 D-loop; other site 667015004188 H-loop/switch region; other site 667015004189 L-cysteine desulfidase [Amino acid transport and metabolism]; Region: COG3681 667015004190 Divergent AAA domain; Region: AAA_4; pfam04326 667015004191 LrgB-like family; Region: LrgB; pfam04172 667015004192 Putative effector of murein hydrolase LrgA [General function prediction only]; Region: COG1380 667015004193 phosphotransacetylase; Reviewed; Region: eutD; PRK09653 667015004194 acetate kinase A/propionate kinase 2; Reviewed; Region: PRK00180 667015004195 propionate/acetate kinase; Provisional; Region: PRK12379 667015004196 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 667015004197 2-keto-3-deoxygluconate kinase (KdgK) phosphorylates 2-keto-3-deoxygluconate (KDG) to form 2-keto-3-deoxy-6-phosphogluconate (KDGP). KDG is the common intermediate product, that allows organisms to channel D-glucuronate and/or D-galacturinate into the...; Region: KdgK; cd01166 667015004198 substrate binding site [chemical binding]; other site 667015004199 ATP binding site [chemical binding]; other site 667015004200 Transcription antiterminator [Transcription]; Region: NusG; COG0250 667015004201 N-Utilization Substance G (NusG) N-terminal domain in the NusG Specialized Paralog (SP), UpxY; Region: NGN_SP_UpxY; cd09895 667015004202 Predicted AAA-ATPase; Region: AAA-ATPase_like; pfam09820 667015004203 Protein of unknown function (DUF1703); Region: DUF1703; pfam08011 667015004204 PIN domain; Region: PIN_3; pfam13470 667015004205 Uncharacterized subfamily of the multidrug and toxic compound extrusion (MATE) proteins; Region: MATE_tuaB_like; cd13127 667015004206 O-antigen ligase like membrane protein; Region: O-antigen_lig; pfam13425 667015004207 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cl11394 667015004208 Glycosyl transferase family 8; Region: Glyco_transf_8; pfam01501 667015004209 active site 667015004210 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 667015004211 Subfamily of Glycosyltransferase Family GT2 of unknown function; Region: GT_2_like_c; cd04186 667015004212 Probable Catalytic site; other site 667015004213 metal-binding site 667015004214 Glycosyl transferase family 11; Region: Glyco_transf_11; pfam01531 667015004215 Alpha-1,2-fucosyltransferase; Region: Fut1_Fut2_like; cd11301 667015004216 GDP-Fucose binding site [chemical binding]; other site 667015004217 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 667015004218 This family is most closely related to the GT1 family of glycosyltransferases. AmSD in Erwinia amylovora has been shown to be involved in the biosynthesis of amylovoran, the acidic exopolysaccharide acting as a virulence factor. This enzyme may be...; Region: GT1_amsD_like; cd03820 667015004219 putative ADP-binding pocket [chemical binding]; other site 667015004220 Predicted AAA-ATPase; Region: AAA-ATPase_like; pfam09820 667015004221 Protein of unknown function (DUF1703); Region: DUF1703; pfam08011 667015004222 Oligosaccharide biosynthesis protein Alg14 like; Region: Alg14; pfam08660 667015004223 Glycosyltransferase family 28 C-terminal domain; Region: Glyco_tran_28_C; cl17369 667015004224 Escherichia coli YbbF/LpxH and related proteins, metallophosphatase domain; Region: MPP_YbbF-LpxH; cd07398 667015004225 putative active site [active] 667015004226 putative metal binding site [ion binding]; other site 667015004227 FeS assembly SUF system protein; Region: SUF_assoc; TIGR02945 667015004228 hypothetical protein; Reviewed; Region: PRK00024 667015004229 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 667015004230 MPN+ (JAMM) motif; other site 667015004231 Zinc-binding site [ion binding]; other site 667015004232 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 667015004233 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cl11394 667015004234 active site 667015004235 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 667015004236 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 667015004237 putative PEP-CTERM system TPR-repeat lipoprotein; Region: PEP_TPR_lipo; TIGR02917 667015004238 PBP superfamily domain; Region: PBP_like_2; pfam12849 667015004239 Periplasmic protein TonB, links inner and outer membranes [Cell envelope biogenesis, outer membrane]; Region: TonB; COG0810 667015004240 Gram-negative bacterial tonB protein; Region: TonB; pfam03544 667015004241 Biopolymer transport protein ExbD/TolR; Region: ExbD; pfam02472 667015004242 Biopolymer transport protein ExbD/TolR; Region: ExbD; pfam02472 667015004243 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 667015004244 putative bifunctional UDP-N-acetylmuramoyl-tripeptide:D-alanyl-D-alanine ligase/alanine racemase; Provisional; Region: PRK11930 667015004245 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 667015004246 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 667015004247 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Alanine Racemase; Region: PLPDE_III_AR; cd00430 667015004248 active site 667015004249 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 667015004250 dimer interface [polypeptide binding]; other site 667015004251 substrate binding site [chemical binding]; other site 667015004252 catalytic residues [active] 667015004253 GSCFA family; Region: GSCFA; pfam08885 667015004254 1-deoxy-D-xylulose-5-phosphate synthase; Provisional; Region: PRK05444 667015004255 Thiamine pyrophosphate (TPP) family, DXS subfamily, TPP-binding module; 1-Deoxy-D-xylulose-5-phosphate synthase (DXS) is a regulatory enzyme of the mevalonate-independent pathway involved in terpenoid biosynthesis. Terpeniods are plant natural products...; Region: TPP_DXS; cd02007 667015004256 TPP-binding site; other site 667015004257 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 667015004258 PYR/PP interface [polypeptide binding]; other site 667015004259 dimer interface [polypeptide binding]; other site 667015004260 TPP binding site [chemical binding]; other site 667015004261 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 667015004262 potassium transporter peripheral membrane component; Reviewed; Region: trkA; PRK09496 667015004263 TrkA-N domain; Region: TrkA_N; pfam02254 667015004264 TrkA-C domain; Region: TrkA_C; pfam02080 667015004265 TrkA-N domain; Region: TrkA_N; pfam02254 667015004266 TrkA-C domain; Region: TrkA_C; pfam02080 667015004267 NADH-ubiquinone/plastoquinone oxidoreductase, chain 3; Region: Oxidored_q4; cl00535 667015004268 NADH ubiquinone oxidoreductase, 20 Kd subunit; Region: Oxidored_q6; cl17194 667015004269 Respiratory-chain NADH dehydrogenase, 30 Kd subunit; Region: Complex1_30kDa; pfam00329 667015004270 NADH dehydrogenase subunit D; Validated; Region: PRK06075; cl17338 667015004271 NADH:ubiquinone oxidoreductase 49 kD subunit 7 [Energy production and conversion]; Region: NuoD; COG0649 667015004272 NADH:ubiquinone oxidoreductase subunit H; Provisional; Region: PRK06076 667015004273 Formate hydrogenlyase subunit 4 [Energy production and conversion]; Region: HyfC; COG0650 667015004274 The HCP family of iron-sulfur proteins includes hybrid cluster protein (HCP), acetyl-CoA synthase (ACS), and carbon monoxide dehydrogenase (CODH), all of which contain [Fe4-S4] metal clusters at their active sites. These proteins have a conserved...; Region: HCP_like; cl14655 667015004275 NADH-quinone oxidoreductase, chain I; Region: NuoI; TIGR01971 667015004276 NADH:ubiquinone oxidoreductase subunit 6 (chain J) [Energy production and conversion]; Region: NuoJ; COG0839 667015004277 NADH dehydrogenase subunit J; Provisional; Region: PRK06433 667015004278 NADH:ubiquinone oxidoreductase subunit K; Validated; Region: PRK05715 667015004279 NADH:ubiquinone oxidoreductase subunit L; Reviewed; Region: PRK06590 667015004280 NADH-Ubiquinone oxidoreductase (complex I), chain 5 N-terminus; Region: Oxidored_q1_N; pfam00662 667015004281 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 667015004282 NADH:ubiquinone oxidoreductase subunit 4 (chain M) [Energy production and conversion]; Region: NuoM; COG1008 667015004283 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 667015004284 NADH dehydrogenase subunit 2; Provisional; Region: ND2; MTH00197 667015004285 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 667015004286 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 667015004287 non-specific DNA binding site [nucleotide binding]; other site 667015004288 salt bridge; other site 667015004289 sequence-specific DNA binding site [nucleotide binding]; other site 667015004290 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 667015004291 Putative glycoside hydrolase xylanase; Region: Xylanase; pfam13201 667015004292 Putative glycoside hydrolase xylanase; Region: Xylanase; pfam13201 667015004293 Phage late control gene D protein (GPD); Region: Phage_GPD; cl15796 667015004294 Predicted metalloendopeptidase [Posttranslational modification, protein turnover, chaperones]; Region: PepO; COG3590 667015004295 Peptidase family M13 includes neprilysin, endothelin-converting enzyme I; Region: M13; cd08662 667015004296 active site 667015004297 Zn binding site [ion binding]; other site 667015004298 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 667015004299 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 667015004300 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 667015004301 ABC transporter; Region: ABC_tran_2; pfam12848 667015004302 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 667015004303 Adenylosuccinate synthetase; Region: Adenylsucc_synt; smart00788 667015004304 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 667015004305 GDP-binding site [chemical binding]; other site 667015004306 ACT binding site; other site 667015004307 IMP binding site; other site 667015004308 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 667015004309 metal binding site 2 [ion binding]; metal-binding site 667015004310 putative DNA binding helix; other site 667015004311 metal binding site 1 [ion binding]; metal-binding site 667015004312 dimer interface [polypeptide binding]; other site 667015004313 structural Zn2+ binding site [ion binding]; other site 667015004314 A new structural DNA glycosylase; Region: AlkD_like; cd06561 667015004315 active site 667015004316 Peptidase family M49; Region: Peptidase_M49; pfam03571 667015004317 Helix-turn-helix domain; Region: HTH_18; pfam12833 667015004318 ATP-dependent DNA helicase RecQ; Region: recQ; TIGR01389 667015004319 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 667015004320 ATP binding site [chemical binding]; other site 667015004321 putative Mg++ binding site [ion binding]; other site 667015004322 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 667015004323 nucleotide binding region [chemical binding]; other site 667015004324 ATP-binding site [chemical binding]; other site 667015004325 This DNA-binding domain is found in the RecQ helicase among others and has a helix-turn-helix structure; Region: RQC; smart00956 667015004326 HRDC domain; Region: HRDC; pfam00570 667015004327 Plasmid encoded toxin Txe; Region: Plasmid_Txe; cl17389 667015004328 Antitoxin Phd_YefM, type II toxin-antitoxin system; Region: PhdYeFM_antitox; pfam02604 667015004329 Domain of unknown function, B. Theta Gene description (DUF3871); Region: DUF3871; pfam12987 667015004330 Protein of unknown function (DUF3946); Region: DUF3946; pfam13102 667015004331 tyrosine recombinase XerD; Region: recomb_XerD; TIGR02225 667015004332 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 667015004333 active site 667015004334 DNA binding site [nucleotide binding] 667015004335 Int/Topo IB signature motif; other site 667015004336 ADP-ribosylglycohydrolase; Region: ADP_ribosyl_GH; cl00614 667015004337 Dehydroquinate synthase (DHQS) catalyzes the conversion of DAHP to DHQ in shikimate pathway for aromatic compounds synthesis; Region: DHQS; cd08195 667015004338 active site 667015004339 dimer interface [polypeptide binding]; other site 667015004340 metal binding site [ion binding]; metal-binding site 667015004341 Predicted periplasmic ligand-binding sensor domain [Signal transduction mechanisms]; Region: COG3292 667015004342 Y_Y_Y domain; Region: Y_Y_Y; pfam07495 667015004343 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 667015004344 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 667015004345 dimer interface [polypeptide binding]; other site 667015004346 phosphorylation site [posttranslational modification] 667015004347 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 667015004348 ATP binding site [chemical binding]; other site 667015004349 Mg2+ binding site [ion binding]; other site 667015004350 G-X-G motif; other site 667015004351 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 667015004352 Response regulator receiver domain; Region: Response_reg; pfam00072 667015004353 active site 667015004354 phosphorylation site [posttranslational modification] 667015004355 intermolecular recognition site; other site 667015004356 dimerization interface [polypeptide binding]; other site 667015004357 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 667015004358 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 667015004359 Surface antigen; Region: Bac_surface_Ag; pfam01103 667015004360 Family of unknown function (DUF490); Region: DUF490; pfam04357 667015004361 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cl11394 667015004362 active site 667015004363 dihydropyrimidine dehydrogenase subunit A; Provisional; Region: PRK11749 667015004364 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 667015004365 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 667015004366 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 667015004367 glycyl-tRNA synthetase; Provisional; Region: PRK04173 667015004368 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 667015004369 motif 1; other site 667015004370 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 667015004371 active site 667015004372 motif 2; other site 667015004373 motif 3; other site 667015004374 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 667015004375 anticodon binding site; other site 667015004376 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Streptococcus aureus MepA; Region: MATE_MepA_like; cd13143 667015004377 putative efflux protein, MATE family; Region: matE; TIGR00797 667015004378 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 667015004379 active site 667015004380 metal binding site [ion binding]; metal-binding site 667015004381 NAD(P)H:flavin oxidoreductase-like family 1. A subfamily of the nitroreductase family containing uncharacterized proteins that are similar to nitroreductase. Nitroreductase catalyzes the reduction of nitroaromatic compounds such as nitrotoluenes; Region: NADPH_oxidoreductase_1; cd02150 667015004382 putative FMN binding site [chemical binding]; other site 667015004383 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 667015004384 amino acid adenylation domain; Region: AA-adenyl-dom; TIGR01733 667015004385 acyl-activating enzyme (AAE) consensus motif; other site 667015004386 AMP binding site [chemical binding]; other site 667015004387 Tetratricopeptide repeat; Region: TPR_16; pfam13432 667015004388 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 667015004389 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 667015004390 N-terminal plug; other site 667015004391 ligand-binding site [chemical binding]; other site 667015004392 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 667015004393 dimer interface [polypeptide binding]; other site 667015004394 phosphorylation site [posttranslational modification] 667015004395 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 667015004396 ATP binding site [chemical binding]; other site 667015004397 Mg2+ binding site [ion binding]; other site 667015004398 G-X-G motif; other site 667015004399 Y_Y_Y domain; Region: Y_Y_Y; pfam07495 667015004400 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 667015004401 Cdc37 N terminal kinase binding; Region: CDC37_N; cl03951 667015004402 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 667015004403 ATP binding site [chemical binding]; other site 667015004404 G-X-G motif; other site 667015004405 FOG: WD40 repeat [General function prediction only]; Region: COG2319 667015004406 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 667015004407 structural tetrad; other site 667015004408 Putative intracellular protease/amidase [General function prediction only]; Region: ThiJ; COG0693 667015004409 Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GAT_1; cl00020 667015004410 conserved cys residue [active] 667015004411 Histidine kinase-like ATPase domain; Region: HATPase_c_2; pfam13581 667015004412 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 667015004413 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 667015004414 anti sigma factor interaction site; other site 667015004415 regulatory phosphorylation site [posttranslational modification]; other site 667015004416 Type II secretory pathway, pullulanase PulA and related glycosidases [Carbohydrate transport and metabolism]; Region: PulA; COG1523 667015004417 N-terminal Early set domain associated with the catalytic domain of Glycogen debranching enzyme; Region: E_set_GDE_N; cd11234 667015004418 Alpha amylase catalytic domain found in glycogen debranching enzymes; Region: AmyAc_Glg_debranch; cd11326 667015004419 active site 667015004420 catalytic site [active] 667015004421 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 667015004422 anti sigma factor interaction site; other site 667015004423 regulatory phosphorylation site [posttranslational modification]; other site 667015004424 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 667015004425 dimerization interface [polypeptide binding]; other site 667015004426 putative active cleft [active] 667015004427 Response regulator receiver domain; Region: Response_reg; pfam00072 667015004428 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 667015004429 active site 667015004430 phosphorylation site [posttranslational modification] 667015004431 intermolecular recognition site; other site 667015004432 dimerization interface [polypeptide binding]; other site 667015004433 Serine phosphatase RsbU, regulator of sigma subunit [Signal transduction mechanisms / Transcription]; Region: RsbU; COG2208 667015004434 Stage II sporulation protein E (SpoIIE); Region: SpoIIE; pfam07228 667015004435 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 667015004436 Major Facilitator Superfamily; Region: MFS_1; pfam07690 667015004437 putative substrate translocation pore; other site 667015004438 Thiamine pyrophosphate-requiring enzymes [acetolactate synthase, pyruvate dehydrogenase (cytochrome), glyoxylate carboligase, phosphonopyruvate decarboxylase] [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvB; COG0028 667015004439 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 667015004440 PYR/PP interface [polypeptide binding]; other site 667015004441 dimer interface [polypeptide binding]; other site 667015004442 TPP binding site [chemical binding]; other site 667015004443 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 667015004444 Thiamine pyrophosphate (TPP) enzyme family, TPP-binding module; found in many key metabolic enzymes which use TPP (also known as thiamine diphosphate) as a cofactor. These enzymes include, among others, the E1 components of the pyruvate, the acetoin and...; Region: TPP_enzymes; cd00568 667015004445 TPP-binding site [chemical binding]; other site 667015004446 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 667015004447 Putative intracellular protease/amidase [General function prediction only]; Region: ThiJ; COG0693 667015004448 Type 1 glutamine amidotransferase (GATase1)-like domain found in proteins similar to Escherichia coli Hsp31 protein; Region: GATase1_Hsp31_like; cd03141 667015004449 potential catalytic triad [active] 667015004450 conserved cys residue [active] 667015004451 Cupin domain; Region: Cupin_2; pfam07883 667015004452 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 667015004453 Outer membrane protein beta-barrel domain; Region: OMP_b-brl_2; pfam13568 667015004454 Solo B3/4 domain (OB-fold DNA/RNA-binding) of Phe-aaRS-beta [General function prediction only]; Region: COG3382 667015004455 B3/4 domain; Region: B3_4; pfam03483 667015004456 Multicopper polyphenol oxidase (laccase) [Secondary metabolites biosynthesis, transport and catabolism]; Region: yfiH; COG1496 667015004457 Multi-copper polyphenol oxidoreductase laccase; Region: Cu-oxidase_4; pfam02578 667015004458 GTPase CgtA; Reviewed; Region: obgE; PRK12299 667015004459 GTP1/OBG; Region: GTP1_OBG; pfam01018 667015004460 Obg GTPase; Region: Obg; cd01898 667015004461 G1 box; other site 667015004462 GTP/Mg2+ binding site [chemical binding]; other site 667015004463 Switch I region; other site 667015004464 G2 box; other site 667015004465 G3 box; other site 667015004466 Switch II region; other site 667015004467 G4 box; other site 667015004468 G5 box; other site 667015004469 adenylate kinase; Reviewed; Region: adk; PRK00279 667015004470 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 667015004471 AMP-binding site [chemical binding]; other site 667015004472 ATP-AMP (Ap5A)-binding site [chemical binding]; other site 667015004473 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 667015004474 active site 667015004475 YjeF-related protein N-terminus; Region: YjeF_N; pfam03853 667015004476 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 667015004477 putative substrate binding site [chemical binding]; other site 667015004478 putative ATP binding site [chemical binding]; other site 667015004479 L-serine dehydratase, iron-sulfur-dependent, beta subunit; Region: sda_beta; TIGR00719 667015004480 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 667015004481 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 667015004482 Putative neutral zinc metallopeptidase; Region: Zn_peptidase_2; pfam04298 667015004483 histidyl-tRNA synthetase; Reviewed; Region: hisS; PRK00037 667015004484 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 667015004485 dimer interface [polypeptide binding]; other site 667015004486 motif 1; other site 667015004487 active site 667015004488 motif 2; other site 667015004489 motif 3; other site 667015004490 HisRS Histidyl-anticodon binding domain. HisRS belongs to class II aminoacyl-tRNA synthetases (aaRS). This alignment contains the anticodon binding domain, which is responsible for specificity in tRNA-binding, so that the activated amino acid is...; Region: HisRS_anticodon; cd00859 667015004491 anticodon binding site; other site 667015004492 hypothetical protein; Provisional; Region: PRK11820 667015004493 YicC-like family, N-terminal region; Region: YicC_N; pfam03755 667015004494 Domain of unknown function (DUF1732); Region: DUF1732; pfam08340 667015004495 Guanylate kinase [Nucleotide transport and metabolism]; Region: Gmk; COG0194 667015004496 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 667015004497 catalytic site [active] 667015004498 G-X2-G-X-G-K; other site 667015004499 nicotinic acid mononucleotide adenylyltransferase; Provisional; Region: nadD; PRK00071 667015004500 Nicotinamide/nicotinate mononucleotide adenylyltransferase; Region: NMNAT; cd02165 667015004501 active site 667015004502 (T/H)XGH motif; other site 667015004503 1,4-dihydroxy-2-naphthoate octaprenyltransferase; Validated; Region: PRK06080 667015004504 UbiA prenyltransferase family; Region: UbiA; pfam01040 667015004505 MECDP_synthase (2-C-methyl-D-erythritol-2,4-cyclodiphosphate synthase), encoded by the ispF gene, catalyzes the formation of 2-C-methyl-D-erythritol 2,4-cyclodiphosphate (MEC) in the non-mevalonate deoxyxylulose (DOXP) pathway for isoprenoid biosynthesis; Region: MECDP_synthase; cd00554 667015004506 homotrimer interaction site [polypeptide binding]; other site 667015004507 zinc binding site [ion binding]; other site 667015004508 CDP-binding sites; other site 667015004509 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 667015004510 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 667015004511 redox-sensing transcriptional repressor Rex; Provisional; Region: PRK05472 667015004512 Putative DNA-binding protein N-terminus; Region: Put_DNA-bind_N; pfam06971 667015004513 CoA binding domain; Region: CoA_binding; pfam02629 667015004514 Homologs of eIF1/SUI1 including Escherichia coli YciH; Region: YciH_like; cd11567 667015004515 putative rRNA binding site [nucleotide binding]; other site 667015004516 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 667015004517 oligomerisation interface [polypeptide binding]; other site 667015004518 mobile loop; other site 667015004519 roof hairpin; other site 667015004520 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 667015004521 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 667015004522 ring oligomerisation interface [polypeptide binding]; other site 667015004523 ATP/Mg binding site [chemical binding]; other site 667015004524 stacking interactions; other site 667015004525 hinge regions; other site 667015004526 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 667015004527 nucleoside/Zn binding site; other site 667015004528 dimer interface [polypeptide binding]; other site 667015004529 catalytic motif [active] 667015004530 Na+/phosphate symporter [Inorganic ion transport and metabolism]; Region: NptA; COG1283 667015004531 Na+/Pi-cotransporter; Region: Na_Pi_cotrans; pfam02690 667015004532 Na+/Pi-cotransporter; Region: Na_Pi_cotrans; pfam02690 667015004533 PhoU domain; Region: PhoU; pfam01895 667015004534 Uridine kinase [Nucleotide transport and metabolism]; Region: Udk; COG0572 667015004535 Uridine monophosphate kinase_like (UMPK_like) is a family of proteins highly similar to the uridine monophosphate kinase (UMPK, EC 2.7.1.48), also known as uridine kinase or uridine-cytidine kinase (UCK); Region: UMPK_like; cd02028 667015004536 active site 667015004537 Uncharacterized protein involved in copper resistance [Inorganic ion transport and metabolism]; Region: CutC; COG3142 667015004538 Predicted hydrolases of the HAD superfamily [General function prediction only]; Region: Cof; COG0561 667015004539 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 667015004540 active site 667015004541 motif I; other site 667015004542 motif II; other site 667015004543 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 667015004544 Protein of unknown function (DUF3667); Region: DUF3667; pfam12412 667015004545 gamma-glutamyl kinase; Provisional; Region: PRK05429 667015004546 AAK_G5K_ProB: Glutamate-5-kinase (G5K) catalyzes glutamate-dependent ATP cleavage; G5K transfers the terminal phosphoryl group of ATP to the gamma-carboxyl group of glutamate, in the first and controlling step of proline (and, in mammals, ornithine)...; Region: AAK_G5K_ProB; cd04242 667015004547 nucleotide binding site [chemical binding]; other site 667015004548 homotetrameric interface [polypeptide binding]; other site 667015004549 putative phosphate binding site [ion binding]; other site 667015004550 putative allosteric binding site; other site 667015004551 PUA domain; Region: PUA; pfam01472 667015004552 Protein of unknown function (DUF2874); Region: DUF2874; pfam11396 667015004553 Protein of unknown function (DUF2874); Region: DUF2874; pfam11396 667015004554 Protein of unknown function (DUF2874); Region: DUF2874; pfam11396 667015004555 Protein of unknown function (DUF2874); Region: DUF2874; pfam11396 667015004556 Tetratricopeptide repeat; Region: TPR_12; pfam13424 667015004557 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 667015004558 TPR motif; other site 667015004559 binding surface 667015004560 Helix-turn-helix domain; Region: HTH_18; pfam12833 667015004561 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 667015004562 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 667015004563 non-specific DNA binding site [nucleotide binding]; other site 667015004564 salt bridge; other site 667015004565 sequence-specific DNA binding site [nucleotide binding]; other site 667015004566 Cupin domain; Region: Cupin_2; pfam07883 667015004567 Medium-chain acyl-CoA synthetase (MACS) of AAE_MA like; Region: MACS_AAE_MA_like; cd05970 667015004568 Acyl-coenzyme A synthetases/AMP-(fatty) acid ligases [Lipid metabolism]; Region: Acs; COG0365 667015004569 active site 667015004570 acyl-activating enzyme (AAE) consensus motif; other site 667015004571 putative CoA binding site [chemical binding]; other site 667015004572 AMP binding site [chemical binding]; other site 667015004573 50S ribosomal protein L31 type B; Reviewed; Region: rpmE2; PRK01678 667015004574 Tagatose-1,6-bisphosphate (TBP) aldolase and related Type B Class II aldolases. TBP aldolase is a tetrameric class II aldolase that catalyzes the reversible condensation of dihydroxyacetone phosphate with glyceraldehyde 3-phsophate to produce tagatose 1; Region: TBP_aldolase_IIB; cd00947 667015004575 fructose-bisphosphate aldolase; Provisional; Region: PRK09197 667015004576 intersubunit interface [polypeptide binding]; other site 667015004577 active site 667015004578 zinc binding site [ion binding]; other site 667015004579 Na+ binding site [ion binding]; other site 667015004580 Domain of unknown function (DUF3332); Region: DUF3332; pfam11810 667015004581 Major Facilitator Superfamily; Region: MFS_1; pfam07690 667015004582 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 667015004583 putative substrate translocation pore; other site 667015004584 Protein of unknown function (DUF2582); Region: DUF2582; pfam10771 667015004585 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 667015004586 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 667015004587 Protein export membrane protein; Region: SecD_SecF; cl14618 667015004588 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 667015004589 HlyD family secretion protein; Region: HlyD_3; pfam13437 667015004590 Helix-turn-helix domain; Region: HTH_18; pfam12833 667015004591 elongation factor Ts; Provisional; Region: tsf; PRK09377 667015004592 UBA/TS-N domain; Region: UBA; pfam00627 667015004593 Elongation factor TS; Region: EF_TS; pfam00889 667015004594 Elongation factor TS; Region: EF_TS; pfam00889 667015004595 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 667015004596 rRNA interaction site [nucleotide binding]; other site 667015004597 S8 interaction site; other site 667015004598 putative laminin-1 binding site; other site 667015004599 30S ribosomal protein S9; Reviewed; Region: rpsI; PRK00132 667015004600 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 667015004601 23S rRNA interface [nucleotide binding]; other site 667015004602 asparaginyl-tRNA synthetase; Validated; Region: asnC; PRK03932 667015004603 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 667015004604 putative dimer interface [polypeptide binding]; other site 667015004605 putative anticodon binding site; other site 667015004606 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 667015004607 homodimer interface [polypeptide binding]; other site 667015004608 motif 1; other site 667015004609 motif 2; other site 667015004610 active site 667015004611 motif 3; other site 667015004612 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 667015004613 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 667015004614 RNA binding surface [nucleotide binding]; other site 667015004615 Pseudouridine synthases, RsuA subfamily; Region: PseudoU_synth_RsuA_like; cd02870 667015004616 active site 667015004617 adenylosuccinate lyase; Provisional; Region: PRK09285 667015004618 PurB_like adenylosuccinases (adenylsuccinate lyase, ASL); Region: PurB; cd01598 667015004619 tetramer interface [polypeptide binding]; other site 667015004620 active site 667015004621 Domain of unknown function (DUF4250); Region: DUF4250; pfam14056 667015004622 Transglutaminase-like superfamily; Region: Transglut_core; pfam01841 667015004623 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 667015004624 Transglutaminase-like superfamily; Region: Transglut_core; cl17362 667015004625 RNA polymerase sigma-54 factor; Region: rpoN_sigma; TIGR02395 667015004626 Sigma-54 factor, Activator interacting domain (AID); Region: Sigma54_AID; pfam00309 667015004627 Sigma-54 factor, core binding domain; Region: Sigma54_CBD; pfam04963 667015004628 Sigma-54, DNA binding domain; Region: Sigma54_DBD; pfam04552 667015004629 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; cd01610 667015004630 active site 667015004631 beta-D-glucoside glucohydrolase; Provisional; Region: PRK15098 667015004632 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; pfam00933 667015004633 Fibronectin type III-like domain; Region: Fn3-like; pfam14310 667015004634 Starch-binding associating with outer membrane; Region: SusD-like_2; pfam12771 667015004635 starch binding outer membrane protein SusD; Region: SusD; cl17845 667015004636 starch binding outer membrane protein SusD; Region: SusD; cl17845 667015004637 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 667015004638 Cna protein B-type domain; Region: Cna_B_2; pfam13715 667015004639 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 667015004640 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 667015004641 Cellulase (glycosyl hydrolase family 5); Region: Cellulase; pfam00150 667015004642 beta-D-glucoside glucohydrolase; Provisional; Region: PRK15098 667015004643 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; pfam00933 667015004644 Fibronectin type III-like domain; Region: Fn3-like; pfam14310 667015004645 Two component regulator propeller; Region: Reg_prop; pfam07494 667015004646 Predicted periplasmic ligand-binding sensor domain [Signal transduction mechanisms]; Region: COG3292 667015004647 Two component regulator propeller; Region: Reg_prop; pfam07494 667015004648 Y_Y_Y domain; Region: Y_Y_Y; pfam07495 667015004649 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 667015004650 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 667015004651 dimer interface [polypeptide binding]; other site 667015004652 phosphorylation site [posttranslational modification] 667015004653 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 667015004654 ATP binding site [chemical binding]; other site 667015004655 Mg2+ binding site [ion binding]; other site 667015004656 G-X-G motif; other site 667015004657 Response regulator receiver domain; Region: Response_reg; pfam00072 667015004658 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 667015004659 active site 667015004660 phosphorylation site [posttranslational modification] 667015004661 intermolecular recognition site; other site 667015004662 dimerization interface [polypeptide binding]; other site 667015004663 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 667015004664 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 667015004665 deoxyguanosinetriphosphate triphosphohydrolase-like protein; Provisional; Region: PRK01096 667015004666 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl17215 667015004667 Phosphohydrolase-associated domain; Region: HD_assoc; pfam13286 667015004668 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 667015004669 trimer interface [polypeptide binding]; other site 667015004670 active site 667015004671 TPR repeat; Region: TPR_11; pfam13414 667015004672 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 667015004673 TPR motif; other site 667015004674 binding surface 667015004675 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 667015004676 binding surface 667015004677 TPR motif; other site 667015004678 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 667015004679 binding surface 667015004680 TPR motif; other site 667015004681 TPR repeat; Region: TPR_11; pfam13414 667015004682 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 667015004683 TPR motif; other site 667015004684 Tetratricopeptide repeat; Region: TPR_12; pfam13424 667015004685 binding surface 667015004686 Domain of unknown function (DUF4292); Region: DUF4292; pfam14125 667015004687 Membrane-bound metallopeptidase [Cell division and chromosome partitioning]; Region: COG4942 667015004688 Peptidase family M23; Region: Peptidase_M23; pfam01551 667015004689 Glycosyl hydrolase families: GH43, GH62, GH32, GH68; Region: GH43_62_32_68; cl14647 667015004690 active site 667015004691 Alpha-L-fucosidase; Region: Alpha_L_fucos; smart00812 667015004692 Alpha-L-fucosidase [Carbohydrate transport and metabolism]; Region: COG3669 667015004693 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 667015004694 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 667015004695 Coenzyme A binding pocket [chemical binding]; other site 667015004696 Flavodoxin domain; Region: Flavodoxin_5; cl17428 667015004697 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 667015004698 4Fe-4S dicluster domain; Region: Fer4_9; pfam13187 667015004699 Helix-turn-helix domain; Region: HTH_18; pfam12833 667015004700 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 667015004701 Predicted transcriptional regulators [Transcription]; Region: COG1733 667015004702 HxlR-like helix-turn-helix; Region: HxlR; pfam01638 667015004703 TIGR04076 family protein; Region: TIGR04076 667015004704 Helix-turn-helix domain; Region: HTH_18; pfam12833 667015004705 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 667015004706 Carboxymuconolactone decarboxylase family; Region: CMD; pfam02627 667015004707 short chain dehydrogenase; Provisional; Region: PRK06500 667015004708 classical (c) SDRs; Region: SDR_c; cd05233 667015004709 NAD(P) binding site [chemical binding]; other site 667015004710 active site 667015004711 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 667015004712 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 667015004713 active site 667015004714 catalytic tetrad [active] 667015004715 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 667015004716 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 667015004717 active site 667015004718 catalytic tetrad [active] 667015004719 DNA-binding protein, histone-like, putative; Region: HU_rel; TIGR01201 667015004720 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 667015004721 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 667015004722 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 667015004723 active site 667015004724 catalytic tetrad [active] 667015004725 maltose O-acetyltransferase; Provisional; Region: PRK10092 667015004726 Maltose O-acetyltransferase (MAT) and Galactoside O-acetyltransferase (GAT): MAT and GAT catalyze the CoA-dependent acetylation of the 6-hydroxyl group of their respective sugar substrates. MAT acetylates maltose and glucose exclusively at the C6...; Region: LbH_MAT_GAT; cd03357 667015004727 active site 667015004728 substrate binding site [chemical binding]; other site 667015004729 trimer interface [polypeptide binding]; other site 667015004730 CoA binding site [chemical binding]; other site 667015004731 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 667015004732 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 667015004733 active site 667015004734 catalytic tetrad [active] 667015004735 PIN (PilT N terminus) domain: Superfamily; Region: PIN_SF; cd09852 667015004736 putative active site [active] 667015004737 Esterase/lipase [Lipid metabolism]; Region: Aes; COG0657 667015004738 IclR helix-turn-helix domain; Region: HTH_IclR; cl17605 667015004739 putative transposase OrfB; Reviewed; Region: PHA02517 667015004740 Integrase core domain; Region: rve; pfam00665 667015004741 Integrase core domain; Region: rve_3; pfam13683 667015004742 Helix-turn-helix domain; Region: HTH_18; pfam12833 667015004743 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 667015004744 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Streptococcus aureus MepA; Region: MATE_MepA_like; cd13143 667015004745 multidrug efflux pump VmrA; Reviewed; Region: vmrA; PRK09575 667015004746 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 667015004747 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 667015004748 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 667015004749 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 667015004750 HlyD family secretion protein; Region: HlyD_3; pfam13437 667015004751 Helix-turn-helix domain; Region: HTH_18; pfam12833 667015004752 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 667015004753 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 667015004754 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Streptococcus aureus MepA; Region: MATE_MepA_like; cd13143 667015004755 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 667015004756 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 667015004757 ligand binding site [chemical binding]; other site 667015004758 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 667015004759 Helix-turn-helix domain; Region: HTH_18; pfam12833 667015004760 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 667015004761 NAD-dependent protein deacetylases, SIR2 family [Transcription]; Region: SIR2; COG0846 667015004762 Predicted Zn-dependent hydrolases of the beta-lactamase fold [General function prediction only]; Region: COG2220 667015004763 Beta-lactamase superfamily domain; Region: Lactamase_B_2; pfam12706 667015004764 Cupin domain; Region: Cupin_2; pfam07883 667015004765 DNA-binding protein, histone-like, putative; Region: HU_rel; TIGR01201 667015004766 maltose O-acetyltransferase; Provisional; Region: PRK10092 667015004767 Maltose O-acetyltransferase (MAT) and Galactoside O-acetyltransferase (GAT): MAT and GAT catalyze the CoA-dependent acetylation of the 6-hydroxyl group of their respective sugar substrates. MAT acetylates maltose and glucose exclusively at the C6...; Region: LbH_MAT_GAT; cd03357 667015004768 active site 667015004769 substrate binding site [chemical binding]; other site 667015004770 trimer interface [polypeptide binding]; other site 667015004771 CoA binding site [chemical binding]; other site 667015004772 Predicted transcriptional regulators [Transcription]; Region: COG1733 667015004773 HxlR-like helix-turn-helix; Region: HxlR; pfam01638 667015004774 Arginase-like amidino hydrolase family; Region: Arginase-like_1; cd09999 667015004775 active site 667015004776 Mn binding site [ion binding]; other site 667015004777 Uncharacterized conserved protein [Function unknown]; Region: COG4279 667015004778 SWIM zinc finger; Region: SWIM; pfam04434 667015004779 Superfamily II DNA/RNA helicases, SNF2 family [Transcription / DNA replication, recombination, and repair]; Region: HepA; COG0553 667015004780 SNF2 Helicase protein; Region: DUF3670; pfam12419 667015004781 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 667015004782 ATP binding site [chemical binding]; other site 667015004783 putative Mg++ binding site [ion binding]; other site 667015004784 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 667015004785 nucleotide binding region [chemical binding]; other site 667015004786 ATP-binding site [chemical binding]; other site 667015004787 Cupin domain; Region: Cupin_2; cl17218 667015004788 Helix-turn-helix domain; Region: HTH_18; pfam12833 667015004789 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 667015004790 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 667015004791 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 667015004792 active site 667015004793 catalytic tetrad [active] 667015004794 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 667015004795 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 667015004796 DNA binding residues [nucleotide binding] 667015004797 dimerization interface [polypeptide binding]; other site 667015004798 Protein of unknown function (DUF1349); Region: DUF1349; pfam07081 667015004799 Predicted periplasmic protein (DUF2271); Region: DUF2271; cl17856 667015004800 Domain of unknown function found in archaea, bacteria, and plants; Region: DUF296; cd11378 667015004801 trimer interface [polypeptide binding]; other site 667015004802 putative Zn binding site [ion binding]; other site 667015004803 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 667015004804 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 667015004805 active site 667015004806 catalytic tetrad [active] 667015004807 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 667015004808 Helix-turn-helix domain; Region: HTH_18; pfam12833 667015004809 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 667015004810 DNA-binding protein, histone-like, putative; Region: HU_rel; TIGR01201 667015004811 short chain dehydrogenase; Provisional; Region: PRK06914 667015004812 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 667015004813 NAD(P) binding site [chemical binding]; other site 667015004814 active site 667015004815 Transcriptional regulators [Transcription]; Region: MarR; COG1846 667015004816 MarR family; Region: MarR_2; pfam12802 667015004817 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 667015004818 nucleotide binding site [chemical binding]; other site 667015004819 Activator of 2-hydroxyglutaryl-CoA dehydratase (HSP70-class ATPase domain) [Lipid metabolism]; Region: COG1924 667015004820 BadF/BadG/BcrA/BcrD ATPase family; Region: BcrAD_BadFG; cl17271 667015004821 CoA enzyme activase uncharacterized domain (DUF2229); Region: DUF2229; cl17855 667015004822 2-hydroxyglutaryl-CoA dehydratase, D-component; Region: HGD-D; pfam06050 667015004823 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3581 667015004824 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Provisional; Region: PRK02048 667015004825 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 667015004826 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 667015004827 AIR carboxylase; Region: AIRC; pfam00731 667015004828 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 667015004829 lipoyl attachment site [posttranslational modification]; other site 667015004830 Glycosyl hydrolases family 2, sugar binding domain; Region: Glyco_hydro_2_N; pfam02837 667015004831 Glycosyl hydrolases family 2; Region: Glyco_hydro_2; pfam00703 667015004832 Glycosyl hydrolases family 2, TIM barrel domain; Region: Glyco_hydro_2_C; pfam02836 667015004833 Bacterial Ig-like domain (group 1); Region: Big_1; cl17740 667015004834 Predicted transcriptional regulator [Transcription]; Region: COG2378 667015004835 WYL domain; Region: WYL; pfam13280 667015004836 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 667015004837 Protein of unknown function (DUF3467); Region: DUF3467; pfam11950 667015004838 Periplasmic protease [Cell envelope biogenesis, outer membrane]; Region: Prc; COG0793 667015004839 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 667015004840 protein binding site [polypeptide binding]; other site 667015004841 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 667015004842 Catalytic dyad [active] 667015004843 CorA-like Mg2+ transporter protein; Region: CorA; pfam01544 667015004844 uncharacterized bacterial subfamily of the Escherichia coli CorA-Salmonella typhimurium ZntB family; Region: EcCorA_ZntB-like_u2; cd12827 667015004845 Cl binding site [ion binding]; other site 667015004846 oligomer interface [polypeptide binding]; other site 667015004847 bacterial Ribonuclease HII-like; Region: RNase_HII_bacteria_HII_like; cd07182 667015004848 RNA/DNA hybrid binding site [nucleotide binding]; other site 667015004849 active site 667015004850 50S ribosomal protein L17; Validated; Region: rplQ; PRK05591 667015004851 DNA-directed RNA polymerase subunit alpha; Provisional; Region: PRK05182 667015004852 N-terminal domain of the Alpha subunit of Bacterial RNA polymerase; Region: RNAP_alpha_NTD; cd06928 667015004853 alphaNTD - beta interaction site [polypeptide binding]; other site 667015004854 alphaNTD homodimer interface [polypeptide binding]; other site 667015004855 alphaNTD - beta' interaction site [polypeptide binding]; other site 667015004856 Bacterial RNA polymerase, alpha chain C terminal domain; Region: RNA_pol_A_CTD; pfam03118 667015004857 30S ribosomal protein S4; Validated; Region: rpsD; PRK05327 667015004858 Ribosomal protein S4/S9 N-terminal domain; Region: Ribosomal_S4; pfam00163 667015004859 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 667015004860 RNA binding surface [nucleotide binding]; other site 667015004861 30S ribosomal protein S11; Validated; Region: PRK05309 667015004862 30S ribosomal protein S13; Validated; Region: rpsM; PRK05179 667015004863 30S ribosomal protein S13; Region: bact_S13; TIGR03631 667015004864 Ribosomal protein L36; Region: Ribosomal_L36; pfam00444 667015004865 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 667015004866 rRNA binding site [nucleotide binding]; other site 667015004867 predicted 30S ribosome binding site; other site 667015004868 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 667015004869 active site 667015004870 preprotein translocase subunit SecY; Reviewed; Region: secY; PRK09204 667015004871 SecY translocase; Region: SecY; pfam00344 667015004872 50S ribosomal protein L15; Reviewed; Region: rplO; PRK05592 667015004873 Ribosomal protein L30, which is found in eukaryotes and prokaryotes but not in archaea, is one of the smallest ribosomal proteins with a molecular mass of about 7kDa. L30 binds the 23SrRNA as well as the 5S rRNA and is one of five ribosomal proteins that...; Region: Ribosomal_L30; cd01658 667015004874 23S rRNA binding site [nucleotide binding]; other site 667015004875 30S ribosomal protein S5; Validated; Region: rpsE; PRK00550 667015004876 Ribosomal protein S5, N-terminal domain; Region: Ribosomal_S5; pfam00333 667015004877 Ribosomal protein S5, C-terminal domain; Region: Ribosomal_S5_C; pfam03719 667015004878 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 667015004879 5S rRNA interface [nucleotide binding]; other site 667015004880 L27 interface [polypeptide binding]; other site 667015004881 23S rRNA interface [nucleotide binding]; other site 667015004882 L5 interface [polypeptide binding]; other site 667015004883 50S ribosomal protein L6; Validated; Region: rplF; PRK05498 667015004884 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 667015004885 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 667015004886 30S ribosomal protein S8; Validated; Region: rpsH; PRK00136 667015004887 30S ribosomal protein S14; Reviewed; Region: rpsN; PRK08881 667015004888 50S ribosomal protein L5; Validated; Region: rplE; PRK00010 667015004889 Ribosomal protein L5; Region: Ribosomal_L5; pfam00281 667015004890 ribosomal L5P family C-terminus; Region: Ribosomal_L5_C; pfam00673 667015004891 50S ribosomal protein L24; Reviewed; Region: rplX; PRK00004 667015004892 KOW motif of Ribosomal Protein L26; Region: KOW_RPL26; cd06089 667015004893 RNA binding site [nucleotide binding]; other site 667015004894 50S ribosomal protein L14; Validated; Region: rplN; PRK05483 667015004895 30S ribosomal protein S17; Reviewed; Region: rpsQ; PRK05610 667015004896 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 667015004897 23S rRNA interface [nucleotide binding]; other site 667015004898 putative translocon interaction site; other site 667015004899 signal recognition particle (SRP54) interaction site; other site 667015004900 L23 interface [polypeptide binding]; other site 667015004901 trigger factor interaction site; other site 667015004902 Ribosomal_L16_L10e: L16 is an essential protein in the large ribosomal subunit of bacteria, mitochondria, and chloroplasts. Large subunits that lack L16 are defective in peptidyl transferase activity, peptidyl-tRNA hydrolysis activity, association with...; Region: Ribosomal_L16_L10e; cd01433 667015004903 23S rRNA interface [nucleotide binding]; other site 667015004904 5S rRNA interface [nucleotide binding]; other site 667015004905 putative antibiotic binding site [chemical binding]; other site 667015004906 L25 interface [polypeptide binding]; other site 667015004907 L27 interface [polypeptide binding]; other site 667015004908 30S ribosomal protein S3; Reviewed; Region: rpsC; PRK00310 667015004909 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 667015004910 G-X-X-G motif; other site 667015004911 Ribosomal protein S3, C-terminal domain; Region: Ribosomal_S3_C; pfam00189 667015004912 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 667015004913 putative translocon binding site; other site 667015004914 protein-rRNA interface [nucleotide binding]; other site 667015004915 30S ribosomal protein S19; Reviewed; Region: rpsS; PRK00357 667015004916 50S ribosomal protein L2; Validated; Region: rplB; PRK09374 667015004917 Ribosomal Proteins L2, RNA binding domain; Region: Ribosomal_L2; pfam00181 667015004918 Ribosomal Proteins L2, C-terminal domain; Region: Ribosomal_L2_C; pfam03947 667015004919 50S ribosomal protein L23; Reviewed; Region: rplW; PRK05738 667015004920 50S ribosomal protein L4; Provisional; Region: rplD; PRK05319 667015004921 50S ribosomal protein L3; Validated; Region: rplC; PRK00001 667015004922 30S ribosomal protein S10; Reviewed; Region: rpsJ; PRK00596 667015004923 elongation factor G; Reviewed; Region: PRK12739 667015004924 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 667015004925 G1 box; other site 667015004926 putative GEF interaction site [polypeptide binding]; other site 667015004927 GTP/Mg2+ binding site [chemical binding]; other site 667015004928 Switch I region; other site 667015004929 G2 box; other site 667015004930 G3 box; other site 667015004931 Switch II region; other site 667015004932 G4 box; other site 667015004933 G5 box; other site 667015004934 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 667015004935 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 667015004936 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 667015004937 30S ribosomal protein S7; Validated; Region: PRK05302 667015004938 S12-like family, 30S ribosomal protein S12 subfamily; S12 is located at the interface of the large and small ribosomal subunits of prokaryotes, chloroplasts and mitochondria, where it plays an important role in both tRNA and ribosomal subunit...; Region: Ribosomal_S12; cd03368 667015004939 S17 interaction site [polypeptide binding]; other site 667015004940 S8 interaction site; other site 667015004941 16S rRNA interaction site [nucleotide binding]; other site 667015004942 streptomycin interaction site [chemical binding]; other site 667015004943 23S rRNA interaction site [nucleotide binding]; other site 667015004944 aminoacyl-tRNA interaction site (A-site) [nucleotide binding]; other site 667015004945 Yqey-like protein; Region: YqeY; cl17540 667015004946 cell division protein FtsZ; Region: ftsZ; TIGR00065 667015004947 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 667015004948 nucleotide binding site [chemical binding]; other site 667015004949 SulA interaction site; other site 667015004950 Cell division ATPase FtsA [Cell division and chromosome partitioning]; Region: ftsA; COG0849 667015004951 Cell division protein FtsA; Region: FtsA; smart00842 667015004952 Cell division protein FtsA; Region: FtsA; pfam14450 667015004953 UDP-N-acetylmuramate--L-alanine ligase; Provisional; Region: murC; PRK00421 667015004954 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 667015004955 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 667015004956 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 667015004957 undecaprenyldiphospho-muramoylpentapeptide beta-N- acetylglucosaminyltransferase; Provisional; Region: murG; PRK00726 667015004958 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 667015004959 active site 667015004960 homodimer interface [polypeptide binding]; other site 667015004961 Cell cycle protein; Region: FTSW_RODA_SPOVE; cl00511 667015004962 UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase; Provisional; Region: murD; PRK02472 667015004963 Alanine dehydrogenase/PNT, C-terminal domain; Region: AlaDh_PNT_C; smart01002 667015004964 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 667015004965 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 667015004966 phospho-N-acetylmuramoyl-pentapeptide-transferase; Provisional; Region: mraY; PRK00108 667015004967 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 667015004968 Mg++ binding site [ion binding]; other site 667015004969 putative catalytic motif [active] 667015004970 putative substrate binding site [chemical binding]; other site 667015004971 UDP-N-acetylmuramoylalanyl-D-glutamate--2, 6-diaminopimelate ligase; Provisional; Region: murE; PRK00139 667015004972 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 667015004973 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 667015004974 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 667015004975 penicillin-binding protein 2; Region: pbp2_mrdA; TIGR03423 667015004976 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 667015004977 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 667015004978 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 667015004979 16S rRNA m(4)C1402 methyltranserfase; Provisional; Region: PRK00050 667015004980 MraW methylase family; Region: Methyltransf_5; cl17771 667015004981 Lysophospholipid acyltransferases (LPLATs) of glycerophospholipid biosynthesis; Region: LPLAT; cl17185 667015004982 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 667015004983 putative acyl-acceptor binding pocket; other site 667015004984 Acetyltransferase (GNAT) domain; Region: Acetyltransf_5; pfam13444 667015004985 ribosomal RNA small subunit methyltransferase RsmB; Region: rsmB; TIGR00563 667015004986 solute carrier 6 subfamily, Fusobacterium nucleatum Tyt1-like; solute-binding domain; Region: SLC6sbd_Tyt1-Like; cd10336 667015004987 Na2 binding site [ion binding]; other site 667015004988 putative substrate binding site 1 [chemical binding]; other site 667015004989 Na binding site 1 [ion binding]; other site 667015004990 putative substrate binding site 2 [chemical binding]; other site 667015004991 Helix-hairpin-helix motif; Region: HHH_3; pfam12836 667015004992 Helix-hairpin-helix motif; Region: HHH_3; pfam12836 667015004993 Helix-hairpin-helix motif; Region: HHH_3; pfam12836 667015004994 Alkaline phosphatase homologues; alkaline phosphatases are non-specific phosphomonoesterases that catalyze the hydrolysis reaction via a phosphoseryl intermediate to produce inorganic phosphate and the corresponding alcohol, optimally at high pH; Region: alkPPc; cl15837 667015004995 Alkaline phosphatase homologues; Region: alkPPc; smart00098 667015004996 active site 667015004997 dimer interface [polypeptide binding]; other site 667015004998 Alkaline phosphatase homologues; alkaline phosphatases are non-specific phosphomonoesterases that catalyze the hydrolysis reaction via a phosphoseryl intermediate to produce inorganic phosphate and the corresponding alcohol, optimally at high pH; Region: alkPPc; cl15837 667015004999 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 667015005000 active site 667015005001 xanthine permease; Region: pbuX; TIGR03173 667015005002 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 667015005003 Multidrug resistance efflux pump [Defense mechanisms]; Region: EmrA; COG1566 667015005004 HlyD family secretion protein; Region: HlyD_3; pfam13437 667015005005 Outer membrane efflux protein; Region: OEP; pfam02321 667015005006 Outer membrane efflux protein; Region: OEP; pfam02321 667015005007 Methyltransferase domain; Region: Methyltransf_18; pfam12847 667015005008 Cysteine desulfurase SufE subunit [Posttranslational modification, protein turnover, chaperones]; Region: sufE; COG2166 667015005009 M28 Zn-Peptidases; Region: M28_like_6; cd08656 667015005010 Peptidase family M28; Region: Peptidase_M28; pfam04389 667015005011 metal binding site [ion binding]; metal-binding site 667015005012 M20 Peptidases with similarity to acetylornithine deacetylases and succinyl-diaminopimelate desuccinylases; Region: M20_ArgE_DapE_like5; cd05651 667015005013 Acetylornithine deacetylase/Succinyl-diaminopimelate desuccinylase and related deacylases [Amino acid transport and metabolism]; Region: ArgE; COG0624 667015005014 metal binding site [ion binding]; metal-binding site 667015005015 dimer interface [polypeptide binding]; other site 667015005016 Long-chain acyl-CoA synthetases (AMP-forming) [Lipid metabolism]; Region: FAA1; COG1022 667015005017 Long-chain fatty acid CoA synthetases and Bubblegum-like very long-chain fatty acid CoA synthetases; Region: VL_LC_FACS_like; cd05907 667015005018 acyl-activating enzyme (AAE) consensus motif; other site 667015005019 putative AMP binding site [chemical binding]; other site 667015005020 putative active site [active] 667015005021 putative CoA binding site [chemical binding]; other site 667015005022 peptide chain release factor 2; Validated; Region: prfB; PRK00578 667015005023 This domain is found in peptide chain release factors; Region: PCRF; smart00937 667015005024 RF-1 domain; Region: RF-1; pfam00472 667015005025 CYTH-like Clostridium thermocellum TTM-like subgroup 1; Region: CYTH-like_CthTTM-like_1; cd07891 667015005026 putative active site [active] 667015005027 putative metal binding residues [ion binding]; other site 667015005028 signature motif; other site 667015005029 putative dimer interface [polypeptide binding]; other site 667015005030 putative phosphate binding site [ion binding]; other site 667015005031 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 667015005032 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 667015005033 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 667015005034 DNA binding residues [nucleotide binding] 667015005035 DNA repair protein RecO; Reviewed; Region: recO; PRK00085 667015005036 Recombination protein O N terminal; Region: RecO_N; pfam11967 667015005037 Recombination protein O C terminal; Region: RecO_C; pfam02565 667015005038 30S ribosomal protein S20; Reviewed; Region: rpsT; PRK00239 667015005039 DNA gyrase subunit B; Validated; Region: gyrB; PRK05644 667015005040 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 667015005041 ATP binding site [chemical binding]; other site 667015005042 Mg2+ binding site [ion binding]; other site 667015005043 G-X-G motif; other site 667015005044 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 667015005045 anchoring element; other site 667015005046 dimer interface [polypeptide binding]; other site 667015005047 ATP binding site [chemical binding]; other site 667015005048 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 667015005049 active site 667015005050 putative metal-binding site [ion binding]; other site 667015005051 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 667015005052 4-alpha-glucanotransferase; Region: PLN02950 667015005053 The family 20 carbohydrate-binding module (CBM20), also known as the starch-binding domain, is found in a large number of starch degrading enzymes including alpha-amylase, beta-amylase, glucoamylase, and CGTase (cyclodextrin glucanotransferase). CBM20 is...; Region: CBM20; cl15347 667015005054 starch-binding site 2 [chemical binding]; other site 667015005055 starch-binding site 1 [chemical binding]; other site 667015005056 4-alpha-glucanotransferase; Region: Glyco_hydro_77; cl00711 667015005057 DNA modification methylase [DNA replication, recombination, and repair]; Region: COG0863 667015005058 DNA methylase; Region: N6_N4_Mtase; pfam01555 667015005059 DpnII restriction endonuclease; Region: DpnII; pfam04556 667015005060 DNA adenine methylase (dam); Region: dam; TIGR00571 667015005061 Protein of unknown function (DUF2795); Region: DUF2795; pfam11387 667015005062 Cobalamin adenosyltransferase; Region: Cob_adeno_trans; pfam01923 667015005063 Predicted O-methyltransferase [General function prediction only]; Region: COG4122 667015005064 nonheme-containing ferritins; Region: Nonheme_Ferritin; cd01055 667015005065 Ferritin-like domain; Region: Ferritin; pfam00210 667015005066 ferroxidase diiron center [ion binding]; other site 667015005067 Fucose 4-O-acetylase and related acetyltransferases [Carbohydrate transport and metabolism]; Region: NolL; COG3594 667015005068 Acyltransferase family; Region: Acyl_transf_3; pfam01757 667015005069 NADP oxidoreductase coenzyme F420-dependent; Region: F420_oxidored; cl17232 667015005070 pyrroline-5-carboxylate reductase; Region: proC; TIGR00112 667015005071 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 667015005072 active site 667015005073 O-acetylhomoserine sulfhydrylase [Amino acid transport and metabolism]; Region: MET17; COG2873 667015005074 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 667015005075 homodimer interface [polypeptide binding]; other site 667015005076 substrate-cofactor binding pocket; other site 667015005077 pyridoxal 5'-phosphate binding site [chemical binding]; other site 667015005078 catalytic residue [active] 667015005079 MutS domain III; Region: MutS_III; pfam05192 667015005080 ATP-binding cassette domain of MutS-like homolog; Region: ABC_MutS-like; cd03283 667015005081 Walker A/P-loop; other site 667015005082 ATP binding site [chemical binding]; other site 667015005083 Q-loop/lid; other site 667015005084 ABC transporter signature motif; other site 667015005085 Walker B; other site 667015005086 D-loop; other site 667015005087 H-loop/switch region; other site 667015005088 Lyase; Region: Lyase_1; pfam00206 667015005089 Argininosuccinate lyase (argininosuccinase, ASAL); Region: Argininosuccinate_lyase; cd01359 667015005090 active sites [active] 667015005091 tetramer interface [polypeptide binding]; other site 667015005092 Polyketide cyclase / dehydrase and lipid transport; Region: Polyketide_cyc2; pfam10604 667015005093 hydrophobic ligand binding site; other site 667015005094 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 667015005095 active site 667015005096 Predicted amidophosphoribosyltransferases [General function prediction only]; Region: ComFC; COG1040 667015005097 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 667015005098 active site 667015005099 RecX family; Region: RecX; pfam02631 667015005100 N5-glutamine S-adenosyl-L-methionine-dependent methyltransferase; Provisional; Region: PRK09328 667015005101 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 667015005102 riboflavin biosynthesis protein RibD; Region: eubact_ribD; TIGR00326 667015005103 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 667015005104 catalytic motif [active] 667015005105 Zn binding site [ion binding]; other site 667015005106 RibD C-terminal domain; Region: RibD_C; pfam01872 667015005107 undecaprenyl pyrophosphate synthase; Provisional; Region: PRK14838 667015005108 Cis (Z)-Isoprenyl Diphosphate Synthases (cis-IPPS); homodimers which catalyze the successive 1'-4 condensation of the isopentenyl diphosphate (IPP) molecule to trans,trans-farnesyl diphosphate (FPP) or to cis,trans-FPP to form long-chain polyprenyl...; Region: CIS_IPPS; cd00475 667015005109 catalytic residue [active] 667015005110 putative FPP diphosphate binding site; other site 667015005111 putative FPP binding hydrophobic cleft; other site 667015005112 dimer interface [polypeptide binding]; other site 667015005113 putative IPP diphosphate binding site; other site 667015005114 outer membrane protein assembly complex, YaeT protein; Region: OM_YaeT; TIGR03303 667015005115 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 667015005116 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 667015005117 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 667015005118 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 667015005119 Surface antigen; Region: Bac_surface_Ag; pfam01103 667015005120 periplasmic chaperone; Provisional; Region: PRK10780 667015005121 Outer membrane protein (OmpH-like); Region: OmpH; pfam03938 667015005122 Outer membrane protein (OmpH-like); Region: OmpH; pfam03938 667015005123 glutamate racemase; Provisional; Region: PRK00865 667015005124 pyridoxal 5'-phosphate synthase, synthase subunit Pdx1; Region: TIGR00343 667015005125 PdxS is a subunit of the pyridoxal 5'-phosphate (PLP) synthase, an important enzyme in deoxyxylulose 5-phosphate (DXP)-independent pathway for de novo biosynthesis of PLP, present in some eubacteria, in archaea, fungi, plants, plasmodia, and some...; Region: pdxS; cd04727 667015005126 active site 667015005127 multimer interface [polypeptide binding]; other site 667015005128 Glutamine Amidotransferase (GATase_I) involved in pyridoxine biosynthesis; Region: GATase1_PB; cd01749 667015005129 predicted active site [active] 667015005130 catalytic triad [active] 667015005131 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; pfam00933 667015005132 Probable beta-xylosidase; Provisional; Region: PLN03080 667015005133 Fibronectin type III-like domain; Region: Fn3-like; pfam14310 667015005134 Beta-glucosidase-related glycosidases [Carbohydrate transport and metabolism]; Region: BglX; COG1472 667015005135 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; pfam00933 667015005136 Glycosyl hydrolase family 3 C-terminal domain; Region: Glyco_hydro_3_C; pfam01915 667015005137 Fibronectin type III-like domain; Region: Fn3-like; pfam14310 667015005138 N-terminal Early set domain associated with the catalytic domain of putative esterases; Region: E_set_Esterase_like_N; cd11294 667015005139 Enterochelin esterase and related enzymes [Inorganic ion transport and metabolism]; Region: Fes; COG2382 667015005140 Predicted hydrolase of the alpha/beta superfamily [General function prediction only]; Region: COG2819 667015005141 N-terminal Early set domain associated with the catalytic domain of putative esterases; Region: E_set_Esterase_like_N; cd11294 667015005142 Enterochelin esterase and related enzymes [Inorganic ion transport and metabolism]; Region: Fes; COG2382 667015005143 Predicted hydrolase of the alpha/beta superfamily [General function prediction only]; Region: COG2819 667015005144 Putative esterase; Region: Esterase; pfam00756 667015005145 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4947 667015005146 Starch-binding associating with outer membrane; Region: SusD-like_3; pfam14322 667015005147 starch binding outer membrane protein SusD; Region: SusD; cd08977 667015005148 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 667015005149 Cna protein B-type domain; Region: Cna_B_2; pfam13715 667015005150 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 667015005151 TonB-dependent outer membrane receptor, SusC/RagA subfamily, signature region; Region: SusC_RagA_signa; TIGR04057 667015005152 TonB dependent receptor; Region: TonB_dep_Rec; pfam00593 667015005153 Carboxylesterase type B [Lipid metabolism]; Region: PnbA; COG2272 667015005154 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 667015005155 substrate binding pocket [chemical binding]; other site 667015005156 catalytic triad [active] 667015005157 Predicted periplasmic ligand-binding sensor domain [Signal transduction mechanisms]; Region: COG3292 667015005158 Y_Y_Y domain; Region: Y_Y_Y; pfam07495 667015005159 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 667015005160 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 667015005161 dimer interface [polypeptide binding]; other site 667015005162 phosphorylation site [posttranslational modification] 667015005163 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 667015005164 ATP binding site [chemical binding]; other site 667015005165 Mg2+ binding site [ion binding]; other site 667015005166 G-X-G motif; other site 667015005167 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 667015005168 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 667015005169 active site 667015005170 phosphorylation site [posttranslational modification] 667015005171 intermolecular recognition site; other site 667015005172 dimerization interface [polypeptide binding]; other site 667015005173 Helix-turn-helix domain; Region: HTH_18; pfam12833 667015005174 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 667015005175 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 667015005176 Cna protein B-type domain; Region: Cna_B_2; pfam13715 667015005177 TonB-dependent outer membrane receptor, SusC/RagA subfamily, signature region; Region: SusC_RagA_signa; TIGR04057 667015005178 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 667015005179 starch binding outer membrane protein SusD; Region: SusD; cd08977 667015005180 NAD(P)H:flavin oxidoreductase-like family 1. A subfamily of the nitroreductase family containing uncharacterized proteins that are similar to nitroreductase. Nitroreductase catalyzes the reduction of nitroaromatic compounds such as nitrotoluenes; Region: NADPH_oxidoreductase_1; cd02150 667015005181 putative FMN binding site [chemical binding]; other site 667015005182 succinate dehydrogenase/fumarate reductase iron-sulfur subunit; Validated; Region: PRK07570 667015005183 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_3; pfam13085 667015005184 The HCP family of iron-sulfur proteins includes hybrid cluster protein (HCP), acetyl-CoA synthase (ACS), and carbon monoxide dehydrogenase (CODH), all of which contain [Fe4-S4] metal clusters at their active sites. These proteins have a conserved...; Region: HCP_like; cl14655 667015005185 succinate dehydrogenase flavoprotein subunit; Reviewed; Region: sdhA; PRK07573 667015005186 L-aspartate oxidase; Provisional; Region: PRK06175 667015005187 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 667015005188 succinate dehydrogenase (or fumarate reductase) cytochrome b subunit, b558 family; Region: sdhC_b558_fam; TIGR02046 667015005189 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 667015005190 putative Iron-sulfur protein interface [polypeptide binding]; other site 667015005191 proximal heme binding site [chemical binding]; other site 667015005192 distal heme binding site [chemical binding]; other site 667015005193 putative dimer interface [polypeptide binding]; other site 667015005194 Protein of unknown function (DUF3946); Region: DUF3946; pfam13102 667015005195 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 667015005196 active site 667015005197 DNA binding site [nucleotide binding] 667015005198 Int/Topo IB signature motif; other site 667015005199 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; pfam13505 667015005200 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 667015005201 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 667015005202 ligand binding site [chemical binding]; other site 667015005203 tRNA-specific 2-thiouridylase MnmA; Provisional; Region: PRK14664 667015005204 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 667015005205 Ligand Binding Site [chemical binding]; other site 667015005206 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 667015005207 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 667015005208 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 667015005209 Holliday junction DNA helicase RuvB; Reviewed; Region: ruvB; PRK00080 667015005210 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 667015005211 Walker A motif; other site 667015005212 ATP binding site [chemical binding]; other site 667015005213 Walker B motif; other site 667015005214 arginine finger; other site 667015005215 Holliday junction DNA helicase ruvB C-terminus; Region: RuvB_C; pfam05491 667015005216 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 667015005217 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 667015005218 helicase 45; Provisional; Region: PTZ00424 667015005219 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 667015005220 ATP binding site [chemical binding]; other site 667015005221 Mg++ binding site [ion binding]; other site 667015005222 motif III; other site 667015005223 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 667015005224 nucleotide binding region [chemical binding]; other site 667015005225 ATP-binding site [chemical binding]; other site 667015005226 RNA recognition motif in the DbpA subfamily of prokaryotic DEAD-box rRNA helicases; Region: RRM_DbpA; cd12252 667015005227 RNA binding site [nucleotide binding]; other site 667015005228 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 667015005229 salt bridge; other site 667015005230 non-specific DNA binding site [nucleotide binding]; other site 667015005231 sequence-specific DNA binding site [nucleotide binding]; other site 667015005232 Protein of unknown function (DUF3036); Region: DUF3036; pfam11234 667015005233 CAAX protease self-immunity; Region: Abi; pfam02517 667015005234 Family of unknown function (DUF3836); Region: DUF3836; pfam12930 667015005235 Glycoside hydrolase 97; Region: Glyco_hydro_97; pfam10566 667015005236 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 667015005237 S-adenosylmethionine binding site [chemical binding]; other site 667015005238 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 667015005239 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 667015005240 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 667015005241 DNA binding residues [nucleotide binding] 667015005242 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; pfam13505 667015005243 bifunctional riboflavin kinase/FMN adenylyltransferase; Reviewed; Region: PRK05627 667015005244 FAD synthetase, N-terminal domain of the bifunctional enzyme; Region: FAD_synthetase_N; cd02064 667015005245 active site 667015005246 Riboflavin kinase; Region: Flavokinase; pfam01687 667015005247 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: MgtA; COG0474 667015005248 Cation transporter/ATPase, N-terminus; Region: Cation_ATPase_N; pfam00690 667015005249 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 667015005250 Putative hydrolase of sodium-potassium ATPase alpha subunit; Region: Hydrolase_like2; pfam13246 667015005251 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 667015005252 motif II; other site 667015005253 Cation transporting ATPase, C-terminus; Region: Cation_ATPase_C; pfam00689 667015005254 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 667015005255 active site 667015005256 DNA binding site [nucleotide binding] 667015005257 Int/Topo IB signature motif; other site 667015005258 Phage protein Gp37/Gp68; Region: Gp37_Gp68; cl15384 667015005259 Domain of unknown function, B. Theta Gene description (DUF3871); Region: DUF3871; pfam12987 667015005260 putative internal virion protein; Provisional; Region: PHA03415 667015005261 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 667015005262 excinuclease ABC subunit A; Reviewed; Region: uvrA; PRK00349 667015005263 Nucleotidyl transferase of unknown function (DUF1814); Region: DUF1814; pfam08843 667015005264 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 667015005265 active site 667015005266 catalytic residues [active] 667015005267 DNA binding site [nucleotide binding] 667015005268 Int/Topo IB signature motif; other site 667015005269 Protein of unknown function (DUF3853); Region: DUF3853; pfam12964 667015005270 Virulence-associated protein E; Region: VirE; pfam05272 667015005271 Relaxase/Mobilisation nuclease domain; Region: Relaxase; pfam03432 667015005272 Chromosome segregation ATPases [Cell division and chromosome partitioning]; Region: Smc; COG1196 667015005273 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 667015005274 RT_Bac_retron_II: Reverse transcriptases (RTs) in bacterial retrotransposons or retrons. The polymerase reaction of this enzyme leads to the production of a unique RNA-DNA complex called msDNA (multicopy single-stranded (ss)DNA) in which a small ssDNA...; Region: RT_Bac_retron_II; cd03487 667015005275 putative active site [active] 667015005276 putative NTP binding site [chemical binding]; other site 667015005277 putative nucleic acid binding site [nucleotide binding]; other site 667015005278 DNA recombination-mediator protein A; Region: DNA_processg_A; pfam02481 667015005279 DNA protecting protein DprA; Region: dprA; TIGR00732 667015005280 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cl00309 667015005281 active site 667015005282 Domain of unknown function (DUF4365); Region: DUF4365; pfam14280 667015005283 Eco57I restriction-modification methylase; Region: Eco57I; pfam07669 667015005284 TaqI-like C-terminal specificity domain; Region: TaqI_C; pfam12950 667015005285 N-terminal putative catalytic domain of uncharacterized HKD family nucleases fused to putative helicases from the Snf2-like family; Region: PLDc_N_Snf2_like; cd09178 667015005286 PLD-like domain; Region: PLDc_2; pfam13091 667015005287 putative homodimer interface [polypeptide binding]; other site 667015005288 putative active site [active] 667015005289 catalytic site [active] 667015005290 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 667015005291 ATP binding site [chemical binding]; other site 667015005292 putative Mg++ binding site [ion binding]; other site 667015005293 DNA or RNA helicases of superfamily II [Transcription / DNA replication, recombination, and repair]; Region: SSL2; COG1061 667015005294 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 667015005295 nucleotide binding region [chemical binding]; other site 667015005296 ATP-binding site [chemical binding]; other site 667015005297 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 667015005298 active site 667015005299 DNA binding site [nucleotide binding] 667015005300 Int/Topo IB signature motif; other site 667015005301 Relaxase/Mobilisation nuclease domain; Region: Relaxase; pfam03432 667015005302 Protein of unknown function (DUF3408); Region: DUF3408; pfam11888 667015005303 Helix-turn-helix domain; Region: HTH_17; pfam12728 667015005304 Helix-turn-helix domain; Region: HTH_17; pfam12728 667015005305 Tn4399 and related integrases, DNA breaking-rejoining enzymes, integrase/recombinases, N- and C-terminal domains. This CD includes various bacterial integrases, including cLV25, a Bacteroides fragilis chromosomal transfer factor integrase similar to the...; Region: INT_Tn4399; cd01185 667015005306 tyrosine recombinase XerD; Region: recomb_XerD; TIGR02225 667015005307 Int/Topo IB signature motif; other site 667015005308 Tn4399 and related integrases, DNA breaking-rejoining enzymes, integrase/recombinases, N- and C-terminal domains. This CD includes various bacterial integrases, including cLV25, a Bacteroides fragilis chromosomal transfer factor integrase similar to the...; Region: INT_Tn4399; cd01185 667015005309 Int/Topo IB signature motif; other site 667015005310 Haloacid dehalogenase-like hydrolase; Region: HAD_2; pfam13419 667015005311 Predicted transcriptional regulator [Transcription]; Region: COG2378 667015005312 WYL domain; Region: WYL; pfam13280 667015005313 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 667015005314 non-specific DNA binding site [nucleotide binding]; other site 667015005315 salt bridge; other site 667015005316 sequence-specific DNA binding site [nucleotide binding]; other site 667015005317 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; pfam13505 667015005318 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 667015005319 primosomal protein N' Region: priA; TIGR00595 667015005320 ATP binding site [chemical binding]; other site 667015005321 putative Mg++ binding site [ion binding]; other site 667015005322 helicase superfamily c-terminal domain; Region: HELICc; smart00490 667015005323 ATP-binding site [chemical binding]; other site 667015005324 putative hydrolase; Validated; Region: PRK09248 667015005325 Polymerase and Histidinol Phosphatase domain of Ycdx like; Region: PHP_HisPPase_Ycdx_like; cd07437 667015005326 active site 667015005327 Protein-tyrosine-phosphatase [Signal transduction mechanisms]; Region: Wzb; COG0394 667015005328 Low molecular weight phosphatase family; Region: LMWPc; cd00115 667015005329 active site 667015005330 7TM-HD extracellular; Region: 7TMR-HDED; pfam07697 667015005331 7TM receptor with intracellular HD hydrolase; Region: 7TM-7TMR_HD; pfam07698 667015005332 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 667015005333 Zn2+ binding site [ion binding]; other site 667015005334 Mg2+ binding site [ion binding]; other site 667015005335 glutamyl-tRNA synthetase; Reviewed; Region: gltX; PRK01406 667015005336 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 667015005337 HIGH motif; other site 667015005338 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 667015005339 active site 667015005340 KMSKS motif; other site 667015005341 Bacterial lipid A biosynthesis acyltransferase; Region: Lip_A_acyltrans; pfam03279 667015005342 Lysophospholipid acyltransferases (LPLATs) of glycerophospholipid biosynthesis; Region: LPLAT; cl17185 667015005343 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 667015005344 putative acyl-acceptor binding pocket; other site 667015005345 Protein of unknown function (DUF3184); Region: DUF3184; pfam11380 667015005346 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cl11394 667015005347 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 667015005348 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 667015005349 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 667015005350 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 667015005351 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cl11394 667015005352 FKBP-type peptidyl-prolyl cis-trans isomerases 1 [Posttranslational modification, protein turnover, chaperones]; Region: FkpA; COG0545 667015005353 Domain amino terminal to FKBP-type peptidyl-prolyl isomerase; Region: FKBP_N; pfam01346 667015005354 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 667015005355 FKBP-type peptidyl-prolyl cis-trans isomerases 1 [Posttranslational modification, protein turnover, chaperones]; Region: FkpA; COG0545 667015005356 Domain amino terminal to FKBP-type peptidyl-prolyl isomerase; Region: FKBP_N; pfam01346 667015005357 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 667015005358 NAD-dependent deacetylase; Provisional; Region: PRK00481 667015005359 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 667015005360 NAD+ binding site [chemical binding]; other site 667015005361 substrate binding site [chemical binding]; other site 667015005362 Zn binding site [ion binding]; other site 667015005363 Rubredoxin [Energy production and conversion]; Region: COG1773 667015005364 Rubredoxin; nonheme iron binding domains containing a [Fe(SCys)4] center. Rubredoxins are small nonheme iron proteins. The iron atom is coordinated by four cysteine residues (Fe(S-Cys)4), but iron can also be replaced by cobalt, nickel or zinc. They are...; Region: rubredoxin; cd00730 667015005365 iron binding site [ion binding]; other site 667015005366 polynucleotide phosphorylase/polyadenylase; Provisional; Region: PRK11824 667015005367 Polyribonucleotide nucleotidyltransferase, repeat 1; Region: RNase_PH_PNPase_1; cd11363 667015005368 RNase E interface [polypeptide binding]; other site 667015005369 trimer interface [polypeptide binding]; other site 667015005370 Polyribonucleotide nucleotidyltransferase, RNA binding domain; Region: PNPase; pfam03726 667015005371 Polyribonucleotide nucleotidyltransferase, repeat 2; Region: RNase_PH_PNPase_2; cd11364 667015005372 RNase E interface [polypeptide binding]; other site 667015005373 trimer interface [polypeptide binding]; other site 667015005374 active site 667015005375 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 667015005376 putative nucleic acid binding region [nucleotide binding]; other site 667015005377 G-X-X-G motif; other site 667015005378 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 667015005379 RNA binding site [nucleotide binding]; other site 667015005380 domain interface; other site 667015005381 Domain of unknown function (DUF4369); Region: DUF4369; pfam14289 667015005382 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 667015005383 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 667015005384 transcription elongation factor GreA; Reviewed; Region: greA; PRK00226 667015005385 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 667015005386 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 667015005387 Diadenosine tetraphosphate (Ap4A) hydrolase and other HIT family hydrolases [Nucleotide transport and metabolism / Carbohydrate transport and metabolism / General function prediction only]; Region: Hit; COG0537 667015005388 nucleotide binding site/active site [active] 667015005389 HIT family signature motif; other site 667015005390 catalytic residue [active] 667015005391 Cna protein B-type domain; Region: Cna_B_2; pfam13715 667015005392 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 667015005393 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 667015005394 Mannose-1-phosphate guanylyltransferase [Cell envelope biogenesis, outer membrane]; Region: {ManC}; COG0836 667015005395 GDP-M1P_Guanylyltransferase catalyzes the formation of GDP-Mannose; Region: GDP-M1P_Guanylyltransferase; cd02509 667015005396 Substrate binding site; other site 667015005397 Bacterial aspartate proteases, retropepsin-like protease family; Region: retropepsin_like_bacteria; cd05483 667015005398 catalytic motif [active] 667015005399 Catalytic residue [active] 667015005400 CHC2 zinc finger; Region: zf-CHC2; cl17510 667015005401 Toprim-like; Region: Toprim_2; pfam13155 667015005402 Phage associated DNA primase [General function prediction only]; Region: COG3378 667015005403 Helix-turn-helix domain; Region: HTH_17; pfam12728 667015005404 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 667015005405 active site 667015005406 DNA binding site [nucleotide binding] 667015005407 Int/Topo IB signature motif; other site 667015005408 Beta-lactamase enzyme family; Region: Beta-lactamase2; pfam13354 667015005409 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 667015005410 16S/18S rRNA binding site [nucleotide binding]; other site 667015005411 S13e-L30e interaction site [polypeptide binding]; other site 667015005412 25S rRNA binding site [nucleotide binding]; other site 667015005413 Alpha-L-rhamnosidase N-terminal domain; Region: Bac_rhamnosid_N; pfam08531 667015005414 Bacterial alpha-L-rhamnosidase; Region: Bac_rhamnosid; pfam05592 667015005415 Predicted neuraminidase (sialidase) [Carbohydrate transport and metabolism]; Region: COG4692 667015005416 BNR repeat-like domain; Region: BNR_2; pfam13088 667015005417 Tyrosine phosphorylated protein A (TypA)/BipA family belongs to ribosome-binding GTPases; Region: TypA_BipA; cd01891 667015005418 GTP-binding protein TypA/BipA; Region: TypA_BipA; TIGR01394 667015005419 G1 box; other site 667015005420 putative GEF interaction site [polypeptide binding]; other site 667015005421 GTP/Mg2+ binding site [chemical binding]; other site 667015005422 Switch I region; other site 667015005423 G2 box; other site 667015005424 G3 box; other site 667015005425 Switch II region; other site 667015005426 G4 box; other site 667015005427 G5 box; other site 667015005428 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 667015005429 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 667015005430 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 667015005431 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 667015005432 DNA binding residues [nucleotide binding] 667015005433 dimerization interface [polypeptide binding]; other site 667015005434 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 667015005435 putative trimer interface [polypeptide binding]; other site 667015005436 putative CoA binding site [chemical binding]; other site 667015005437 Protein of unknown function (DUF1349); Region: DUF1349; cl01397 667015005438 Protein of unknown function (DUF1349); Region: DUF1349; pfam07081 667015005439 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 667015005440 Major Facilitator Superfamily; Region: MFS_1; pfam07690 667015005441 putative substrate translocation pore; other site 667015005442 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 667015005443 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 667015005444 ATP-binding cassette domain of the bacterial lipid flippase and related proteins, subfamily C; Region: ABCC_MsbA; cd03251 667015005445 Walker A/P-loop; other site 667015005446 ATP binding site [chemical binding]; other site 667015005447 Q-loop/lid; other site 667015005448 ABC transporter signature motif; other site 667015005449 Walker B; other site 667015005450 D-loop; other site 667015005451 H-loop/switch region; other site 667015005452 Folate-dependent phosphoribosylglycinamide formyltransferase PurN [Nucleotide transport and metabolism]; Region: PurN; COG0299 667015005453 Phosphoribosylglycinamide formyltransferase (GAR transformylase, GART); Region: FMT_core_GART; cd08645 667015005454 active site 667015005455 substrate binding site [chemical binding]; other site 667015005456 cosubstrate binding site; other site 667015005457 catalytic site [active] 667015005458 acyl carrier protein; Provisional; Region: acpP; PRK00982 667015005459 beta-ketoacyl-acyl-carrier-protein synthase II; Region: fabF; TIGR03150 667015005460 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 667015005461 dimer interface [polypeptide binding]; other site 667015005462 active site 667015005463 ribonuclease III, bacterial; Region: RNaseIII; TIGR02191 667015005464 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 667015005465 dimerization interface [polypeptide binding]; other site 667015005466 active site 667015005467 metal binding site [ion binding]; metal-binding site 667015005468 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 667015005469 dsRNA binding site [nucleotide binding]; other site 667015005470 Arylsulfatase A and related enzymes [Inorganic ion transport and metabolism]; Region: AslA; COG3119 667015005471 Sulfatase; Region: Sulfatase; cl17466 667015005472 glucosamine-6-phosphate deaminase-like protein; Validated; Region: PRK02122 667015005473 GlcN6P_deaminase: Glucosamine-6-phosphate (GlcN6P) deaminase subfamily; GlcN6P deaminase catalyzes the reversible conversion of GlcN6P to D-fructose-6-phosphate (Fru6P) and ammonium. The reaction is an aldo-keto isomerization coupled with an amination or...; Region: GlcN6P_deaminase; cd01399 667015005474 active site 667015005475 trimer interface [polypeptide binding]; other site 667015005476 allosteric site; other site 667015005477 active site lid [active] 667015005478 hexamer (dimer of trimers) interface [polypeptide binding]; other site 667015005479 GlcNAc-PI de-N-acetylase; Region: PIG-L; pfam02585 667015005480 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4913 667015005481 P-loop containing region of AAA domain; Region: AAA_29; pfam13555 667015005482 Putative exonuclease SbcCD, C subunit; Region: SbcCD_C; pfam13558 667015005483 Domain of unknown function (DUF4194); Region: DUF4194; pfam13835 667015005484 Protein of unknown function (DUF3375); Region: DUF3375; pfam11855 667015005485 Cna protein B-type domain; Region: Cna_B_2; pfam13715 667015005486 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 667015005487 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 667015005488 DNA mismatch repair protein MutS; Provisional; Region: PRK05399 667015005489 MutS domain I; Region: MutS_I; pfam01624 667015005490 MutS domain II; Region: MutS_II; pfam05188 667015005491 MutS domain III; Region: MutS_III; pfam05192 667015005492 ATP-binding cassette domain of MutS1 homolog; Region: ABC_MutS1; cd03284 667015005493 Walker A/P-loop; other site 667015005494 ATP binding site [chemical binding]; other site 667015005495 Q-loop/lid; other site 667015005496 ABC transporter signature motif; other site 667015005497 Walker B; other site 667015005498 D-loop; other site 667015005499 H-loop/switch region; other site 667015005500 Uncharacterized protein related to the periplasmic component of the Tol biopolymer transport system [Function unknown]; Region: COG4946 667015005501 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 667015005502 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 667015005503 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 667015005504 Periplasmic protease [Cell envelope biogenesis, outer membrane]; Region: Prc; COG0793 667015005505 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 667015005506 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 667015005507 protein binding site [polypeptide binding]; other site 667015005508 Tricorn protease; serine protease family S41; Region: Peptidase_S41_TRI; cd07562 667015005509 Domain interface; other site 667015005510 Peptide binding site; other site 667015005511 Active site tetrad [active] 667015005512 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 667015005513 Active site serine [active] 667015005514 Superoxide dismutase [Inorganic ion transport and metabolism]; Region: SodA; COG0605 667015005515 Iron/manganese superoxide dismutases, alpha-hairpin domain; Region: Sod_Fe_N; pfam00081 667015005516 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 667015005517 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 667015005518 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 667015005519 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 667015005520 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 667015005521 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 667015005522 non-specific DNA binding site [nucleotide binding]; other site 667015005523 salt bridge; other site 667015005524 sequence-specific DNA binding site [nucleotide binding]; other site 667015005525 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 667015005526 Catalytic site [active] 667015005527 pH-dependent sodium/proton antiporter; Reviewed; Region: nhaA; PRK09560 667015005528 Predicted N6-adenine-specific DNA methylase [DNA replication, recombination, and repair]; Region: COG0116 667015005529 THUMP domain associated with S-adenosylmethionine-dependent methyltransferases; Region: THUMP_AdoMetMT; cd11715 667015005530 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 667015005531 Dipeptidyl peptidase IV (DPP IV) N-terminal region; Region: DPPIV_N; pfam00930 667015005532 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 667015005533 phosphoribosylamine--glycine ligase; Provisional; Region: PRK00885 667015005534 Phosphoribosylglycinamide synthetase, N domain; Region: GARS_N; pfam02844 667015005535 Phosphoribosylglycinamide synthetase, ATP-grasp (A) domain; Region: GARS_A; pfam01071 667015005536 Phosphoribosylglycinamide synthetase, C domain; Region: GARS_C; pfam02843 667015005537 Predicted membrane protein [Function unknown]; Region: COG1238 667015005538 S-adenosyl-L-methionine-dependent methyltransferase; Region: Methyltransf_30; cl17711 667015005539 Chloramphenicol acetyltransferase; Region: CAT; cl02008 667015005540 Uncharacterized subfamily of the multidrug and toxic compound extrusion (MATE) proteins; Region: MATE_like_7; cd13133 667015005541 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 667015005542 Acetyltransferase (isoleucine patch superfamily) [General function prediction only]; Region: WbbJ; COG0110 667015005543 Xenobiotic acyltransferase (XAT): The XAT class of hexapeptide acyltransferases is composed of a large number of microbial enzymes that catalyze the CoA-dependent acetylation of a variety of hydroxyl-bearing acceptors such as chloramphenicol and...; Region: LbH_XAT; cd03349 667015005544 trimer interface [polypeptide binding]; other site 667015005545 active site 667015005546 substrate binding site [chemical binding]; other site 667015005547 CoA binding site [chemical binding]; other site 667015005548 enolase; Provisional; Region: eno; PRK00077 667015005549 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 667015005550 dimer interface [polypeptide binding]; other site 667015005551 metal binding site [ion binding]; metal-binding site 667015005552 substrate binding pocket [chemical binding]; other site 667015005553 Rubrerythrin [Energy production and conversion]; Region: COG1592 667015005554 Rubrerythrin, ferritin-like diiron-binding domain; Region: Rubrerythrin; cd01041 667015005555 binuclear metal center [ion binding]; other site 667015005556 Rubredoxin, Small Modular nonheme iron binding domain containing a [Fe(SCys)4] center, present in rubrerythrin and nigerythrin and detected either N- or C-terminal to such proteins as flavin reductase, NAD(P)H-nitrite reductase, and...; Region: rubredoxin_SM; cd00729 667015005557 iron binding site [ion binding]; other site 667015005558 Sulfate transporter N-terminal domain with GLY motif; Region: Sulfate_tra_GLY; pfam13792 667015005559 putative transporter; Provisional; Region: PRK11660 667015005560 Sulfate transporter family; Region: Sulfate_transp; pfam00916 667015005561 Sulphate Transporter and Anti-Sigma factor antagonist domain of SulP-like sulfate transporters, plays a role in the function and regulation of the transport activity, proposed general NTP binding function; Region: STAS_SulP_like_sulfate_transporter; cd07042 667015005562 Disulphide bond corrector protein DsbC; Region: DsbC; cl15830 667015005563 Cytochrome c biogenesis protein [Posttranslational modification, protein turnover, chaperones]; Region: CcdA; COG0785 667015005564 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; cl15788 667015005565 Thioredoxin-like domain; Region: Thioredoxin_2; pfam13098 667015005566 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 667015005567 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional; Region: PRK14329 667015005568 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 667015005569 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 667015005570 FeS/SAM binding site; other site 667015005571 TRAM domain; Region: TRAM; pfam01938 667015005572 Acetyl-CoA hydrolase/transferase N-terminal domain; Region: AcetylCoA_hydro; pfam02550 667015005573 succinate CoA transferase; Region: YgfH_subfam; TIGR03458 667015005574 Acetyl-CoA hydrolase/transferase C-terminal domain; Region: AcetylCoA_hyd_C; pfam13336 667015005575 Glycosyl hydrolases family 2, sugar binding domain; Region: Glyco_hydro_2_N; pfam02837 667015005576 Glycosyl hydrolases family 2; Region: Glyco_hydro_2; pfam00703 667015005577 Glycosyl hydrolases family 2, TIM barrel domain; Region: Glyco_hydro_2_C; pfam02836 667015005578 Bacterial Ig-like domain (group 1); Region: Big_1; cl17740 667015005579 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 667015005580 Cna protein B-type domain; Region: Cna_B_2; pfam13715 667015005581 TonB-dependent outer membrane receptor, SusC/RagA subfamily, signature region; Region: SusC_RagA_signa; TIGR04057 667015005582 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 667015005583 Starch-binding associating with outer membrane; Region: SusD-like_3; pfam14322 667015005584 starch binding outer membrane protein SusD; Region: SusD; cd08977 667015005585 Domain of unknown function (DUF4369); Region: DUF4369; pfam14289 667015005586 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 667015005587 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 667015005588 catalytic residues [active] 667015005589 Zn-dependent protease with chaperone function [Posttranslational modification, protein turnover, chaperones]; Region: HtpX; COG0501 667015005590 Protein of unknown function (DUF3592); Region: DUF3592; pfam12158 667015005591 leucyl-tRNA synthetase, eubacterial and mitochondrial family; Region: leuS_bact; TIGR00396 667015005592 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 667015005593 active site 667015005594 HIGH motif; other site 667015005595 nucleotide binding site [chemical binding]; other site 667015005596 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 667015005597 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 667015005598 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 667015005599 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 667015005600 active site 667015005601 KMSKS motif; other site 667015005602 Anticodon-binding domain of bacterial and eukaryotic mitochondrial leucyl tRNA synthetases; Region: Anticodon_Ia_Leu_BEm; cd07958 667015005603 tRNA binding surface [nucleotide binding]; other site 667015005604 Uncharacterized conserved protein [Function unknown]; Region: COG1284 667015005605 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 667015005606 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 667015005607 Uncharacterized protein conserved in bacteria (DUF2179); Region: DUF2179; pfam10035 667015005608 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 667015005609 active site 667015005610 dimerization interface [polypeptide binding]; other site 667015005611 Tetratricopeptide repeat; Region: TPR_12; pfam13424 667015005612 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 667015005613 binding surface 667015005614 TPR motif; other site 667015005615 Tetratricopeptide repeat; Region: TPR_12; pfam13424 667015005616 Domain of unknown function (DUF3244); Region: DUF3244; pfam11589 667015005617 Major fimbrial subunit protein (FimA); Region: P_gingi_FimA; pfam06321 667015005618 sporulation sigma factor SigE; Reviewed; Region: PRK08301 667015005619 quinolinate synthetase; Provisional; Region: PRK09375 667015005620 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 667015005621 Domain of unknown function (DUF4294); Region: DUF4294; pfam14127 667015005622 Helix-hairpin-helix motif; Region: HHH_3; pfam12836 667015005623 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 667015005624 FeS/SAM binding site; other site 667015005625 Radical SAM superfamily; Region: Radical_SAM; pfam04055 667015005626 Methyltransferase domain; Region: Methyltransf_23; pfam13489 667015005627 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 667015005628 S-adenosylmethionine binding site [chemical binding]; other site 667015005629 cell division ABC transporter subunit FtsX; Provisional; Region: ftsX; PRK11026 667015005630 Protein of unknown function (DUF3098); Region: DUF3098; pfam11297 667015005631 Bacitracin resistance protein BacA; Region: BacA; pfam02673 667015005632 Pseudouridine synthase, Escherichia coli TruB like; Region: PseudoU_synth_EcTruB; cd02573 667015005633 tRNA pseudouridine(55) synthase; Region: TruB; TIGR00431 667015005634 RNA binding site [nucleotide binding]; other site 667015005635 active site 667015005636 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Provisional; Region: queA; PRK00147 667015005637 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Region: queA; TIGR00113 667015005638 7,8-dihydro-6-hydroxymethylpterin-pyrophosphokinase (HPPK). Folate derivatives are essential cofactors in the biosynthesis of purines, pyrimidines, and amino acids as well as formyl-tRNA. Mammalian cells are able to utilize pre-formed folates after...; Region: HPPK; cd00483 667015005639 catalytic center binding site [active] 667015005640 ATP binding site [chemical binding]; other site 667015005641 S-adenosylmethionine synthetase; Validated; Region: PRK05250 667015005642 S-adenosylmethionine synthetase, N-terminal domain; Region: S-AdoMet_synt_N; pfam00438 667015005643 S-adenosylmethionine synthetase, central domain; Region: S-AdoMet_synt_M; pfam02772 667015005644 S-adenosylmethionine synthetase, C-terminal domain; Region: S-AdoMet_synt_C; pfam02773 667015005645 Possible lysine decarboxylase; Region: Lysine_decarbox; cl00695 667015005646 Domain of unknown function (DUF4271); Region: DUF4271; pfam14093 667015005647 ribonuclease P; Reviewed; Region: rnpA; PRK01903 667015005648 Haemolytic domain; Region: Haemolytic; pfam01809 667015005649 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 667015005650 active site 667015005651 tyrosyl-tRNA synthetase; Validated; Region: PRK05912 667015005652 catalytic core domain of tyrosinyl-tRNA synthetase; Region: TyrRS_core; cd00805 667015005653 active site 667015005654 HIGH motif; other site 667015005655 dimer interface [polypeptide binding]; other site 667015005656 KMSKS motif; other site 667015005657 Zn-dependent oligopeptidases [Amino acid transport and metabolism]; Region: Dcp; COG0339 667015005658 Peptidase family M3 dipeptidyl carboxypeptidase (DCP); Region: M3A_DCP; cd06456 667015005659 active site 667015005660 Zn binding site [ion binding]; other site 667015005661 RNA polymerase sigma-70 factor, Bacteroides expansion family 1; Region: Sig70_bacteroi1; TIGR02985 667015005662 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 667015005663 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 667015005664 DNA binding residues [nucleotide binding] 667015005665 Fe2+-dicitrate sensor, membrane component [Inorganic ion transport and metabolism / Signal transduction mechanisms]; Region: FecR; COG3712 667015005666 FecR protein; Region: FecR; pfam04773 667015005667 Secretin and TonB N terminus short domain; Region: STN; pfam07660 667015005668 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 667015005669 Cna protein B-type domain; Region: Cna_B_2; pfam13715 667015005670 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 667015005671 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 667015005672 starch binding outer membrane protein SusD; Region: SusD; cl17845 667015005673 SusD family; Region: SusD; pfam07980 667015005674 Pectinesterase; Region: Pectinesterase; pfam01095 667015005675 putative pectinesterase; Region: PLN02432; cl01911 667015005676 Abhydrolase family; Region: Abhydrolase_7; pfam12715 667015005677 potential frameshift: common BLAST hit: gi|256420853|ref|YP_003121506.1| glycoside hydrolase family 2 sugar binding 667015005678 Glycosyl hydrolases family 2, sugar binding domain; Region: Glyco_hydro_2_N; pfam02837 667015005679 S-ribosylhomocysteinase; Provisional; Region: PRK02260 667015005680 5'-methylthioadenosine/S-adenosylhomocysteine nucleosidase; Validated; Region: PRK05584 667015005681 5'-methylthioadenosine/S-adenosylhomocysteine nucleosidase; Region: MTA/SAH-Nsdase; TIGR01704 667015005682 Bacterial membrane protein YfhO; Region: YfhO; pfam09586 667015005683 PUA domain; Region: PUA; cl00607 667015005684 DNA topoisomerase IV subunit B; Reviewed; Region: PRK05559 667015005685 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 667015005686 ATP binding site [chemical binding]; other site 667015005687 Mg2+ binding site [ion binding]; other site 667015005688 G-X-G motif; other site 667015005689 MutL_Trans: transducer domain, having a ribosomal S5 domain 2-like fold, conserved in the C-terminal domain of type II DNA topoisomerases (Topo II) and DNA mismatch repair (MutL/MLH1/PMS2) proteins. This transducer domain is homologous to the second...; Region: TopoII_MutL_Trans; cl02783 667015005690 ATP binding site [chemical binding]; other site 667015005691 TOPRIM_TopoIIA_like: topoisomerase-primase (TOPRIM) nucleotidyl transferase/hydrolase domain of the type found in proteins of the type IIA family of DNA topoisomerases similar to Saccharomyces cerevisiae Topoisomerase II. TopoIIA enzymes cut both strands...; Region: TOPRIM_TopoIIA_like; cd01030 667015005692 active site 667015005693 putative metal-binding site [ion binding]; other site 667015005694 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 667015005695 phosphopantetheine adenylyltransferase; Provisional; Region: coaD; PRK00168 667015005696 Phosphopantetheine adenylyltransferase; Region: PPAT; cd02163 667015005697 active site 667015005698 (T/H)XGH motif; other site 667015005699 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 667015005700 C-terminal peptidase (prc); Region: prc; TIGR00225 667015005701 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 667015005702 protein binding site [polypeptide binding]; other site 667015005703 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 667015005704 Catalytic dyad [active] 667015005705 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 667015005706 Thioredoxin-like domain; Region: Thioredoxin_2; pfam13098 667015005707 DNA recombination-mediator protein A; Region: DNA_processg_A; pfam02481 667015005708 DNA protecting protein DprA; Region: dprA; TIGR00732 667015005709 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 667015005710 active site 667015005711 Protein of unknown function (DUF2851); Region: DUF2851; pfam11013 667015005712 dihydrodipicolinate reductase; Provisional; Region: PRK00048 667015005713 Dihydrodipicolinate reductase, N-terminus; Region: DapB_N; pfam01113 667015005714 Dihydrodipicolinate reductase, C-terminus; Region: DapB_C; pfam05173 667015005715 Signal peptidase I [Intracellular trafficking and secretion]; Region: LepB; COG0681 667015005716 The S24, S26 LexA/signal peptidase superfamily contains LexA-related and type I signal peptidase families. The S24 LexA protein domains include: the lambda repressor CI/C2 family and related bacterial prophage repressor proteins; LexA (EC 3.4.21.88), the...; Region: Peptidase_S24_S26; cl10465 667015005717 Catalytic site [active] 667015005718 signal peptidase I, bacterial type; Region: sigpep_I_bact; TIGR02227 667015005719 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 667015005720 signal peptidase I; Provisional; Region: PRK10861 667015005721 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 667015005722 Catalytic site [active] 667015005723 WbqC-like protein family; Region: WbqC; pfam08889 667015005724 Membrane associated serine protease [Amino acid transport and metabolism]; Region: COG0705 667015005725 Membrane associated serine protease [Amino acid transport and metabolism]; Region: COG0705 667015005726 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; uncharacterized family 2; Region: EEP-2; cd09084 667015005727 putative catalytic site [active] 667015005728 putative metal binding site [ion binding]; other site 667015005729 putative phosphate binding site [ion binding]; other site 667015005730 WfgS and WfeV are involved in O-antigen biosynthesis; Region: GT_2_WfgS_like; cd06433 667015005731 metal-binding site 667015005732 This family is most closely related to the GT1 family of glycosyltransferases. wcfI in Bacteroides fragilis has been shown to be involved in the capsular polysaccharide biosynthesis; Region: GT1_wcfI_like; cd03825 667015005733 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 667015005734 GDP-fucose protein O-fucosyltransferase and related proteins; Region: O-FucT_like; cl16914 667015005735 GDP-Fucose binding site [chemical binding]; other site 667015005736 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 667015005737 dimer interface [polypeptide binding]; other site 667015005738 ADP-ribose binding site [chemical binding]; other site 667015005739 active site 667015005740 nudix motif; other site 667015005741 metal binding site [ion binding]; metal-binding site 667015005742 GNT-I family; Region: GNT-I; pfam03071 667015005743 Predicted glycosyltransferases [General function prediction only]; Region: COG1216 667015005744 Subfamily of Glycosyltransferase Family GT2 of unknown function; Region: GT_2_like_c; cd04186 667015005745 Probable Catalytic site; other site 667015005746 metal-binding site 667015005747 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 667015005748 non-specific DNA binding site [nucleotide binding]; other site 667015005749 salt bridge; other site 667015005750 sequence-specific DNA binding site [nucleotide binding]; other site 667015005751 Phage derived protein Gp49-like (DUF891); Region: Gp49; pfam05973 667015005752 colanic acid exporter; Provisional; Region: PRK10459 667015005753 Uncharacterized subfamily of the multidrug and toxic compound extrusion (MATE) proteins; Region: MATE_tuaB_like; cd13127 667015005754 methionyl-tRNA synthetase; Reviewed; Region: metG; PRK00133 667015005755 catalytic core domain of methioninyl-tRNA synthetases; Region: MetRS_core; cd00814 667015005756 active site 667015005757 HIGH motif; other site 667015005758 KMSKS motif; other site 667015005759 Anticodon-binding domain of methionyl tRNA synthetases; Region: Anticodon_Ia_Met; cd07957 667015005760 tRNA binding surface [nucleotide binding]; other site 667015005761 anticodon binding site; other site 667015005762 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 667015005763 dimer interface [polypeptide binding]; other site 667015005764 putative tRNA-binding site [nucleotide binding]; other site 667015005765 Gram-negative bacterial tonB protein; Region: TonB; cl10048 667015005766 serine O-acetyltransferase; Region: cysE; TIGR01172 667015005767 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 667015005768 trimer interface [polypeptide binding]; other site 667015005769 active site 667015005770 substrate binding site [chemical binding]; other site 667015005771 CoA binding site [chemical binding]; other site 667015005772 6-phosphofructokinase; Provisional; Region: PRK03202 667015005773 6-phosphofructokinase; Region: PFKA_ATP; TIGR02482 667015005774 active site 667015005775 ADP/pyrophosphate binding site [chemical binding]; other site 667015005776 dimerization interface [polypeptide binding]; other site 667015005777 allosteric effector site; other site 667015005778 fructose-1,6-bisphosphate binding site; other site 667015005779 GH3 auxin-responsive promoter; Region: GH3; pfam03321 667015005780 Bacterial Ig-like domain; Region: Big_5; pfam13205 667015005781 Middle domain of rhamnogalacturonan lyase, a family 4 polysaccharide lyase; Region: RGL4_M; cd10316 667015005782 Protein of unknown function (DUF3108); Region: DUF3108; pfam11306 667015005783 Protein of unknown function (DUF1593); Region: DUF1593; pfam07632 667015005784 Predicted AAA-ATPase; Region: AAA-ATPase_like; pfam09820 667015005785 Protein of unknown function (DUF1703); Region: DUF1703; pfam08011 667015005786 conserved hypothetical protein (putative transposase or invertase); Region: T_den_put_tspse; TIGR01784 667015005787 PD-(D/E)XK nuclease family transposase; Region: PDDEXK_2; pfam12784 667015005788 cysteinyl-tRNA synthetase; Validated; Region: cysS; PRK00260 667015005789 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 667015005790 active site 667015005791 HIGH motif; other site 667015005792 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 667015005793 KMSKS motif; other site 667015005794 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 667015005795 tRNA binding surface [nucleotide binding]; other site 667015005796 anticodon binding site; other site 667015005797 Glycoside hydrolase 97; Region: Glyco_hydro_97; pfam10566 667015005798 tRNA-specific 2-thiouridylase MnmA; Provisional; Region: mnmA; PRK14665 667015005799 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 667015005800 Ligand Binding Site [chemical binding]; other site 667015005801 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 667015005802 Transposase domain (DUF772); Region: DUF772; pfam05598 667015005803 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 667015005804 Chloramphenicol acetyltransferase; Region: CAT; cl02008 667015005805 Ketopantoate reductase [Coenzyme metabolism]; Region: ApbA; COG1893 667015005806 Ketopantoate reductase PanE/ApbA; Region: ApbA; pfam02558 667015005807 Ketopantoate reductase PanE/ApbA C terminal; Region: ApbA_C; pfam08546 667015005808 GTP-binding protein YchF; Reviewed; Region: PRK09601 667015005809 YchF GTPase; Region: YchF; cd01900 667015005810 G1 box; other site 667015005811 GTP/Mg2+ binding site [chemical binding]; other site 667015005812 Switch I region; other site 667015005813 G2 box; other site 667015005814 Switch II region; other site 667015005815 G3 box; other site 667015005816 G4 box; other site 667015005817 G5 box; other site 667015005818 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 667015005819 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4185 667015005820 AAA domain; Region: AAA_33; pfam13671 667015005821 Family of unknown function (DUF3836); Region: DUF3836; pfam12930 667015005822 DNA polymerase I; Provisional; Region: PRK05755 667015005823 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 667015005824 active site 667015005825 metal binding site 1 [ion binding]; metal-binding site 667015005826 putative 5' ssDNA interaction site; other site 667015005827 metal binding site 3; metal-binding site 667015005828 metal binding site 2 [ion binding]; metal-binding site 667015005829 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 667015005830 putative DNA binding site [nucleotide binding]; other site 667015005831 putative metal binding site [ion binding]; other site 667015005832 DEDDy 3'-5' exonuclease domain of Escherichia coli DNA polymerase I and similar bacterial family-A DNA polymerases; Region: DNA_polA_I_Ecoli_like_exo; cd06139 667015005833 active site 667015005834 catalytic site [active] 667015005835 substrate binding site [chemical binding]; other site 667015005836 Polymerase I functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication; Region: DNA_pol_A_pol_I_C; cd08637 667015005837 active site 667015005838 DNA binding site [nucleotide binding] 667015005839 catalytic site [active] 667015005840 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 667015005841 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 667015005842 substrate binding pocket [chemical binding]; other site 667015005843 chain length determination region; other site 667015005844 substrate-Mg2+ binding site; other site 667015005845 catalytic residues [active] 667015005846 aspartate-rich region 1; other site 667015005847 active site lid residues [active] 667015005848 aspartate-rich region 2; other site 667015005849 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 667015005850 Cna protein B-type domain; Region: Cna_B_2; pfam13715 667015005851 TonB-dependent outer membrane receptor, SusC/RagA subfamily, signature region; Region: SusC_RagA_signa; TIGR04057 667015005852 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 667015005853 starch binding outer membrane protein SusD; Region: SusD; cl17845 667015005854 SusD family; Region: SusD; pfam07980 667015005855 PD-(D/E)XK nuclease family transposase; Region: PDDEXK_2; pfam12784 667015005856 conserved hypothetical protein (putative transposase or invertase); Region: T_den_put_tspse; TIGR01784 667015005857 Probable polygalacturonase At3g15720; Region: PLN03003; cl14103 667015005858 Right handed beta helix region; Region: Beta_helix; pfam13229 667015005859 Putative alpha-1,2-mannosidase [Carbohydrate transport and metabolism]; Region: COG3537 667015005860 Glycosyl hydrolase family 92; Region: Glyco_hydro_92; pfam07971 667015005861 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4299 667015005862 Alpha-N-acetylglucosaminidase (NAGLU) N-terminal domain; Region: NAGLU_N; pfam12971 667015005863 Alpha-N-acetylglucosaminidase (NAGLU) tim-barrel domain; Region: NAGLU; pfam05089 667015005864 Alpha-N-acetylglucosaminidase (NAGLU) C-terminal domain; Region: NAGLU_C; pfam12972 667015005865 IclR helix-turn-helix domain; Region: HTH_IclR; cl17605 667015005866 putative transposase OrfB; Reviewed; Region: PHA02517 667015005867 Integrase core domain; Region: rve; pfam00665 667015005868 Integrase core domain; Region: rve_3; pfam13683 667015005869 Protein of unknown function (DUF3791); Region: DUF3791; pfam12668 667015005870 2-deoxyribose-5-phosphate aldolase (DERA) of the DeoC family; Region: DeoC; cd00959 667015005871 intersubunit interface [polypeptide binding]; other site 667015005872 active site 667015005873 catalytic residue [active] 667015005874 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) MazG-like domain putative pyrophosphatase YpjD from Bacillus subtilis and its bacterial homologs; Region: NTP-PPase_BsYpjD; cd11531 667015005875 homodimer interface [polypeptide binding]; other site 667015005876 metal binding site [ion binding]; metal-binding site 667015005877 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 667015005878 putative active site [active] 667015005879 dimerization interface [polypeptide binding]; other site 667015005880 putative tRNAtyr binding site [nucleotide binding]; other site 667015005881 excinuclease ABC subunit C; Validated; Region: uvrC; PRK00558 667015005882 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 667015005883 GIY-YIG motif/motif A; other site 667015005884 active site 667015005885 catalytic site [active] 667015005886 putative DNA binding site [nucleotide binding]; other site 667015005887 metal binding site [ion binding]; metal-binding site 667015005888 UvrC Helix-hairpin-helix N-terminal; Region: UvrC_HhH_N; pfam08459 667015005889 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 667015005890 active site 667015005891 tRNA uridine 5-carboxymethylaminomethyl modification enzyme GidA; Validated; Region: PRK05192 667015005892 NAD(FAD)-utilizing enzyme possibly involved in translation [Translation, ribosomal structure and biogenesis]; Region: Gid; COG1206 667015005893 GidA associated domain 3; Region: GIDA_assoc_3; pfam13932 667015005894 Uncharacterized protein family UPF0054; Region: UPF0054; pfam02130 667015005895 Uncharacterized membrane protein, required for spore maturation in B.subtilis. [General function prediction only]; Region: SpmA; COG2715 667015005896 Uncharacterized membrane protein [Function unknown]; Region: SpmB; COG0700 667015005897 Protein of unknown function (DUF3810); Region: DUF3810; pfam12725 667015005898 Predicted double-stranded RNA/RNA-DNA hybrid binding protein [General function prediction only]; Region: COG3341 667015005899 Caulimovirus viroplasmin; Region: Cauli_VI; pfam01693 667015005900 RNase H is an endonuclease that cleaves the RNA strand of an RNA/DNA hybrid in a sequence non-specific manner; Region: RNase_H; cd06222 667015005901 active site 667015005902 RNA/DNA hybrid binding site [nucleotide binding]; other site 667015005903 Arginyl-tRNA synthetase [Translation, ribosomal structure and biogenesis]; Region: ArgS; COG0018 667015005904 Arginyl tRNA synthetase N terminal dom; Region: Arg_tRNA_synt_N; smart01016 667015005905 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 667015005906 active site 667015005907 HIGH motif; other site 667015005908 nucleotide binding site [chemical binding]; other site 667015005909 catalytic core domain of arginyl-tRNA synthetases; Region: ArgRS_core; cd00671 667015005910 KMSK motif region; other site 667015005911 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 667015005912 tRNA binding surface [nucleotide binding]; other site 667015005913 anticodon binding site; other site 667015005914 Predicted AAA-ATPase; Region: AAA-ATPase_like; pfam09820 667015005915 Protein of unknown function (DUF1703); Region: DUF1703; pfam08011 667015005916 BRO family, N-terminal domain; Region: Bro-N; smart01040 667015005917 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 667015005918 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 667015005919 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 667015005920 Possible lysine decarboxylase; Region: Lysine_decarbox; cl00695 667015005921 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 667015005922 Fructokinases (FRKs) mainly from bacteria and plants are enzymes with high specificity for fructose, as are all FRKs, but they catalyzes the conversion of fructose to fructose-6-phosphate, which is an entry point into glycolysis via conversion into...; Region: bac_FRK; cd01167 667015005923 putative substrate binding site [chemical binding]; other site 667015005924 putative ATP binding site [chemical binding]; other site 667015005925 PD-(D/E)XK nuclease family transposase; Region: PDDEXK_2; pfam12784 667015005926 conserved hypothetical protein (putative transposase or invertase); Region: T_den_put_tspse; TIGR01784 667015005927 Iron-containing alcohol dehydrogenases-like; Region: Fe-ADH1; cd08185 667015005928 Iron-containing alcohol dehydrogenase; Region: Fe-ADH; pfam00465 667015005929 putative active site [active] 667015005930 metal binding site [ion binding]; metal-binding site 667015005931 L-aspartate oxidase; Provisional; Region: PRK09077 667015005932 L-aspartate oxidase; Provisional; Region: PRK06175 667015005933 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 667015005934 Domain of unknown function (DUF1200); Region: DUF1200; pfam06713 667015005935 Pyruvate/2-oxoglutarate dehydrogenase complex, dihydrolipoamide dehydrogenase (E3) component, and related enzymes [Energy production and conversion]; Region: Lpd; COG1249 667015005936 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 667015005937 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 667015005938 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 667015005939 D-Ala-D-Ala carboxypeptidase 3 (S13) family; Region: Peptidase_S13; cl17429 667015005940 gluconate 5-dehydrogenase; Provisional; Region: PRK07097 667015005941 gluconate 5-dehydrogenase (Ga5DH)-like, classical (c) SDRs; Region: Ga5DH-like_SDR_c; cd05347 667015005942 NADP binding site [chemical binding]; other site 667015005943 homodimer interface [polypeptide binding]; other site 667015005944 active site 667015005945 Metal binding protein ZntC. These proteins are predicted to function as initial receptors in ABC transport of metal ions. They belong to the TroA superfamily of helical backbone metal receptor proteins that share a distinct fold and ligand binding...; Region: ZntC; cd01018 667015005946 Periplasmic solute binding protein family; Region: SBP_bac_9; pfam01297 667015005947 putative metal binding residues [ion binding]; other site 667015005948 cell division ATP-binding protein FtsE; Region: FtsE; TIGR02673 667015005949 ATP-binding cassette domain of the metal-type transporters; Region: ABC_Metallic_Cations; cd03235 667015005950 Protein of unknown function (DUF2723); Region: DUF2723; pfam11028 667015005951 Predicted xylanase/chitin deacetylase [Carbohydrate transport and metabolism]; Region: CDA1; COG0726 667015005952 Catalytic NodB homology domain of rhizobial NodB-like proteins; Region: CE4_NodB_like_6s_7s; cd10917 667015005953 NodB motif; other site 667015005954 active site 667015005955 catalytic site [active] 667015005956 metal binding site [ion binding]; metal-binding site 667015005957 Starch-binding associating with outer membrane; Region: SusD-like_3; pfam14322 667015005958 starch binding outer membrane protein SusD; Region: SusD; cd08977 667015005959 SusD family; Region: SusD; pfam07980 667015005960 Predicted AAA-ATPase; Region: AAA-ATPase_like; pfam09820 667015005961 Protein of unknown function (DUF1703); Region: DUF1703; pfam08011 667015005962 Predicted ATPase with chaperone activity [Posttranslational modification, protein turnover, chaperones]; Region: COG0606 667015005963 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 667015005964 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase; pfam01078 667015005965 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase_2; pfam13335 667015005966 Domain of unknown function (DUF4369); Region: DUF4369; pfam14289 667015005967 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 667015005968 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 667015005969 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 667015005970 TPR motif; other site 667015005971 binding surface 667015005972 tyrosine recombinase XerD; Region: recomb_XerD; TIGR02225 667015005973 XerD and XerC integrases, DNA breaking-rejoining enzymes, N- and C-terminal domains. XerD-like integrases are involved in the site-specific integration and excision of lysogenic bacteriophage genomes, transposition of conjugative transposons, termination...; Region: INT_XerDC; cd00798 667015005974 active site 667015005975 Int/Topo IB signature motif; other site 667015005976 Dehydroquinase class II; Region: DHquinase_II; pfam01220 667015005977 Dehydroquinase (DHQase), type II. Dehydroquinase (or 3-dehydroquinate dehydratase) catalyzes the reversible dehydration of 3-dehydroquinate to form 3-dehydroshikimate. This reaction is part of two metabolic pathways: the biosynthetic shikimate pathway...; Region: DHQase_II; cd00466 667015005978 trimer interface [polypeptide binding]; other site 667015005979 active site 667015005980 dimer interface [polypeptide binding]; other site 667015005981 pyruvate kinase; Provisional; Region: PRK05826 667015005982 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 667015005983 domain interfaces; other site 667015005984 active site 667015005985 Predicted O-methyltransferase [General function prediction only]; Region: COG4122 667015005986 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 667015005987 S-adenosylmethionine binding site [chemical binding]; other site 667015005988 Ribosome-binding factor A; Region: RBFA; pfam02033 667015005989 ABC-type transport system, involved in lipoprotein release, permease component [Cell envelope biogenesis, outer membrane]; Region: LolE; COG4591 667015005990 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 667015005991 FtsX-like permease family; Region: FtsX; pfam02687 667015005992 ribonuclease R; Region: RNase_R; TIGR02063 667015005993 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 667015005994 RNB domain; Region: RNB; pfam00773 667015005995 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 667015005996 RNA binding site [nucleotide binding]; other site 667015005997 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 667015005998 Cation efflux family; Region: Cation_efflux; pfam01545 667015005999 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 667015006000 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 667015006001 NAD(P) binding site [chemical binding]; other site 667015006002 active site 667015006003 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 667015006004 active site 667015006005 Protein of unknown function (DUF2807); Region: DUF2807; pfam10988 667015006006 Protein of unknown function (DUF3946); Region: DUF3946; pfam13102 667015006007 Tn4399 and related integrases, DNA breaking-rejoining enzymes, integrase/recombinases, N- and C-terminal domains. This CD includes various bacterial integrases, including cLV25, a Bacteroides fragilis chromosomal transfer factor integrase similar to the...; Region: INT_Tn4399; cd01185 667015006008 tyrosine recombinase XerC; Region: recomb_XerC; TIGR02224 667015006009 Int/Topo IB signature motif; other site 667015006010 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 667015006011 FOG: LysM repeat [Cell envelope biogenesis, outer membrane]; Region: LytE; COG1388 667015006012 TIGR02594 family protein; Region: TIGR02594 667015006013 Relaxase/Mobilisation nuclease domain; Region: Relaxase; pfam03432 667015006014 Bacterial mobilisation protein (MobC); Region: MobC; pfam05713 667015006015 CHC2 zinc finger; Region: zf-CHC2; cl17510 667015006016 TOPRIM_primases: The topoisomerase-primase (TORPIM) nucleotidyl transferase/hydrolase domain found in the active site regions of bacterial DnaG-type primases and their homologs. Primases synthesize RNA primers for the initiation of DNA replication. DnaG...; Region: TOPRIM_primases; cd01029 667015006017 active site 667015006018 metal binding site [ion binding]; metal-binding site 667015006019 interdomain interaction site; other site 667015006020 Helix-turn-helix domain; Region: HTH_17; pfam12728 667015006021 drug resistance transporter, Bcr/CflA subfamily; Region: efflux_Bcr_CflA; TIGR00710 667015006022 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 667015006023 putative substrate translocation pore; other site 667015006024 Ammonia permease [Inorganic ion transport and metabolism]; Region: AmtB; COG0004 667015006025 Nitrogen regulatory protein P-II; Region: P-II; pfam00543 667015006026 Nitrogen regulatory protein P-II; Region: P-II; smart00938 667015006027 Domain of Unknown Function (DUF1599); Region: DUF1599; pfam07659 667015006028 Domain of Unknown Function (DUF1599); Region: DUF1599; pfam07659 667015006029 DoxX; Region: DoxX; pfam07681 667015006030 triosephosphate isomerase; Provisional; Region: PRK14567 667015006031 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 667015006032 substrate binding site [chemical binding]; other site 667015006033 dimer interface [polypeptide binding]; other site 667015006034 catalytic triad [active] 667015006035 Sporulation related domain; Region: SPOR; pfam05036 667015006036 GTP cyclohydrolase I (GTP-CH-I) catalyzes the conversion of GTP into dihydroneopterin triphosphate. The enzyme product is the precursor of tetrahydrofolate in eubacteria, fungi, and plants and of the folate analogs in methanogenic bacteria. In...; Region: GTP_cyclohydro1; cd00642 667015006037 homodecamer interface [polypeptide binding]; other site 667015006038 GTP cyclohydrolase I; Provisional; Region: PLN03044 667015006039 active site 667015006040 putative catalytic site residues [active] 667015006041 zinc binding site [ion binding]; other site 667015006042 GTP-CH-I/GFRP interaction surface; other site 667015006043 Protein of unknown function (DUF3089); Region: DUF3089; pfam11288 667015006044 Virulence protein RhuM family; Region: Virulence_RhuM; pfam13310 667015006045 putative TIM-barrel protein, nifR3 family; Region: nifR3_yhdG; TIGR00737 667015006046 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 667015006047 FMN binding site [chemical binding]; other site 667015006048 active site 667015006049 catalytic residues [active] 667015006050 substrate binding site [chemical binding]; other site 667015006051 Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]; Region: COG0826 667015006052 Peptidase family U32; Region: Peptidase_U32; pfam01136 667015006053 Phosphoenolpyruvate carboxykinase; Region: PEPCK_ATP; pfam01293 667015006054 Phosphoenolpyruvate carboxykinase (PEPCK), a critical gluconeogenic enzyme, catalyzes the first committed step in the diversion of tricarboxylic acid cycle intermediates toward gluconeogenesis. It catalyzes the reversible decarboxylation and...; Region: PEPCK_ATP; cd00484 667015006055 active site 667015006056 substrate-binding site [chemical binding]; other site 667015006057 metal-binding site [ion binding] 667015006058 ATP binding site [chemical binding]; other site 667015006059 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 667015006060 active site 667015006061 2-oxoglutarate ferredoxin oxidoreductase subunit beta; Reviewed; Region: PRK11867 667015006062 Thiamine pyrophosphate (TPP family), 2-oxoglutarate ferredoxin oxidoreductase (OGFOR) subfamily, TPP-binding module; OGFOR catalyzes the oxidative decarboxylation of 2-oxo-acids, with ferredoxin acting as an electron acceptor. In the TCA cycle, OGFOR...; Region: TPP_OGFOR; cd03375 667015006063 TPP-binding site [chemical binding]; other site 667015006064 Pyruvate:ferredoxin oxidoreductase and related 2-oxoacid:ferredoxin oxidoreductases, gamma subunit [Energy production and conversion]; Region: PorG; COG1014 667015006065 2-oxoacid:acceptor oxidoreductase, alpha subunit; Region: OAFO_sf; TIGR03710 667015006066 Pyrimidine (PYR) binding domain of pyruvate ferredoxin oxidoreductase (PFOR), indolepyruvate ferredoxin oxidoreductase alpha subunit (IOR-alpha), and related proteins; Region: TPP_PYR_PFOR_IOR-alpha_like; cd07034 667015006067 dimer interface [polypeptide binding]; other site 667015006068 PYR/PP interface [polypeptide binding]; other site 667015006069 TPP binding site [chemical binding]; other site 667015006070 substrate binding site [chemical binding]; other site 667015006071 Organic radical activating enzymes [Posttranslational modification, protein turnover, chaperones]; Region: NrdG; COG0602 667015006072 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 667015006073 FeS/SAM binding site; other site 667015006074 6-pyruvoyl tetrahydropterin synthase; Region: PTPS; pfam01242 667015006075 active site 667015006076 preprotein translocase subunit SecD; Reviewed; Region: secD; PRK05812 667015006077 protein-export membrane protein, SecD/SecF family; Region: 2A0604s01; TIGR00916 667015006078 preprotein translocase subunit SecF; Reviewed; Region: secF; PRK13022 667015006079 Protein export membrane protein; Region: SecD_SecF; cl14618 667015006080 Threonine aldolase [Amino acid transport and metabolism]; Region: GLY1; COG2008 667015006081 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 667015006082 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 667015006083 catalytic residue [active] 667015006084 Carbonic anhydrases/acetyltransferases, isoleucine patch superfamily [General function prediction only]; Region: PaaY; COG0663 667015006085 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 667015006086 trimer interface [polypeptide binding]; other site 667015006087 putative metal binding site [ion binding]; other site 667015006088 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 667015006089 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 667015006090 X-Prolyl Aminopeptidase 2. E.C. 3.4.11.9. Also known as X-Pro aminopeptidase, proline aminopeptidase, aminopeptidase P, and aminoacylproline aminopeptidase. Catalyses release of any N-terminal amino acid, including proline, that is linked with proline; Region: APP; cd01085 667015006091 active site 667015006092 30S ribosomal protein S21; Reviewed; Region: rpsU; PRK00270 667015006093 tyrosine recombinase XerC; Region: recomb_XerC; TIGR02224 667015006094 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 667015006095 active site 667015006096 DNA binding site [nucleotide binding] 667015006097 Int/Topo IB signature motif; other site 667015006098 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 667015006099 30S subunit binding site; other site 667015006100 elongation factor Tu; Reviewed; Region: PRK12735 667015006101 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 667015006102 G1 box; other site 667015006103 GEF interaction site [polypeptide binding]; other site 667015006104 GTP/Mg2+ binding site [chemical binding]; other site 667015006105 Switch I region; other site 667015006106 G2 box; other site 667015006107 G3 box; other site 667015006108 Switch II region; other site 667015006109 G4 box; other site 667015006110 G5 box; other site 667015006111 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 667015006112 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 667015006113 Antibiotic Binding Site [chemical binding]; other site 667015006114 SecE/Sec61-gamma subunits of protein translocation complex; Region: SecE; pfam00584 667015006115 transcription antitermination protein NusG; Validated; Region: nusG; PRK05609 667015006116 Bacterial N-Utilization Substance G (NusG) N-terminal (NGN) domain, subgroup 1; Region: NGN_Bact_1; cd09891 667015006117 putative homodimer interface [polypeptide binding]; other site 667015006118 NusG contains an NGN domain at its N-terminus and KOW motif at its C-terminus; Region: KOW_NusG; cd06091 667015006119 heterodimer interface [polypeptide binding]; other site 667015006120 homodimer interface [polypeptide binding]; other site 667015006121 50S ribosomal protein L11; Validated; Region: rplK; PRK00140 667015006122 Ribosomal protein L11. Ribosomal protein L11, together with proteins L10 and L7/L12, and 23S rRNA, form the L7/L12 stalk on the surface of the large subunit of the ribosome. The homologous eukaryotic cytoplasmic protein is also called 60S ribosomal...; Region: Ribosomal_L11; cd00349 667015006123 23S rRNA interface [nucleotide binding]; other site 667015006124 L7/L12 interface [polypeptide binding]; other site 667015006125 putative thiostrepton binding site; other site 667015006126 L25 interface [polypeptide binding]; other site 667015006127 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 667015006128 mRNA/rRNA interface [nucleotide binding]; other site 667015006129 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 667015006130 23S rRNA interface [nucleotide binding]; other site 667015006131 Interface with L7/L12 ribosomal proteins [polypeptide binding]; other site 667015006132 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 667015006133 core dimer interface [polypeptide binding]; other site 667015006134 peripheral dimer interface [polypeptide binding]; other site 667015006135 L10 interface [polypeptide binding]; other site 667015006136 L11 interface [polypeptide binding]; other site 667015006137 putative EF-Tu interaction site [polypeptide binding]; other site 667015006138 putative EF-G interaction site [polypeptide binding]; other site 667015006139 RNA polymerase beta subunit; Region: RNA_pol_Rpb2_1; pfam04563 667015006140 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 667015006141 Vacuolar sorting protein 39 domain 1; Region: Vps39_1; pfam10366 667015006142 RNA polymerase Rpb2, domain 2; Region: RNA_pol_Rpb2_2; pfam04561 667015006143 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 667015006144 RNA polymerase Rpb2, domain 6; Region: RNA_pol_Rpb2_6; pfam00562 667015006145 RPB12 interaction site [polypeptide binding]; other site 667015006146 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 667015006147 RPB3 interaction site [polypeptide binding]; other site 667015006148 RPB1 interaction site [polypeptide binding]; other site 667015006149 RPB11 interaction site [polypeptide binding]; other site 667015006150 RPB10 interaction site [polypeptide binding]; other site 667015006151 RNA polymerase Rpb1, domain 1; Region: RNA_pol_Rpb1_1; pfam04997 667015006152 DNA-directed RNA polymerase, beta' subunit/160 kD subunit [Transcription]; Region: RpoC; COG0086 667015006153 RNA polymerase I subunit A N-terminus; Region: RPOLA_N; smart00663 667015006154 RNA polymerase Rpb1, domain 3; Region: RNA_pol_Rpb1_3; pfam04983 667015006155 RNA polymerase Rpb1, domain 4; Region: RNA_pol_Rpb1_4; pfam05000 667015006156 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 667015006157 Rpb1 - Rpb6 interaction site [polypeptide binding]; other site 667015006158 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 667015006159 DNA binding site [nucleotide binding] 667015006160 Rpb1 (beta') - Rpb2 (beta) interaction site [polypeptide binding]; other site 667015006161 Protein of unknown function (DUF456); Region: DUF456; pfam04306 667015006162 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 667015006163 binding surface 667015006164 TPR motif; other site 667015006165 Tetratricopeptide repeat; Region: TPR_12; pfam13424 667015006166 helix_turn_helix, Lux Regulon; Region: HTH_LUXR; smart00421 667015006167 DNA binding residues [nucleotide binding] 667015006168 Cna protein B-type domain; Region: Cna_B_2; pfam13715 667015006169 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 667015006170 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 667015006171 PD-(D/E)XK nuclease family transposase; Region: PDDEXK_2; pfam12784 667015006172 conserved hypothetical protein (putative transposase or invertase); Region: T_den_put_tspse; TIGR01784 667015006173 prolipoprotein diacylglyceryl transferase; Reviewed; Region: PRK00052 667015006174 Tn4399 and related integrases, DNA breaking-rejoining enzymes, integrase/recombinases, N- and C-terminal domains. This CD includes various bacterial integrases, including cLV25, a Bacteroides fragilis chromosomal transfer factor integrase similar to the...; Region: INT_Tn4399; cd01185 667015006175 Int/Topo IB signature motif; other site 667015006176 Virulence protein [General function prediction only]; Region: COG3943 667015006177 Helix-turn-helix domain; Region: HTH_17; pfam12728 667015006178 Helix-turn-helix domain; Region: HTH_17; pfam12728 667015006179 Helix-turn-helix domain; Region: HTH_17; pfam12728 667015006180 Helix-turn-helix domain; Region: HTH_17; pfam12728 667015006181 Protein of unknown function (DUF4099); Region: DUF4099; pfam13351 667015006182 Protein of unknown function (DUF3945); Region: DUF3945; pfam13101 667015006183 DNA topoisomerase III; Provisional; Region: PRK07726 667015006184 TOPRIM_TopoIA_TopoIII: The topoisomerase-primase (TORPIM) domain found in members of the type IA family of DNA topoisomerases (Topo IA) similar to topoisomerase III. Type IA DNA topoisomerases remove (relax) negative supercoils in the DNA by: cleaving...; Region: TOPRIM_TopoIA_TopoIII; cd03362 667015006185 active site 667015006186 putative interdomain interaction site [polypeptide binding]; other site 667015006187 putative metal-binding site [ion binding]; other site 667015006188 putative nucleotide binding site [chemical binding]; other site 667015006189 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 667015006190 domain I; other site 667015006191 DNA binding groove [nucleotide binding] 667015006192 phosphate binding site [ion binding]; other site 667015006193 domain II; other site 667015006194 domain III; other site 667015006195 nucleotide binding site [chemical binding]; other site 667015006196 catalytic site [active] 667015006197 domain IV; other site 667015006198 C-terminal repeat of topoisomerase; Region: Toprim_Crpt; pfam13342 667015006199 Domain of unknown function (DUF1896); Region: DUF1896; pfam08989 667015006200 Methyltransferase domain; Region: Methyltransf_26; pfam13659 667015006201 DNA methylase [Transcription / DNA replication, recombination, and repair]; Region: COG4646 667015006202 DNA methylase [Transcription / DNA replication, recombination, and repair]; Region: COG4646 667015006203 helicase superfamily c-terminal domain; Region: HELICc; smart00490 667015006204 ATP-binding site [chemical binding]; other site 667015006205 Translation elongation factors (GTPases) [Translation, ribosomal structure and biogenesis]; Region: FusA; COG0480 667015006206 Tet(M)-like family includes Tet(M), Tet(O), Tet(W), and OtrA, containing tetracycline resistant proteins; Region: TetM_like; cd04168 667015006207 G1 box; other site 667015006208 putative GEF interaction site [polypeptide binding]; other site 667015006209 GTP/Mg2+ binding site [chemical binding]; other site 667015006210 Switch I region; other site 667015006211 G2 box; other site 667015006212 G3 box; other site 667015006213 Switch II region; other site 667015006214 G4 box; other site 667015006215 G5 box; other site 667015006216 Tet_II: This subfamily represents domain II of ribosomal protection proteins Tet(M) and Tet(O). This domain has homology to domain II of the elongation factors EF-G and EF-2. Tet(M) and Tet(O) catalyze the release of tetracycline (Tc) from the ribosome...; Region: Tet_II; cd03690 667015006217 EF-G_domain IV_RPP domain is a part of bacterial ribosomal protected proteins (RPP) family. RPPs such as tetracycline resistance proteins Tet(M) and Tet(O) mediate tetracycline resistance in both gram-positive and -negative species. Tetracyclines inhibit...; Region: Tet_like_IV; cd01684 667015006218 Tet_C: C-terminus of ribosomal protection proteins Tet(M) and Tet(O). This domain has homology to the C terminal domains of the elongation factors EF-G and EF-2. Tet(M) and Tet(O) catalyze the release of tetracycline (Tc) from the ribosome in a...; Region: Tet_C; cd03711 667015006219 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 667015006220 dimer interface [polypeptide binding]; other site 667015006221 phosphorylation site [posttranslational modification] 667015006222 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 667015006223 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 667015006224 ATP binding site [chemical binding]; other site 667015006225 Mg2+ binding site [ion binding]; other site 667015006226 G-X-G motif; other site 667015006227 Response regulator receiver domain; Region: Response_reg; pfam00072 667015006228 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 667015006229 active site 667015006230 phosphorylation site [posttranslational modification] 667015006231 intermolecular recognition site; other site 667015006232 dimerization interface [polypeptide binding]; other site 667015006233 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 667015006234 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 667015006235 active site 667015006236 phosphorylation site [posttranslational modification] 667015006237 intermolecular recognition site; other site 667015006238 dimerization interface [polypeptide binding]; other site 667015006239 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 667015006240 Walker A motif; other site 667015006241 ATP binding site [chemical binding]; other site 667015006242 Walker B motif; other site 667015006243 arginine finger; other site 667015006244 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 667015006245 RibD C-terminal domain; Region: RibD_C; cl17279 667015006246 RteC protein; Region: RteC; pfam09357 667015006247 Protein of unknown function (DUF4065); Region: DUF4065; pfam13274 667015006248 YWFCY protein; Region: YWFCY; pfam14293 667015006249 AAA-like domain; Region: AAA_10; pfam12846 667015006250 TraM recognition site of TraD and TraG; Region: TraG-D_C; pfam12696 667015006251 Relaxase/Mobilisation nuclease domain; Region: Relaxase; pfam03432 667015006252 CobQ/CobB/MinD/ParA nucleotide binding domain; Region: CbiA; pfam01656 667015006253 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 667015006254 P-loop; other site 667015006255 Magnesium ion binding site [ion binding]; other site 667015006256 Protein of unknown function (DUF3408); Region: DUF3408; pfam11888 667015006257 Protein of unknown function (DUF3408); Region: DUF3408; pfam11888 667015006258 Domain of unknown function (DUF4134); Region: DUF4134; pfam13572 667015006259 Domain of unknown function (DUF4133); Region: DUF4133; pfam13571 667015006260 Bacteroides conjugation system ATPase, TraG family; Region: Bac_Flav_CT_G; TIGR03783 667015006261 Domain of unknown function, B. Theta Gene description (DUF3875); Region: DUF3875; pfam12991 667015006262 C2 domain; Region: C2; cl14603 667015006263 Domain of unknown function, B. Theta Gene description (DUF3876); Region: DUF3876; pfam12992 667015006264 Domain of unknown function (DUF4141); Region: DUF4141; pfam13605 667015006265 Bacteroides conjugative transposon TraJ protein; Region: Bac_Flav_CT_J; TIGR03782 667015006266 Bacteroides conjugative transposon TraK protein; Region: Bac_Flav_CT_K; TIGR03781 667015006267 Protein of unknown function (DUF3989); Region: DUF3989; pfam13150 667015006268 Bacteroides conjugative transposon TraM protein; Region: Bac_Flav_CT_M; TIGR03779 667015006269 Protein of unknown function (DUF3714); Region: DUF3714; pfam12508 667015006270 Bacteroides conjugative transposon TraN protein; Region: Bac_Flav_CT_N; TIGR03780 667015006271 Domain of unknown function (DUF4138); Region: DUF4138; pfam13595 667015006272 Conjugative transposon protein TraO; Region: TraO; pfam10626 667015006273 CHC2 zinc finger; Region: zf-CHC2; cl17510 667015006274 Toprim-like; Region: Toprim_2; pfam13155 667015006275 active site 667015006276 metal binding site [ion binding]; metal-binding site 667015006277 Domain of unknown function, B. Theta Gene description (DUF3872); Region: DUF3872; pfam12988 667015006278 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 667015006279 catalytic residue [active] 667015006280 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 667015006281 Ribosomal RNA adenine dimethylase; Region: RrnaAD; pfam00398 667015006282 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 667015006283 S-adenosylmethionine binding site [chemical binding]; other site 667015006284 RT_G2_intron: Reverse transcriptases (RTs) with group II intron origin. RT transcribes DNA using RNA as template. Proteins in this subfamily are found in bacterial and mitochondrial group II introns. Their most probable ancestor was a retrotransposable...; Region: RT_G2_intron; cd01651 667015006285 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 667015006286 putative active site [active] 667015006287 putative NTP binding site [chemical binding]; other site 667015006288 putative nucleic acid binding site [nucleotide binding]; other site 667015006289 Group II intron, maturase-specific domain; Region: GIIM; pfam08388 667015006290 Domain of unknown function, B. Theta Gene description (DUF3873); Region: DUF3873; pfam12989 667015006291 PcfJ-like protein; Region: PcfJ; pfam14284 667015006292 PcfK-like protein; Region: PcfK; pfam14058 667015006293 Predicted AAA-ATPase; Region: AAA-ATPase_like; pfam09820 667015006294 Protein of unknown function (DUF1703); Region: DUF1703; pfam08011 667015006295 diaminopimelate dehydrogenase; Region: DAP-DH; TIGR01921 667015006296 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 667015006297 Holliday junction DNA helicase RuvA; Reviewed; Region: ruvA; PRK00116 667015006298 RuvA N terminal domain; Region: RuvA_N; pfam01330 667015006299 RuvA, C-terminal domain; Region: RuvA_C; pfam07499 667015006300 Sec-independent protein secretion pathway components [Intracellular trafficking and secretion]; Region: TatA; COG1826 667015006301 Sec-independent protein secretion pathway component TatC [Intracellular trafficking and secretion]; Region: TatC; COG0805 667015006302 signal peptide peptidase SppA, 67K type; Region: SppA_67K; TIGR00705 667015006303 Signal peptide peptidase A (SppA) 67K type, a serine protease, has catalytic Ser-Lys dyad; Region: S49_SppA_67K_type; cd07018 667015006304 tandem repeat interface [polypeptide binding]; other site 667015006305 oligomer interface [polypeptide binding]; other site 667015006306 active site residues [active] 667015006307 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 667015006308 tandem repeat interface [polypeptide binding]; other site 667015006309 oligomer interface [polypeptide binding]; other site 667015006310 active site residues [active] 667015006311 Tetraacyldisaccharide-1-P 4'-kinase [Cell envelope biogenesis, outer membrane]; Region: LpxK; COG1663 667015006312 Tetraacyldisaccharide-1-P 4'-kinase; Region: LpxK; pfam02606 667015006313 purine nucleoside phosphorylase; Provisional; Region: PRK08202 667015006314 thiamine-monophosphate kinase; Region: thiL; TIGR01379 667015006315 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 667015006316 ATP binding site [chemical binding]; other site 667015006317 dimerization interface [polypeptide binding]; other site 667015006318 Protein of unknown function (DUF3843); Region: DUF3843; pfam12954 667015006319 Protein of unknown function (DUF3843); Region: DUF3843; pfam12954 667015006320 Nucleotidyltransferase (NT) domain of Staphylococcus aureus kanamycin nucleotidyltransferase, and similar proteins; Region: NT_KNTase_like; cd05403 667015006321 active site 667015006322 NTP binding site [chemical binding]; other site 667015006323 metal binding triad [ion binding]; metal-binding site 667015006324 antibiotic binding site [chemical binding]; other site 667015006325 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 667015006326 Phosphotransferase enzyme family; Region: APH; pfam01636 667015006327 active site 667015006328 substrate binding site [chemical binding]; other site 667015006329 ATP binding site [chemical binding]; other site 667015006330 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 667015006331 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 667015006332 Phosphomannose isomerase [Carbohydrate transport and metabolism]; Region: ManA; COG1482 667015006333 Alpha-Mannosidase Binding Domain of Atg19/34; Region: ABD; cl15429 667015006334 ligand binding site [chemical binding]; other site 667015006335 Acetyl xylan esterase (AXE1); Region: AXE1; pfam05448 667015006336 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 667015006337 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 667015006338 Cna protein B-type domain; Region: Cna_B_2; pfam13715 667015006339 TonB-dependent outer membrane receptor, SusC/RagA subfamily, signature region; Region: SusC_RagA_signa; TIGR04057 667015006340 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 667015006341 Starch-binding associating with outer membrane; Region: SusD-like_3; pfam14322 667015006342 starch binding outer membrane protein SusD; Region: SusD; cd08977 667015006343 Pectate lyase; Region: Pec_lyase_C; cl01593 667015006344 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 667015006345 putative substrate translocation pore; other site 667015006346 5-keto-4-deoxyuronate isomerase; Provisional; Region: PRK00924 667015006347 Phosphotransferase system, galactitol-specific IIC component [Carbohydrate transport and metabolism]; Region: GatC; COG3775 667015006348 PTS system sugar-specific permease component; Region: EIIC-GAT; cl04451 667015006349 Glycosyl Hydrolase Family 88; Region: Glyco_hydro_88; pfam07470 667015006350 putative pectinesterase; Region: PLN02432; cl01911 667015006351 Pectinesterase; Region: Pectinesterase; pfam01095 667015006352 Predicted thioesterase [General function prediction only]; Region: COG5496 667015006353 Glycosyl hydrolases family 2, sugar binding domain; Region: Glyco_hydro_2_N; pfam02837 667015006354 Glycosyl hydrolases family 2; Region: Glyco_hydro_2; pfam00703 667015006355 Glycosyl hydrolases family 2, TIM barrel domain; Region: Glyco_hydro_2_C; pfam02836 667015006356 Two component regulator propeller; Region: Reg_prop; pfam07494 667015006357 Y_Y_Y domain; Region: Y_Y_Y; pfam07495 667015006358 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 667015006359 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 667015006360 dimer interface [polypeptide binding]; other site 667015006361 phosphorylation site [posttranslational modification] 667015006362 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 667015006363 ATP binding site [chemical binding]; other site 667015006364 Mg2+ binding site [ion binding]; other site 667015006365 G-X-G motif; other site 667015006366 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 667015006367 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 667015006368 active site 667015006369 phosphorylation site [posttranslational modification] 667015006370 intermolecular recognition site; other site 667015006371 dimerization interface [polypeptide binding]; other site 667015006372 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 667015006373 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 667015006374 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 667015006375 Mechanosensitive ion channel; Region: MS_channel; pfam00924 667015006376 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 667015006377 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 667015006378 catalytic residues [active] 667015006379 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 667015006380 Ligand binding site [chemical binding]; other site 667015006381 Electron transfer flavoprotein domain; Region: ETF; pfam01012 667015006382 Electron transfer flavoprotein, alpha subunit [Energy production and conversion]; Region: FixB; COG2025 667015006383 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 667015006384 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 667015006385 Gram-negative bacterial tonB protein; Region: TonB; pfam03544 667015006386 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 667015006387 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 667015006388 active site 667015006389 Acyl-CoA dehydrogenase C terminal; Region: AcylCoA_dehyd_C; pfam12186 667015006390 Uncharacterized protein family (UPF0104); Region: UPF0104; pfam03706 667015006391 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 667015006392 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 667015006393 Endopygalactorunase [Cell envelope biogenesis, outer membrane]; Region: PGU1; COG5434 667015006394 Probable polygalacturonase At3g15720; Region: PLN03003; cl14103 667015006395 Probable polygalacturonase At3g15720; Region: PLN03003; cl14103 667015006396 large-conductance mechanosensitive channel; Provisional; Region: mscL; PRK13952 667015006397 large-conductance mechanosensitive channel; Reviewed; Region: mscL; PRK00567 667015006398 Cna protein B-type domain; Region: Cna_B_2; pfam13715 667015006399 Gram-negative bacterial tonB protein; Region: TonB; pfam03544 667015006400 Pectate lyase; Region: Pec_lyase_C; cl01593 667015006401 Pectate lyase; Region: Pec_lyase_C; cl01593 667015006402 Pectic acid lyase; Region: Pec_lyase; pfam09492 667015006403 Abhydrolase family; Region: Abhydrolase_7; pfam12715 667015006404 Rhamnogalacturan_acetylesterase_like subgroup of SGNH-hydrolases. Rhamnogalacturan acetylesterase removes acetyl esters from rhamnogalacturonan substrates, and renders them susceptible to degradation by rhamnogalacturonases. Rhamnogalacturonans are...; Region: Rhamnogalacturan_acetylesterase_like; cd01821 667015006405 active site 667015006406 catalytic triad [active] 667015006407 Pectinesterase; Region: Pectinesterase; pfam01095 667015006408 putative pectinesterase; Region: PLN02432; cl01911 667015006409 Predicted AAA-ATPase; Region: AAA-ATPase_like; pfam09820 667015006410 Protein of unknown function (DUF1703); Region: DUF1703; pfam08011 667015006411 Predicted AAA-ATPase; Region: AAA-ATPase_like; pfam09820 667015006412 Protein of unknown function (DUF1703); Region: DUF1703; pfam08011 667015006413 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_C39B; cd02418 667015006414 putative active site [active] 667015006415 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 667015006416 TonB dependent receptor; Region: TonB_dep_Rec; pfam00593 667015006417 Protein of unknown function (DUF4038); Region: DUF4038; pfam13204 667015006418 Putative collagen-binding domain of a collagenase; Region: Collagen_bind_2; pfam12904 667015006419 L-rhamnulose kinases; a subfamily of the FGGY family of carbohydrate kinases; Region: FGGY_RhuK; cd07771 667015006420 N- and C-terminal domain interface [polypeptide binding]; other site 667015006421 rhamnulokinase; Region: rhamnulo_kin; TIGR02627 667015006422 active site 667015006423 putative catalytic site [active] 667015006424 metal binding site [ion binding]; metal-binding site 667015006425 ATP binding site [chemical binding]; other site 667015006426 carbohydrate binding site [chemical binding]; other site 667015006427 L-rhamnose isomerase; Provisional; Region: PRK01076 667015006428 Predicted sugar isomerase [Cell envelope biogenesis, outer membrane]; Region: COG4952; cl17900 667015006429 L-rhamnose-proton symport protein (RhaT); Region: RhaT; cl05728 667015006430 rhamnulose-1-phosphate aldolase; Provisional; Region: PRK03634 667015006431 intersubunit interface [polypeptide binding]; other site 667015006432 active site 667015006433 Zn2+ binding site [ion binding]; other site 667015006434 L-1,2-propanediol oxidoreductase; Provisional; Region: PRK10624 667015006435 Lactadehyde:propanediol oxidoreductase (LPO) catalyzes the interconversion between L-lactaldehyde and L-1,2-propanediol in Escherichia coli and other enterobacteria; Region: LPO; cd08176 667015006436 dimer interface [polypeptide binding]; other site 667015006437 active site 667015006438 metal binding site [ion binding]; metal-binding site 667015006439 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 667015006440 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 667015006441 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 667015006442 tRNA(Ile)-lysidine synthase MesJ [Cell cycle control, cell division, chromosome partitioning]; Region: MesJ; COG0037 667015006443 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 667015006444 Ligand Binding Site [chemical binding]; other site 667015006445 TilS substrate C-terminal domain; Region: TilS_C; smart00977 667015006446 UDP-galactopyranose mutase [Cell envelope biogenesis, outer membrane]; Region: Glf; COG0562 667015006447 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 667015006448 UDP-galactopyranose mutase; Region: GLF; pfam03275 667015006449 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 667015006450 Response regulator receiver domain; Region: Response_reg; pfam00072 667015006451 active site 667015006452 phosphorylation site [posttranslational modification] 667015006453 intermolecular recognition site; other site 667015006454 dimerization interface [polypeptide binding]; other site 667015006455 LytTr DNA-binding domain; Region: LytTR; smart00850 667015006456 Histidine kinase; Region: His_kinase; pfam06580 667015006457 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 667015006458 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 667015006459 FtsX-like permease family; Region: FtsX; pfam02687 667015006460 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 667015006461 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 667015006462 Walker A/P-loop; other site 667015006463 ATP binding site [chemical binding]; other site 667015006464 Q-loop/lid; other site 667015006465 ABC transporter signature motif; other site 667015006466 Walker B; other site 667015006467 D-loop; other site 667015006468 H-loop/switch region; other site 667015006469 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 667015006470 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 667015006471 HlyD family secretion protein; Region: HlyD_3; pfam13437 667015006472 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 667015006473 cytochrome d terminal oxidase subunit 1; Provisional; Region: PRK15097 667015006474 Bacterial Cytochrome Ubiquinol Oxidase; Region: Bac_Ubq_Cox; pfam01654 667015006475 Bacterial Cytochrome Ubiquinol Oxidase; Region: Bac_Ubq_Cox; cl00562 667015006476 Cytochrome oxidase subunit II; Region: Cyto_ox_2; pfam02322 667015006477 cytochrome d ubiquinol oxidase subunit 2; Provisional; Region: PRK15003; cl12219 667015006478 cardiolipin synthetase; Reviewed; Region: cls; PRK01642 667015006479 Phospholipase_D-nuclease N-terminal; Region: PLDc_N; pfam13396 667015006480 Catalytic domain, repeat 1, of bacterial cardiolipin synthase and similar proteins; Region: PLDc_CLS_1; cd09110 667015006481 putative active site [active] 667015006482 catalytic site [active] 667015006483 catalytic domain repeat 2 of bacterial cardiolipin synthase and similar proteins; Region: PLDc_CLS_2; cd09112 667015006484 putative active site [active] 667015006485 catalytic site [active] 667015006486 N6-adenine-specific methylase [DNA replication, recombination, and repair]; Region: COG0742 667015006487 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 667015006488 S-adenosylmethionine binding site [chemical binding]; other site 667015006489 Protein of unknown function (DUF3822); Region: DUF3822; pfam12864 667015006490 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 667015006491 Walker A motif; other site 667015006492 ATP binding site [chemical binding]; other site 667015006493 Walker B motif; other site 667015006494 Family description; Region: UvrD_C_2; pfam13538 667015006495 Interphotoreceptor retinoid-binding protein; serine protease family S41; Region: Peptidase_S41_IRBP; cd07563 667015006496 active site triad [active] 667015006497 Protein of unknown function (DUF3316); Region: DUF3316; pfam11777 667015006498 DNA topoisomerase IV subunit A; Provisional; Region: PRK12758 667015006499 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; cl00148 667015006500 CAP-like domain; other site 667015006501 active site 667015006502 primary dimer interface [polypeptide binding]; other site 667015006503 Outer membrane efflux protein; Region: OEP; pfam02321 667015006504 Outer membrane efflux protein; Region: OEP; pfam02321 667015006505 Outer membrane efflux protein; Region: OEP; pfam02321 667015006506 Multidrug resistance efflux pump [Defense mechanisms]; Region: EmrA; COG1566 667015006507 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 667015006508 HlyD family secretion protein; Region: HlyD_3; pfam13437 667015006509 ABC-2 family transporter protein; Region: ABC2_membrane_3; pfam12698 667015006510 ABC-2 family transporter protein; Region: ABC2_membrane_3; pfam12698 667015006511 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 667015006512 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 667015006513 ORF6N domain; Region: ORF6N; pfam10543 667015006514 AAA domain; Region: AAA_21; pfam13304 667015006515 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cd00267 667015006516 ABC transporter signature motif; other site 667015006517 Walker B; other site 667015006518 D-loop; other site 667015006519 H-loop/switch region; other site 667015006520 AAA domain; Region: AAA_11; pfam13086 667015006521 Part of AAA domain; Region: AAA_19; pfam13245 667015006522 AAA domain; Region: AAA_30; pfam13604 667015006523 AAA domain; Region: AAA_12; pfam13087 667015006524 Transposase IS200 like; Region: Y1_Tnp; pfam01797 667015006525 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 667015006526 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 667015006527 metal-binding site [ion binding] 667015006528 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 667015006529 Soluble P-type ATPase [General function prediction only]; Region: COG4087 667015006530 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 667015006531 metal-binding site [ion binding] 667015006532 DNA-binding protein, histone-like, putative; Region: HU_rel; TIGR01201 667015006533 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 667015006534 non-specific DNA binding site [nucleotide binding]; other site 667015006535 salt bridge; other site 667015006536 sequence-specific DNA binding site [nucleotide binding]; other site 667015006537 Phage derived protein Gp49-like (DUF891); Region: Gp49; pfam05973 667015006538 Bacteroidetes-Associated Carbohydrate-binding Often N-terminal; Region: BACON; pfam13004 667015006539 N-terminal domain found in Bacteroides fragilis Nctc 9343 BF2867 and related proteins; Region: BF2867_like_N; cd13120 667015006540 Leucine rich repeat; Region: LRR_8; pfam13855 667015006541 IgA Peptidase M64; Region: Peptidase_M64; pfam09471 667015006542 Prophage antirepressor [Transcription]; Region: COG3617 667015006543 BRO family, N-terminal domain; Region: Bro-N; smart01040 667015006544 Phage antirepressor protein KilAC domain; Region: ANT; pfam03374 667015006545 VirE N-terminal domain; Region: VirE_N; pfam08800 667015006546 NodN (nodulation factor N) contains a single hot dog fold similar to those of the peroxisomal Hydratase-Dehydrogenase-Epimerase (HDE) protein, and the fatty acid synthase beta subunit. Rhizobium and related species form nodules on the roots of their...; Region: NodN; cd03450 667015006547 putative active site [active] 667015006548 putative catalytic site [active] 667015006549 Predicted periplasmic ligand-binding sensor domain [Signal transduction mechanisms]; Region: COG3292 667015006550 Y_Y_Y domain; Region: Y_Y_Y; pfam07495 667015006551 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 667015006552 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 667015006553 dimer interface [polypeptide binding]; other site 667015006554 phosphorylation site [posttranslational modification] 667015006555 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 667015006556 ATP binding site [chemical binding]; other site 667015006557 Mg2+ binding site [ion binding]; other site 667015006558 G-X-G motif; other site 667015006559 Response regulator receiver domain; Region: Response_reg; pfam00072 667015006560 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 667015006561 active site 667015006562 phosphorylation site [posttranslational modification] 667015006563 intermolecular recognition site; other site 667015006564 dimerization interface [polypeptide binding]; other site 667015006565 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 667015006566 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 667015006567 Endopygalactorunase [Cell envelope biogenesis, outer membrane]; Region: PGU1; COG5434 667015006568 Probable polygalacturonase At3g15720; Region: PLN03003; cl14103 667015006569 putative pectinesterase; Region: PLN02432; cl01911 667015006570 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 667015006571 Cna protein B-type domain; Region: Cna_B_2; pfam13715 667015006572 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 667015006573 Starch-binding associating with outer membrane; Region: SusD-like_3; pfam14322 667015006574 starch binding outer membrane protein SusD; Region: SusD; cl17845 667015006575 SusD family; Region: SusD; pfam07980 667015006576 Right handed beta helix region; Region: Beta_helix; pfam13229 667015006577 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 667015006578 active site 667015006579 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 667015006580 Prokaryotic diacylglycerol kinase; Region: DAGK_prokar; pfam01219 667015006581 Human Ape1-like subfamily of the ExoIII family purinic/apyrimidinic (AP) endonucleases; Region: Ape1-like_AP-endo; cd09087 667015006582 active site 667015006583 putative catalytic site [active] 667015006584 DNA binding site [nucleotide binding] 667015006585 putative phosphate binding site [ion binding]; other site 667015006586 metal binding site A [ion binding]; metal-binding site 667015006587 AP binding site [nucleotide binding]; other site 667015006588 metal binding site B [ion binding]; metal-binding site 667015006589 Outer membrane protein beta-barrel domain; Region: OMP_b-brl_2; pfam13568 667015006590 FOG: LysM repeat [Cell envelope biogenesis, outer membrane]; Region: LytE; COG1388 667015006591 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 667015006592 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 667015006593 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 667015006594 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cd01391 667015006595 L,L-diaminopimelate aminotransferase; Validated; Region: PRK07590 667015006596 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 667015006597 pyridoxal 5'-phosphate binding site [chemical binding]; other site 667015006598 homodimer interface [polypeptide binding]; other site 667015006599 catalytic residue [active] 667015006600 diaminopimelate epimerase; Provisional; Region: dapF; PRK00450 667015006601 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 667015006602 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 667015006603 asparagine synthetase B; Provisional; Region: asnB; PRK09431 667015006604 Glutamine amidotransferases class-II (GATase) asparagine synthase_B type. Asparagine synthetase B catalyses the ATP-dependent conversion of aspartate to asparagine. This enzyme is a homodimer, with each monomer composed of a glutaminase domain and a...; Region: AsnB; cd00712 667015006605 active site 667015006606 dimer interface [polypeptide binding]; other site 667015006607 The C-terminal domain of Asparagine Synthase B. This domain is always found associated n-terminal amidotransferase domain. Family members that contain this domain catalyse the conversion of aspartate to asparagine. Asparagine synthetase B catalyzes the...; Region: Asn_Synthase_B_C; cd01991 667015006608 Ligand Binding Site [chemical binding]; other site 667015006609 Molecular Tunnel; other site 667015006610 glutamate synthase subunit beta; Reviewed; Region: gltD; PRK12810 667015006611 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 667015006612 glutamate synthase subunit alpha; Provisional; Region: gltB; PRK11750 667015006613 Glutamine amidotransferases class-II (Gn-AT), glutamate synthase (GltS)-type. GltS is a homodimer that synthesizes L-glutamate from 2-oxoglutarate and L-glutamine, an important step in ammonia assimilation in bacteria, cyanobacteria and plants. The...; Region: GltS; cd00713 667015006614 active site 667015006615 dimer interface [polypeptide binding]; other site 667015006616 Glutamate synthase central domain; Region: Glu_syn_central; pfam04898 667015006617 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 667015006618 active site 667015006619 FMN binding site [chemical binding]; other site 667015006620 substrate binding site [chemical binding]; other site 667015006621 3Fe-4S cluster binding site [ion binding]; other site 667015006622 gltb_C. This domain is found at the C-terminus of the large subunit (gltB) of glutamate synthase (GltS). GltS encodes a complex iron-sulfur flavoprotein that catalyzes the synthesis of L-glutamate from L-glutamine and 2-oxoglutarate. It requires the...; Region: gltB_C; cd00982 667015006623 domain interface; other site 667015006624 Domain of unknown function (DUF1893); Region: TM1506; pfam08973 667015006625 Predicted oxidoreductases of the aldo/keto reductase family [General function prediction only]; Region: COG1453 667015006626 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 667015006627 active site 667015006628 catalytic tetrad [active] 667015006629 4Fe-4S binding domain; Region: Fer4_5; pfam12801 667015006630 4Fe-4S dicluster domain; Region: Fer4_9; pfam13187 667015006631 4Fe-4S dicluster domain; Region: Fer4_9; pfam13187 667015006632 photosystem I subunit VII; Provisional; Region: PLN00071 667015006633 Glycosyl Hydrolase Family 88; Region: Glyco_hydro_88; pfam07470 667015006634 Outer membrane protein beta-barrel domain; Region: OMP_b-brl_2; pfam13568 667015006635 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 667015006636 binding surface 667015006637 TPR motif; other site 667015006638 basic region leucin zipper; Region: BRLZ; smart00338 667015006639 Fe2+ transport system protein A [Inorganic ion transport and metabolism]; Region: FeoA; COG1918 667015006640 Fe2+ transport system protein B [Inorganic ion transport and metabolism]; Region: FeoB; COG0370 667015006641 Ferrous iron transport protein B (FeoB) family; Region: FeoB; cd01879 667015006642 G1 box; other site 667015006643 GTP/Mg2+ binding site [chemical binding]; other site 667015006644 Switch I region; other site 667015006645 G2 box; other site 667015006646 G3 box; other site 667015006647 Switch II region; other site 667015006648 G4 box; other site 667015006649 G5 box; other site 667015006650 Nucleoside recognition; Region: Gate; pfam07670 667015006651 Ferrous iron transport protein B C terminus; Region: FeoB_C; pfam07664 667015006652 Nucleoside recognition; Region: Gate; pfam07670 667015006653 Uncharacterized ACR, COG1399; Region: DUF177; pfam02620 667015006654 50S ribosomal protein L32; Reviewed; Region: rpmF; PRK12286 667015006655 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK09352 667015006656 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 667015006657 dimer interface [polypeptide binding]; other site 667015006658 active site 667015006659 CoA binding pocket [chemical binding]; other site 667015006660 GTPase Era; Reviewed; Region: era; PRK00089 667015006661 E. coli Ras-like protein (Era) is a multifunctional GTPase; Region: Era; cd04163 667015006662 G1 box; other site 667015006663 GTP/Mg2+ binding site [chemical binding]; other site 667015006664 Switch I region; other site 667015006665 G2 box; other site 667015006666 Switch II region; other site 667015006667 G3 box; other site 667015006668 G4 box; other site 667015006669 G5 box; other site 667015006670 KH domain; Region: KH_2; pfam07650 667015006671 GTP-binding protein Der; Reviewed; Region: PRK00093 667015006672 EngA1 GTPase contains the first domain of EngA; Region: EngA1; cd01894 667015006673 G1 box; other site 667015006674 GTP/Mg2+ binding site [chemical binding]; other site 667015006675 Switch I region; other site 667015006676 G2 box; other site 667015006677 Switch II region; other site 667015006678 G3 box; other site 667015006679 G4 box; other site 667015006680 G5 box; other site 667015006681 EngA2 GTPase contains the second domain of EngA; Region: EngA2; cd01895 667015006682 G1 box; other site 667015006683 GTP/Mg2+ binding site [chemical binding]; other site 667015006684 Switch I region; other site 667015006685 G2 box; other site 667015006686 G3 box; other site 667015006687 Switch II region; other site 667015006688 G4 box; other site 667015006689 G5 box; other site 667015006690 anaerobic ribonucleoside-triphosphate reductase activating protein; Region: NrdG; TIGR02491 667015006691 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 667015006692 FeS/SAM binding site; other site 667015006693 anaerobic ribonucleoside triphosphate reductase; Provisional; Region: PRK07111 667015006694 ATP cone domain; Region: ATP-cone; pfam03477 667015006695 Class III ribonucleotide reductase; Region: RNR_III; cd01675 667015006696 effector binding site; other site 667015006697 active site 667015006698 Zn binding site [ion binding]; other site 667015006699 glycine loop; other site 667015006700 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 667015006701 tRNA adenylyltransferase; Region: tRNA_CCA_actino; TIGR02692 667015006702 active site 667015006703 NTP binding site [chemical binding]; other site 667015006704 metal binding triad [ion binding]; metal-binding site 667015006705 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 667015006706 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 667015006707 Zn2+ binding site [ion binding]; other site 667015006708 Mg2+ binding site [ion binding]; other site 667015006709 outer membrane assembly lipoprotein YfiO; Region: OM_YfiO; TIGR03302 667015006710 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 667015006711 FtsX-like permease family; Region: FtsX; pfam02687 667015006712 FtsX-like permease family; Region: FtsX; pfam02687 667015006713 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 667015006714 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 667015006715 FtsX-like permease family; Region: FtsX; pfam02687 667015006716 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 667015006717 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 667015006718 FtsX-like permease family; Region: FtsX; pfam02687 667015006719 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 667015006720 FtsX-like permease family; Region: FtsX; pfam02687 667015006721 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 667015006722 FtsX-like permease family; Region: FtsX; pfam02687 667015006723 Protein of unknown function (DUF2807); Region: DUF2807; pfam10988 667015006724 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 667015006725 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 667015006726 HlyD family secretion protein; Region: HlyD_3; pfam13437 667015006727 type I secretion outer membrane protein, TolC family; Region: type_I_sec_TolC; TIGR01844 667015006728 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 667015006729 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 667015006730 active site 667015006731 phosphorylation site [posttranslational modification] 667015006732 intermolecular recognition site; other site 667015006733 dimerization interface [polypeptide binding]; other site 667015006734 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 667015006735 Walker A motif; other site 667015006736 ATP binding site [chemical binding]; other site 667015006737 Walker B motif; other site 667015006738 arginine finger; other site 667015006739 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 667015006740 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 667015006741 ATP binding site [chemical binding]; other site 667015006742 Mg2+ binding site [ion binding]; other site 667015006743 G-X-G motif; other site 667015006744 Transcription antiterminator [Transcription]; Region: NusG; COG0250 667015006745 N-Utilization Substance G (NusG) N-terminal (NGN) domain Superfamily; Region: NGN; cl02766 667015006746 UDP-N-acetylmuramyl pentapeptide phosphotransferase/UDP-N- acetylglucosamine-1-phosphate transferase [Cell envelope biogenesis, outer membrane]; Region: Rfe; COG0472 667015006747 This subfamily contains Escherichia coli WecA, Bacillus subtilis TagO and related proteins. WecA is an UDP-N-acetylglucosamine (GlcNAc):undecaprenyl-phosphate (Und-P) GlcNAc-1-phosphate transferase that catalyzes the formation of a phosphodiester bond...; Region: GT_WecA_like; cd06853 667015006748 Mg++ binding site [ion binding]; other site 667015006749 putative catalytic motif [active] 667015006750 substrate binding site [chemical binding]; other site 667015006751 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 667015006752 SLBB domain; Region: SLBB; pfam10531 667015006753 Chain length determinant protein; Region: Wzz; cl15801 667015006754 Uncharacterized protein involved in exopolysaccharide biosynthesis [Cell envelope biogenesis, outer membrane]; Region: GumC; COG3206 667015006755 G-rich domain on putative tyrosine kinase; Region: GNVR; pfam13807 667015006756 capsular exopolysaccharide family; Region: eps_fam; TIGR01007 667015006757 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 667015006758 P-loop; other site 667015006759 Magnesium ion binding site [ion binding]; other site 667015006760 Capsular polysaccharide biosynthesis protein [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: CapC; COG4464 667015006761 DNA-binding protein, histone-like, putative; Region: HU_rel; TIGR01201 667015006762 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 667015006763 AAA domain; Region: AAA_21; pfam13304 667015006764 Walker A/P-loop; other site 667015006765 ATP binding site [chemical binding]; other site 667015006766 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 667015006767 Walker B; other site 667015006768 D-loop; other site 667015006769 H-loop/switch region; other site 667015006770 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 667015006771 AAA domain; Region: AAA_21; pfam13304 667015006772 Walker A/P-loop; other site 667015006773 ATP binding site [chemical binding]; other site 667015006774 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 667015006775 FAD binding domain; Region: FAD_binding_4; pfam01565 667015006776 Polysaccharide pyruvyl transferase; Region: PS_pyruv_trans; pfam04230 667015006777 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 667015006778 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 667015006779 Acetyltransferase (isoleucine patch superfamily) [General function prediction only]; Region: WbbJ; COG0110 667015006780 Maltose O-acyltransferase (MAT)-like: This family is composed of maltose O-acetyltransferase, galactoside O-acetyltransferase (GAT), xenobiotic acyltransferase (XAT) and similar proteins. MAT and GAT catalyze the CoA-dependent acetylation of the...; Region: LbH_MAT_like; cd04647 667015006781 trimer interface [polypeptide binding]; other site 667015006782 active site 667015006783 substrate binding site [chemical binding]; other site 667015006784 CoA binding site [chemical binding]; other site 667015006785 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 667015006786 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 667015006787 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 667015006788 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 667015006789 Maltose O-acyltransferase (MAT)-like: This family is composed of maltose O-acetyltransferase, galactoside O-acetyltransferase (GAT), xenobiotic acyltransferase (XAT) and similar proteins. MAT and GAT catalyze the CoA-dependent acetylation of the...; Region: LbH_MAT_like; cd04647 667015006790 trimer interface [polypeptide binding]; other site 667015006791 active site 667015006792 substrate binding site [chemical binding]; other site 667015006793 CoA binding site [chemical binding]; other site 667015006794 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 667015006795 This family is most closely related to the GT1 family of glycosyltransferases. Bme6 in Brucella melitensis has been shown to be involved in the biosynthesis of a polysaccharide; Region: GT1_Bme6_like; cd03821 667015006796 putative ADP-binding pocket [chemical binding]; other site 667015006797 Archaeal ATPase; Region: Arch_ATPase; pfam01637 667015006798 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 667015006799 Walker A motif; other site 667015006800 ATP binding site [chemical binding]; other site 667015006801 Walker B motif; other site 667015006802 Domain of unknown function (DUF4143); Region: DUF4143; pfam13635 667015006803 Nuclease-related domain; Region: NERD; pfam08378 667015006804 putative acyl transferase; Provisional; Region: PRK10502 667015006805 wcaF-like: This group is composed of the protein product of the E. coli wcaF gene and similar proteins. WcaF is part of the gene cluster responsible for the biosynthesis of the extracellular polysaccharide colanic acid. The wcaF protein is predicted to...; Region: LbH_wcaF_like; cd05825 667015006806 putative trimer interface [polypeptide binding]; other site 667015006807 putative active site [active] 667015006808 putative substrate binding site [chemical binding]; other site 667015006809 putative CoA binding site [chemical binding]; other site 667015006810 Acetyltransferase (isoleucine patch superfamily) [General function prediction only]; Region: WbbJ; COG0110 667015006811 wcaF-like: This group is composed of the protein product of the E. coli wcaF gene and similar proteins. WcaF is part of the gene cluster responsible for the biosynthesis of the extracellular polysaccharide colanic acid. The wcaF protein is predicted to...; Region: LbH_wcaF_like; cd05825 667015006812 putative trimer interface [polypeptide binding]; other site 667015006813 putative active site [active] 667015006814 putative substrate binding site [chemical binding]; other site 667015006815 putative CoA binding site [chemical binding]; other site 667015006816 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 667015006817 UDP-glucose LOS-beta-1,4 glucosyltransferase is required for biosynthesis of lipooligosaccharide; Region: Beta4Glucosyltransferase; cd02511 667015006818 putative metal binding site; other site 667015006819 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 667015006820 WfgS and WfeV are involved in O-antigen biosynthesis; Region: GT_2_WfgS_like; cd06433 667015006821 metal-binding site 667015006822 Bacterial putative lipoprotein (DUF940); Region: DUF940; pfam06082 667015006823 Bacterial putative lipoprotein (DUF940); Region: DUF940; pfam06082 667015006824 Carboxypeptidase regulatory-like domain; Region: CarboxypepD_reg; pfam13620 667015006825 hypothetical protein; Validated; Region: PRK02001 667015006826 heptamer interface [polypeptide binding]; other site 667015006827 Sm1 motif; other site 667015006828 hexamer interface [polypeptide binding]; other site 667015006829 RNA binding site [nucleotide binding]; other site 667015006830 Sm2 motif; other site 667015006831 transcription termination factor NusA; Region: NusA; TIGR01953 667015006832 NusA N-terminal domain; Region: NusA_N; pfam08529 667015006833 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 667015006834 RNA binding site [nucleotide binding]; other site 667015006835 homodimer interface [polypeptide binding]; other site 667015006836 NusA-like KH domain; Region: KH_5; pfam13184 667015006837 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 667015006838 G-X-X-G motif; other site 667015006839 translation initiation factor IF-2; Region: IF-2; TIGR00487 667015006840 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 667015006841 Initiation Factor 2 (IF2)/ eukaryotic Initiation Factor 5B (eIF5B) family; Region: IF2_eIF5B; cd01887 667015006842 G1 box; other site 667015006843 putative GEF interaction site [polypeptide binding]; other site 667015006844 GTP/Mg2+ binding site [chemical binding]; other site 667015006845 Switch I region; other site 667015006846 G2 box; other site 667015006847 G3 box; other site 667015006848 Switch II region; other site 667015006849 G4 box; other site 667015006850 G5 box; other site 667015006851 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 667015006852 Translation-initiation factor 2; Region: IF-2; pfam11987 667015006853 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 667015006854 Colicin V production protein; Region: Colicin_V; pfam02674 667015006855 cysteine desulfurase activator complex subunit SufB; Provisional; Region: PRK11814 667015006856 putative ABC transporter; Region: ycf24; CHL00085 667015006857 FeS assembly ATPase SufC; Region: sufC; TIGR01978 667015006858 ABC-type transport system involved in Fe-S cluster assembly, ATPase component; Region: ABC_FeS_Assembly; cd03217 667015006859 Walker A/P-loop; other site 667015006860 ATP binding site [chemical binding]; other site 667015006861 Q-loop/lid; other site 667015006862 ABC transporter signature motif; other site 667015006863 Walker B; other site 667015006864 D-loop; other site 667015006865 H-loop/switch region; other site 667015006866 Cysteine desulfurase activator SufB [Posttranslational modification, protein turnover, chaperones]; Region: SufB; COG0719 667015006867 FeS assembly protein SufD; Region: sufD; TIGR01981 667015006868 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 667015006869 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 667015006870 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 667015006871 catalytic residue [active] 667015006872 alpha-glucosidase; Provisional; Region: PRK10137 667015006873 Trehalase; Region: Trehalase; cl17346 667015006874 beta-D-galactosidase; Reviewed; Region: lacZ; PRK09525 667015006875 Glycosyl hydrolases family 2, sugar binding domain; Region: Glyco_hydro_2_N; pfam02837 667015006876 Glycosyl hydrolases family 2; Region: Glyco_hydro_2; pfam00703 667015006877 Glycosyl hydrolases family 2, TIM barrel domain; Region: Glyco_hydro_2_C; pfam02836 667015006878 Beta galactosidase small chain; Region: Bgal_small_N; smart01038 667015006879 Membrane protein of unknown function (DUF340); Region: DUF340; pfam03956 667015006880 Membrane protein of unknown function (DUF340); Region: DUF340; cl01028 667015006881 starch binding outer membrane protein SusD; Region: SusD; cd08977 667015006882 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 667015006883 Cna protein B-type domain; Region: Cna_B_2; pfam13715 667015006884 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 667015006885 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 667015006886 binding surface 667015006887 Tetratricopeptide repeat; Region: TPR_12; pfam13424 667015006888 TPR motif; other site 667015006889 Sortase and related acyltransferases [Cell envelope biogenesis, outer membrane]; Region: COG1247 667015006890 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 667015006891 Coenzyme A binding pocket [chemical binding]; other site 667015006892 inorganic polyphosphate/ATP-NAD kinase; Provisional; Region: ppnK; PRK01911 667015006893 ATP-NAD kinase; Region: NAD_kinase; pfam01513 667015006894 Biopolymer transport proteins [Intracellular trafficking and secretion]; Region: TolQ; COG0811 667015006895 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 667015006896 Biopolymer transport protein ExbD/TolR; Region: ExbD; pfam02472 667015006897 Gram-negative bacterial tonB protein; Region: TonB; cl10048 667015006898 DJ-1 family protein; Region: not_thiJ; TIGR01383 667015006899 Type 1 glutamine amidotransferase (GATase1)-like domain found in Human DJ-1; Region: GATase1_DJ-1; cd03135 667015006900 conserved cys residue [active] 667015006901 CDP-ME synthetase is involved in mevalonate-independent isoprenoid production; Region: CDP-ME_synthetase; cd02516 667015006902 substrate binding site; other site 667015006903 dimer interface; other site 667015006904 ATP-dependent DNA helicase RecG; Provisional; Region: PRK10917 667015006905 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 667015006906 generic binding surface II; other site 667015006907 ssDNA binding site; other site 667015006908 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 667015006909 ATP binding site [chemical binding]; other site 667015006910 putative Mg++ binding site [ion binding]; other site 667015006911 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 667015006912 nucleotide binding region [chemical binding]; other site 667015006913 ATP-binding site [chemical binding]; other site 667015006914 GTP-binding protein LepA; Provisional; Region: PRK05433 667015006915 LepA also known as Elongation Factor 4 (EF4); Region: LepA; cd01890 667015006916 G1 box; other site 667015006917 putative GEF interaction site [polypeptide binding]; other site 667015006918 GTP/Mg2+ binding site [chemical binding]; other site 667015006919 Switch I region; other site 667015006920 G2 box; other site 667015006921 G3 box; other site 667015006922 Switch II region; other site 667015006923 G4 box; other site 667015006924 G5 box; other site 667015006925 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 667015006926 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 667015006927 GTP-binding protein LepA C-terminus; Region: LepA_C; pfam06421 667015006928 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 667015006929 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Bacillus subtilis yoeA; Region: MATE_yoeA_like; cd13138 667015006930 MFS/sugar transport protein; Region: MFS_2; pfam13347 667015006931 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 667015006932 putative substrate translocation pore; other site 667015006933 Glycosyl hydrolase family 10; Region: Glyco_hydro_10; pfam00331 667015006934 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3533 667015006935 Putative glycosyl hydrolase of unknown function (DUF1680); Region: DUF1680; pfam07944 667015006936 Glycosyl hydrolase family 43, includes arabinoxylan arabinofuranohydrolase, beta-xylosidase, endo-1,4-beta-xylanase, alpha-L-arabinofuranosidase; Region: GH43_AXH_like; cd08990 667015006937 substrate binding site [chemical binding]; other site 667015006938 active site 667015006939 Alpha-glucosidases, family 31 of glycosyl hydrolases [Carbohydrate transport and metabolism]; Region: COG1501 667015006940 Galactose mutarotase-like; Region: Gal_mutarotas_2; pfam13802 667015006941 XylS is a glycosyl hydrolase family 31 (GH31) alpha-xylosidase found in prokaryotes, eukaryotes, and archaea, that catalyzes the release of alpha-xylose from the non-reducing terminal side of the alpha-xyloside substrate. XylS has been characterized in...; Region: GH31_xylosidase_XylS; cd06591 667015006942 putative active site [active] 667015006943 putative catalytic site [active] 667015006944 Glycosyl hydrolase family 43, includes arabinoxylan arabinofuranohydrolase, beta-xylosidase, endo-1,4-beta-xylanase, alpha-L-arabinofuranosidase; Region: GH43_AXH_like; cd08990 667015006945 substrate binding site [chemical binding]; other site 667015006946 active site 667015006947 Carbohydrate Binding Module 6 (CBM6); many are appended to glycoside hydrolase (GH) family 11 and GH43 xylanase domains; Region: CBM6_xylanase-like; cd04084 667015006948 metal binding site [ion binding]; metal-binding site 667015006949 ligand binding site [chemical binding]; other site 667015006950 Beta-xylosidase [Carbohydrate transport and metabolism]; Region: XynB; COG3507 667015006951 Glycosyl hydrolase family 43, beta-D-xylosidase; Region: GH43_XYL_2; cd09001 667015006952 active site 667015006953 Beta-xylosidase [Carbohydrate transport and metabolism]; Region: XynB; COG3507 667015006954 Glycosyl hydrolase family 43, beta-D-xylosidase; Region: GH43_XYL_1; cd09000 667015006955 inhibitor binding site; inhibition site 667015006956 active site 667015006957 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 667015006958 Cna protein B-type domain; Region: Cna_B_2; pfam13715 667015006959 TonB-dependent outer membrane receptor, SusC/RagA subfamily, signature region; Region: SusC_RagA_signa; TIGR04057 667015006960 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 667015006961 Starch-binding associating with outer membrane; Region: SusD-like_3; pfam14322 667015006962 starch binding outer membrane protein SusD; Region: SusD; cl17845 667015006963 starch binding outer membrane protein SusD; Region: SusD; cl17845 667015006964 starch binding outer membrane protein SusD; Region: SusD; cl17845 667015006965 Nucleotidyl transferase of unknown function (DUF1814); Region: DUF1814; pfam08843 667015006966 Predicted periplasmic ligand-binding sensor domain [Signal transduction mechanisms]; Region: COG3292 667015006967 Y_Y_Y domain; Region: Y_Y_Y; pfam07495 667015006968 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 667015006969 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 667015006970 dimer interface [polypeptide binding]; other site 667015006971 phosphorylation site [posttranslational modification] 667015006972 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 667015006973 ATP binding site [chemical binding]; other site 667015006974 Mg2+ binding site [ion binding]; other site 667015006975 G-X-G motif; other site 667015006976 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 667015006977 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 667015006978 active site 667015006979 phosphorylation site [posttranslational modification] 667015006980 intermolecular recognition site; other site 667015006981 dimerization interface [polypeptide binding]; other site 667015006982 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 667015006983 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 667015006984 UDP-glucose 4-epimerase [Cell envelope biogenesis, outer membrane]; Region: GalE; COG1087 667015006985 UDP-glucose 4 epimerase, subgroup 1, extended (e) SDRs; Region: UDP_G4E_1_SDR_e; cd05247 667015006986 NAD binding site [chemical binding]; other site 667015006987 homodimer interface [polypeptide binding]; other site 667015006988 active site 667015006989 substrate binding site [chemical binding]; other site 667015006990 electron transport complex, RnfABCDGE type, A subunit; Region: rnfA; TIGR01943 667015006991 electron transport complex RsxE subunit; Provisional; Region: PRK12405 667015006992 FMN-binding domain; Region: FMN_bind; cl01081 667015006993 NQR2, RnfD, RnfE family; Region: NQR2_RnfD_RnfE; pfam03116 667015006994 electron transport complex, RnfABCDGE type, C subunit; Region: rnfC; TIGR01945 667015006995 SLBB domain; Region: SLBB; pfam10531 667015006996 The HCP family of iron-sulfur proteins includes hybrid cluster protein (HCP), acetyl-CoA synthase (ACS), and carbon monoxide dehydrogenase (CODH), all of which contain [Fe4-S4] metal clusters at their active sites. These proteins have a conserved...; Region: HCP_like; cl14655 667015006997 ferredoxin; Validated; Region: PRK07118 667015006998 Putative Fe-S cluster; Region: FeS; cl17515 667015006999 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 667015007000 Positive regulator of sigma(E), RseC/MucC; Region: RseC_MucC; pfam04246 667015007001 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 667015007002 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 667015007003 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 667015007004 DNA binding residues [nucleotide binding] 667015007005 Protein of unknown function (DUF3256); Region: DUF3256; pfam11644 667015007006 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 667015007007 Peptidase family M23; Region: Peptidase_M23; pfam01551 667015007008 FOG: LysM repeat [Cell envelope biogenesis, outer membrane]; Region: LytE; COG1388 667015007009 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 667015007010 DNA primase, catalytic core; Region: dnaG; TIGR01391 667015007011 CHC2 zinc finger; Region: zf-CHC2; pfam01807 667015007012 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 667015007013 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 667015007014 active site 667015007015 metal binding site [ion binding]; metal-binding site 667015007016 interdomain interaction site; other site 667015007017 Carbohydrate-selective porin, OprB family; Region: OprB; pfam04966 667015007018 Malate/lactate dehydrogenases [Energy production and conversion]; Region: Mdh; COG0039 667015007019 NAD-dependent, lactate dehydrogenase-like, 2-hydroxycarboxylate dehydrogenase family; Region: LDH_MDH_like; cl17195 667015007020 NAD(P) binding site [chemical binding]; other site 667015007021 LDH/MDH dimer interface [polypeptide binding]; other site 667015007022 substrate binding site [chemical binding]; other site 667015007023 mannonate dehydratase; Provisional; Region: PRK03906 667015007024 mannonate dehydratase; Region: uxuA; TIGR00695 667015007025 biotin synthase; Region: bioB; TIGR00433 667015007026 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 667015007027 FeS/SAM binding site; other site 667015007028 Biotin and Thiamin Synthesis associated domain; Region: BATS; pfam06968 667015007029 adenosylmethionine--8-amino-7-oxononanoate transaminase; Provisional; Region: PRK06173 667015007030 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 667015007031 inhibitor-cofactor binding pocket; inhibition site 667015007032 pyridoxal 5'-phosphate binding site [chemical binding]; other site 667015007033 catalytic residue [active] 667015007034 8-amino-7-oxononanoate synthase; Reviewed; Region: PRK05958 667015007035 pyridoxal phosphate-dependent acyltransferase, putative; Region: gly_Cac_T_rel; TIGR01825 667015007036 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 667015007037 catalytic residue [active] 667015007038 Protein of unknown function (DUF452); Region: DUF452; cl01062 667015007039 biotin biosynthesis protein BioC; Region: BioC; TIGR02072 667015007040 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 667015007041 S-adenosylmethionine binding site [chemical binding]; other site 667015007042 dithiobiotin synthetase; Reviewed; Region: bioD; PRK00090 667015007043 AAA domain; Region: AAA_26; pfam13500 667015007044 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 667015007045 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 667015007046 Walker A motif; other site 667015007047 ATP binding site [chemical binding]; other site 667015007048 Walker B motif; other site 667015007049 arginine finger; other site 667015007050 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 667015007051 Beta-fructosidases (levanase/invertase) [Carbohydrate transport and metabolism]; Region: SacC; COG1621 667015007052 Glycosyl hydrolase family 32, beta-fructosidases; Region: GH32_B_Fructosidase; cd08996 667015007053 substrate binding [chemical binding]; other site 667015007054 active site 667015007055 Glycosyl hydrolases family 32 C terminal; Region: Glyco_hydro_32C; pfam08244 667015007056 Alpha-galactosidase [Carbohydrate transport and metabolism]; Region: GalA; COG3345 667015007057 Melibiase; Region: Melibiase; pfam02065 667015007058 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 667015007059 Fucose permease [Carbohydrate transport and metabolism]; Region: FucP; COG0738 667015007060 putative substrate translocation pore; other site 667015007061 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 667015007062 Fructokinases (FRKs) mainly from bacteria and plants are enzymes with high specificity for fructose, as are all FRKs, but they catalyzes the conversion of fructose to fructose-6-phosphate, which is an entry point into glycolysis via conversion into...; Region: bac_FRK; cd01167 667015007063 putative substrate binding site [chemical binding]; other site 667015007064 putative ATP binding site [chemical binding]; other site 667015007065 Periplasmic binding domain of two-component sensor kinase signaling systems; Region: PBP1_sensor_kinase_like; cd06308 667015007066 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 667015007067 putative ligand binding site [chemical binding]; other site 667015007068 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 667015007069 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 667015007070 dimer interface [polypeptide binding]; other site 667015007071 phosphorylation site [posttranslational modification] 667015007072 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 667015007073 ATP binding site [chemical binding]; other site 667015007074 Mg2+ binding site [ion binding]; other site 667015007075 G-X-G motif; other site 667015007076 Response regulator receiver domain; Region: Response_reg; pfam00072 667015007077 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 667015007078 active site 667015007079 phosphorylation site [posttranslational modification] 667015007080 intermolecular recognition site; other site 667015007081 dimerization interface [polypeptide binding]; other site 667015007082 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 667015007083 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 667015007084 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 667015007085 S-adenosylmethionine binding site [chemical binding]; other site 667015007086 Arginine repressor [Transcription]; Region: ArgR; COG1438 667015007087 Arginine repressor, DNA binding domain; Region: Arg_repressor; pfam01316 667015007088 Arginine repressor, C-terminal domain; Region: Arg_repressor_C; pfam02863 667015007089 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 667015007090 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 667015007091 Coenzyme A binding pocket [chemical binding]; other site 667015007092 argininosuccinate synthase; Provisional; Region: PRK13820 667015007093 Adenine nucleotide alpha hydrolases superfamily including N type ATP PPases, ATP sulphurylases Universal Stress Response protein and electron transfer flavoprotein (ETF). The domain forms a apha/beta/apha fold which binds to Adenosine nucleotide; Region: AANH_like; cl00292 667015007094 Ligand Binding Site [chemical binding]; other site 667015007095 PspC domain; Region: PspC; pfam04024 667015007096 N-acetyl-gamma-glutamyl-phosphate reductase; Validated; Region: argC; PRK00436 667015007097 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 667015007098 GIY-YIG domain of uncharacterized hypothetical protein found in bacteria; Region: GIY-YIG_unchar_3; cd10448 667015007099 GIY-YIG motif/motif A; other site 667015007100 putative active site [active] 667015007101 putative metal binding site [ion binding]; other site 667015007102 acetylornithine aminotransferase; Provisional; Region: PRK02627 667015007103 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 667015007104 inhibitor-cofactor binding pocket; inhibition site 667015007105 pyridoxal 5'-phosphate binding site [chemical binding]; other site 667015007106 catalytic residue [active] 667015007107 Starch-binding associating with outer membrane; Region: SusD-like_3; pfam14322 667015007108 starch binding outer membrane protein SusD; Region: SusD; cd08977 667015007109 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 667015007110 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl17499 667015007111 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 667015007112 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 667015007113 Protein of unknown function (DUF3791); Region: DUF3791; pfam12668 667015007114 Protein of unknown function (DUF3990); Region: DUF3990; pfam13151 667015007115 Transposase domain (DUF772); Region: DUF772; pfam05598 667015007116 Gram-negative bacterial tonB protein; Region: TonB; cl10048 667015007117 starch binding outer membrane protein SusD; Region: SusD; cd08977 667015007118 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 667015007119 Cna protein B-type domain; Region: Cna_B_2; pfam13715 667015007120 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 667015007121 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 667015007122 Predicted ATPase (AAA+ superfamily) [General function prediction only]; Region: COG1373 667015007123 AAA domain; Region: AAA_14; pfam13173 667015007124 starch binding outer membrane protein SusD; Region: SusD; cd08977 667015007125 Starch-binding associating with outer membrane; Region: SusD-like_3; pfam14322 667015007126 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 667015007127 Cna protein B-type domain; Region: Cna_B_2; pfam13715 667015007128 TonB-dependent outer membrane receptor, SusC/RagA subfamily, signature region; Region: SusC_RagA_signa; TIGR04057 667015007129 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 667015007130 AAA domain; Region: AAA_14; pfam13173 667015007131 Domain of unknown function (DUF4143); Region: DUF4143; pfam13635 667015007132 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 667015007133 active site 667015007134 DNA binding site [nucleotide binding] 667015007135 Int/Topo IB signature motif; other site 667015007136 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 667015007137 Cna protein B-type domain; Region: Cna_B_2; pfam13715 667015007138 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 667015007139 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 667015007140 starch binding outer membrane protein SusD; Region: SusD; cl17845 667015007141 Starch-binding associating with outer membrane; Region: SusD-like_3; pfam14322 667015007142 SusD family; Region: SusD; pfam07980 667015007143 GTP-binding protein HflX; Region: GTP_HflX; TIGR03156 667015007144 GTP-binding GTPase N-terminal; Region: GTP-bdg_N; pfam13167 667015007145 HflX GTPase family; Region: HflX; cd01878 667015007146 G1 box; other site 667015007147 GTP/Mg2+ binding site [chemical binding]; other site 667015007148 Switch I region; other site 667015007149 G2 box; other site 667015007150 G3 box; other site 667015007151 Switch II region; other site 667015007152 G4 box; other site 667015007153 G5 box; other site 667015007154 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 667015007155 putative trimer interface [polypeptide binding]; other site 667015007156 putative CoA binding site [chemical binding]; other site 667015007157 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 667015007158 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 667015007159 catalytic residues [active] 667015007160 fumarate hydratase; Provisional; Region: PRK15389 667015007161 Fumarate hydratase (Fumerase); Region: Fumerase; pfam05681 667015007162 Fumarase C-terminus; Region: Fumerase_C; pfam05683 667015007163 hypothetical protein; Validated; Region: PRK02101 667015007164 carbamoyl-phosphate synthase, large subunit; Region: CPSaseII_lrg; TIGR01369 667015007165 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 667015007166 ATP-grasp domain; Region: ATP-grasp_4; cl17255 667015007167 Carbamoyl-phosphate synthetase large chain, oligomerisation domain; Region: CPSase_L_D3; pfam02787 667015007168 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 667015007169 ATP-grasp domain; Region: ATP-grasp_4; cl17255 667015007170 Methylglyoxal synthase-like domain found in pyr1 and URA1-like carbamoyl phosphate synthetases (CPS), including ammonia-dependent CPS Type I, and glutamine-dependent CPS Type III. These are multidomain proteins, in which MGS is the C-terminal domain; Region: MGS_CPS_I_III; cd01423 667015007171 probable substrate binding site [chemical binding]; other site 667015007172 tryptophanyl-tRNA synthetase II; Reviewed; Region: PRK12282 667015007173 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 667015007174 active site 667015007175 HIGH motif; other site 667015007176 dimer interface [polypeptide binding]; other site 667015007177 KMSKS motif; other site 667015007178 Transcriptional regulatory protein, C terminal; Region: Trans_reg_C; smart00862 667015007179 5-aminoimidazole-4-carboxamide ribonucleotide transformylase; Provisional; Region: PRK07106 667015007180 AICAR transformylase/IMP cyclohydrolase PurH (only IMP cyclohydrolase domain in Aful) [Nucleotide transport and metabolism]; Region: PurH; COG0138 667015007181 Carboxypeptidase regulatory-like domain; Region: CarboxypepD_reg; pfam13620 667015007182 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 667015007183 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 667015007184 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 667015007185 dimer interface [polypeptide binding]; other site 667015007186 phosphorylation site [posttranslational modification] 667015007187 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 667015007188 ATP binding site [chemical binding]; other site 667015007189 Mg2+ binding site [ion binding]; other site 667015007190 G-X-G motif; other site 667015007191 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 667015007192 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 667015007193 active site 667015007194 phosphorylation site [posttranslational modification] 667015007195 intermolecular recognition site; other site 667015007196 dimerization interface [polypeptide binding]; other site 667015007197 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 667015007198 DNA binding site [nucleotide binding] 667015007199 Outer membrane cobalamin receptor protein [Coenzyme metabolism]; Region: BtuB; COG4206 667015007200 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 667015007201 PQQ-dependent catabolism-associated beta-propeller protein; Region: PQQ_ABC_repeats; TIGR03866 667015007202 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes; Region: PLPDE_III; cl00261 667015007203 Carbonic anhydrases (CA) are zinc-containing enzymes that catalyze the reversible hydration of carbon dioxide in a two-step mechanism in which the nucleophilic attack of a zinc-bound hydroxide ion on carbon dioxide is followed by the regeneration of an...; Region: beta_CA_cladeD; cd03379 667015007204 active site clefts [active] 667015007205 zinc binding site [ion binding]; other site 667015007206 dimer interface [polypeptide binding]; other site 667015007207 nicotinate phosphoribosyltransferase; Provisional; Region: PRK05321 667015007208 nicotinate phosphoribosyltransferase; Region: NAPRTase; TIGR01514 667015007209 active site 667015007210 2-isopropylmalate synthase; Validated; Region: PRK00915 667015007211 2-isopropylmalate synthase (IPMS), N-terminal catalytic TIM barrel domain; Region: DRE_TIM_IPMS; cd07940 667015007212 active site 667015007213 catalytic residues [active] 667015007214 metal binding site [ion binding]; metal-binding site 667015007215 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; pfam08502 667015007216 3-isopropylmalate dehydratase large subunit; Reviewed; Region: PRK00402 667015007217 3-isopropylmalate dehydratase catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate; Region: IPMI; cd01583 667015007218 substrate binding site [chemical binding]; other site 667015007219 ligand binding site [chemical binding]; other site 667015007220 isopropylmalate isomerase small subunit; Provisional; Region: leuD; PRK01641 667015007221 Aconatase-like swivel domain of 3-isopropylmalate dehydratase and related uncharacterized proteins. 3-isopropylmalate dehydratase catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate, via the formation of 2-isopropylmaleate...; Region: IPMI_Swivel; cd01577 667015007222 substrate binding site [chemical binding]; other site 667015007223 (R)-citramalate synthase; Provisional; Region: PRK09389 667015007224 Leptospira interrogans citramalate synthase (CMS) and related proteins, N-terminal catalytic TIM barrel domain; Region: DRE_TIM_CMS; cd07945 667015007225 active site 667015007226 catalytic residues [active] 667015007227 metal binding site [ion binding]; metal-binding site 667015007228 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; pfam08502 667015007229 3-isopropylmalate dehydrogenase; Provisional; Region: PRK00772 667015007230 tartrate dehydrogenase; Region: TTC; TIGR02089 667015007231 TPR repeat; Region: TPR_11; pfam13414 667015007232 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 667015007233 binding surface 667015007234 TPR motif; other site 667015007235 TPR repeat; Region: TPR_11; pfam13414 667015007236 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 667015007237 binding surface 667015007238 TPR motif; other site 667015007239 Helix-turn-helix domain; Region: HTH_18; pfam12833 667015007240 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 667015007241 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; pfam00933 667015007242 PA14 domain; Region: PA14; cl08459 667015007243 Fibronectin type III-like domain; Region: Fn3-like; pfam14310 667015007244 Excinuclease ATPase subunit [DNA replication, recombination, and repair]; Region: UvrA; COG0178 667015007245 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 667015007246 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 667015007247 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 667015007248 Walker A/P-loop; other site 667015007249 ATP binding site [chemical binding]; other site 667015007250 Q-loop/lid; other site 667015007251 ABC transporter signature motif; other site 667015007252 Walker B; other site 667015007253 D-loop; other site 667015007254 H-loop/switch region; other site 667015007255 Uncharacterized BCR, COG1649; Region: DUF187; pfam02638 667015007256 Outer membrane protein beta-barrel domain; Region: OMP_b-brl_2; pfam13568 667015007257 Prephenate dehydrogenase [Amino acid transport and metabolism]; Region: TyrA; COG0287 667015007258 prephenate dehydrogenase; Validated; Region: PRK08507 667015007259 3-deoxy-D-manno-octulosonic acid (KDO) 8-phosphate synthase [Cell envelope biogenesis, outer membrane]; Region: KdsA; cl17225 667015007260 Chorismate mutase type II; Region: CM_2; smart00830 667015007261 LL-diaminopimelate aminotransferase; Provisional; Region: PRK09276 667015007262 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 667015007263 pyridoxal 5'-phosphate binding site [chemical binding]; other site 667015007264 homodimer interface [polypeptide binding]; other site 667015007265 catalytic residue [active] 667015007266 Prephenate dehydratase [Amino acid transport and metabolism]; Region: PheA; COG0077 667015007267 Prephenate dehydratase; Region: PDT; pfam00800 667015007268 C-terminal ACT domain of the bifunctional chorismate mutase-prephenate dehydratase (CM-PDT) enzyme and the prephenate dehydratase (PDT) enzyme; Region: ACT_CM-PDT; cd04905 667015007269 putative L-Phe binding site [chemical binding]; other site 667015007270 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 667015007271 TPR motif; other site 667015007272 binding surface 667015007273 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 667015007274 binding surface 667015007275 TPR motif; other site 667015007276 TPR repeat; Region: TPR_11; pfam13414 667015007277 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 667015007278 binding surface 667015007279 TPR motif; other site 667015007280 TPR repeat; Region: TPR_11; pfam13414 667015007281 Predicted acetyltransferase [General function prediction only]; Region: COG2388 667015007282 Acyl-CoA synthetases (AMP-forming)/AMP-acid ligases II [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: CaiC; COG0318 667015007283 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 667015007284 active site 667015007285 CoA binding site [chemical binding]; other site 667015007286 AMP binding site [chemical binding]; other site 667015007287 o-Succinylbenzoate synthase (OSBS) catalyzes the conversion of 2-succinyl-6-hydroxy-2,4-cyclohexadiene-1-carboxylate (SHCHC) to 4-(2'-carboxyphenyl)-4-oxobutyrate (o-succinylbenzoate or OSB), a reaction in the menaquinone biosynthetic pathway; Region: OSBS; cd03320 667015007288 o-succinylbenzoate synthase; Region: menC_gamma/gm+; TIGR01927 667015007289 active site 667015007290 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 667015007291 Enoyl-CoA hydratase/isomerase family; Region: ECH; pfam00378 667015007292 substrate binding site [chemical binding]; other site 667015007293 oxyanion hole (OAH) forming residues; other site 667015007294 trimer interface [polypeptide binding]; other site 667015007295 2-succinyl-5-enolpyruvyl-6-hydroxy-3-cyclohexene-1- carboxylic-acid synthase; Region: menD; TIGR00173 667015007296 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 667015007297 dimer interface [polypeptide binding]; other site 667015007298 tetramer interface [polypeptide binding]; other site 667015007299 PYR/PP interface [polypeptide binding]; other site 667015007300 TPP binding site [chemical binding]; other site 667015007301 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 667015007302 TPP-binding site; other site 667015007303 chorismate binding enzyme; Region: Chorismate_bind; cl10555 667015007304 PaaI_thioesterase is a tetrameric acyl-CoA thioesterase with a hot dog fold and one of several proteins responsible for phenylacetic acid (PA) degradation in bacteria. Although orthologs of PaaI exist in archaea and eukaryotes, their function has not...; Region: PaaI_thioesterase; cd03443 667015007305 CoenzymeA binding site [chemical binding]; other site 667015007306 subunit interaction site [polypeptide binding]; other site 667015007307 PHB binding site; other site 667015007308 EamA-like transporter family; Region: EamA; pfam00892 667015007309 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 667015007310 EamA-like transporter family; Region: EamA; pfam00892 667015007311 FOG: Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3385 667015007312 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 667015007313 NADH dehydrogenase, FAD-containing subunit [Energy production and conversion]; Region: Ndh; COG1252 667015007314 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 667015007315 maltose O-acetyltransferase; Provisional; Region: PRK10092 667015007316 Maltose O-acetyltransferase (MAT) and Galactoside O-acetyltransferase (GAT): MAT and GAT catalyze the CoA-dependent acetylation of the 6-hydroxyl group of their respective sugar substrates. MAT acetylates maltose and glucose exclusively at the C6...; Region: LbH_MAT_GAT; cd03357 667015007317 active site 667015007318 substrate binding site [chemical binding]; other site 667015007319 trimer interface [polypeptide binding]; other site 667015007320 CoA binding site [chemical binding]; other site 667015007321 Bifunctional PLP-dependent enzyme with beta-cystathionase and maltose regulon repressor activities [Amino acid transport and metabolism]; Region: MalY; COG1168 667015007322 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 667015007323 pyridoxal 5'-phosphate binding site [chemical binding]; other site 667015007324 homodimer interface [polypeptide binding]; other site 667015007325 catalytic residue [active] 667015007326 Acetyltransferase (GNAT) domain; Region: Acetyltransf_8; pfam13523 667015007327 Cyclo-malto-dextrinase C-terminal domain; Region: Cyc-maltodext_C; pfam10438 667015007328 Na+-transporting oxaloacetate decarboxylase beta subunit; Region: OAD_beta; cl00816 667015007329 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 667015007330 carboxyltransferase (CT) interaction site; other site 667015007331 biotinylation site [posttranslational modification]; other site 667015007332 Lamin Tail Domain; Region: LTD; pfam00932 667015007333 Oxaloacetate decarboxylase, gamma chain; Region: OAD_gamma; pfam04277 667015007334 methylmalonyl-CoA decarboxylase alpha subunit; Region: mmdA; TIGR01117 667015007335 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189; cl17682 667015007336 Acetyl-CoA carboxylase alpha subunit [Lipid metabolism]; Region: AccA; cl17345 667015007337 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 667015007338 Methylmalonyl-CoA epimerase (MMCE); Region: MMCE; cd07249 667015007339 dimer interface [polypeptide binding]; other site 667015007340 substrate binding site [chemical binding]; other site 667015007341 metal binding site [ion binding]; metal-binding site 667015007342 Predicted AAA-ATPase; Region: AAA-ATPase_like; pfam09820 667015007343 Protein of unknown function (DUF1703); Region: DUF1703; pfam08011 667015007344 Acetyltransferase (GNAT) domain; Region: Acetyltransf_6; pfam13480 667015007345 NAD(P)H:flavin oxidoreductase-like family 2. A subfamily of the nitroreductase family containing uncharacterized proteins that are similar to nitroreductase. Nitroreductase catalyzes the reduction of nitroaromatic compounds such as nitrotoluenes; Region: NADPH_oxidoreductase_2; cd02151 667015007346 putative FMN binding site [chemical binding]; other site 667015007347 NADP oxidoreductase coenzyme F420-dependent; Region: F420_oxidored; pfam03807 667015007348 Domain of unknown function (DUF2520); Region: DUF2520; pfam10728 667015007349 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 667015007350 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 667015007351 active site 667015007352 dimer interface [polypeptide binding]; other site 667015007353 ribonuclease, Rne/Rng family; Region: RNaseEG; TIGR00757 667015007354 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 667015007355 homodimer interface [polypeptide binding]; other site 667015007356 oligonucleotide binding site [chemical binding]; other site 667015007357 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 667015007358 IHF - DNA interface [nucleotide binding]; other site 667015007359 IHF dimer interface [polypeptide binding]; other site 667015007360 A/G-specific adenine glycosylase; Region: mutY; TIGR01084 667015007361 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 667015007362 minor groove reading motif; other site 667015007363 helix-hairpin-helix signature motif; other site 667015007364 substrate binding pocket [chemical binding]; other site 667015007365 active site 667015007366 DNA glycosylase (MutY in bacteria and hMYH in humans) is responsible for repairing misread A*oxoG residues to C*G by removing the inappropriately paired adenine base from the DNA backbone. It belongs to the Nudix hydrolase superfamily and is important...; Region: DNA_Glycosylase_C; cd03431 667015007367 DNA binding and oxoG recognition site [nucleotide binding] 667015007368 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 667015007369 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 667015007370 dimer interface [polypeptide binding]; other site 667015007371 ssDNA binding site [nucleotide binding]; other site 667015007372 tetramer (dimer of dimers) interface [polypeptide binding]; other site 667015007373 gliding motility-associated protein GldE; Region: GldE; TIGR03520 667015007374 Domain of unknown function DUF21; Region: DUF21; pfam01595 667015007375 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 667015007376 Transporter associated domain; Region: CorC_HlyC; smart01091 667015007377 Phosphopantetheinyl transferase [Coenzyme metabolism]; Region: Sfp; COG2091 667015007378 4'-phosphopantetheinyl transferase superfamily; Region: ACPS; pfam01648 667015007379 dTDP-4-dehydrorhamnose 3,5-epimerase; Region: dTDP_sugar_isom; pfam00908 667015007380 dTDP-6-deoxy-L-lyxo-4-hexulose reductase and related proteins, extended (e) SDRs; Region: dTDP_HR_like_SDR_e; cd05254 667015007381 RmlD substrate binding domain; Region: RmlD_sub_bind; pfam04321 667015007382 NADP binding site [chemical binding]; other site 667015007383 active site 667015007384 putative substrate binding site [chemical binding]; other site 667015007385 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 667015007386 dimer interface [polypeptide binding]; other site 667015007387 phosphorylation site [posttranslational modification] 667015007388 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 667015007389 ATP binding site [chemical binding]; other site 667015007390 Mg2+ binding site [ion binding]; other site 667015007391 G-X-G motif; other site 667015007392 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 667015007393 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 667015007394 active site 667015007395 phosphorylation site [posttranslational modification] 667015007396 intermolecular recognition site; other site 667015007397 dimerization interface [polypeptide binding]; other site 667015007398 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 667015007399 DNA binding site [nucleotide binding] 667015007400 Type I (cytosolic) bacterial L-asparaginase; Region: L-asparaginase_I; cd08963 667015007401 active site 667015007402 homodimer interface [polypeptide binding]; other site 667015007403 tryptophan synthase alpha subunit; Provisional; Region: trpA; CHL00200 667015007404 Ttryptophan synthase (TRPS) alpha subunit (TSA). TPRS is a bifunctional tetrameric enzyme (2 alpha and 2 beta subunits) that catalyzes the last two steps of L-tryptophan biosynthesis. Alpha and beta subunit catalyze two distinct reactions which are both...; Region: Tryptophan_synthase_alpha; cd04724 667015007405 substrate binding site [chemical binding]; other site 667015007406 active site 667015007407 catalytic residues [active] 667015007408 heterodimer interface [polypeptide binding]; other site 667015007409 Phosphoribosylanthranilate isomerase (PRAI) catalyzes the fourth step of the tryptophan biosynthesis, the conversion of N-(5'- phosphoribosyl)-anthranilate (PRA) to 1-(o-carboxyphenylamino)- 1-deoxyribulose 5-phosphate (CdRP). Most PRAIs are...; Region: PRAI; cd00405 667015007410 active site 667015007411 Indole-3-glycerol phosphate synthase (IGPS); an enzyme in the tryptophan biosynthetic pathway, catalyzing the ring closure reaction of 1-(o-carboxyphenylamino)-1-deoxyribulose-5-phosphate (CdRP) to indole-3-glycerol phosphate (IGP), accompanied by the...; Region: IGPS; cd00331 667015007412 active site 667015007413 ribulose/triose binding site [chemical binding]; other site 667015007414 phosphate binding site [ion binding]; other site 667015007415 substrate (anthranilate) binding pocket [chemical binding]; other site 667015007416 product (indole) binding pocket [chemical binding]; other site 667015007417 anthranilate phosphoribosyltransferase; Provisional; Region: trpD; PRK00188 667015007418 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 667015007419 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 667015007420 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 667015007421 Glutamine amidotransferase class-I; Region: GATase; pfam00117 667015007422 glutamine binding [chemical binding]; other site 667015007423 catalytic triad [active] 667015007424 Anthranilate/para-aminobenzoate synthases component I [Amino acid transport and metabolism / Coenzyme metabolism]; Region: TrpE; COG0147 667015007425 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 667015007426 chorismate binding enzyme; Region: Chorismate_bind; pfam00425 667015007427 tryptophan synthase, beta subunit; Region: trpB; TIGR00263 667015007428 Tryptophan synthase-beta: Trptophan synthase is a bifunctional enzyme that catalyses the last two steps in the biosynthesis of L-tryptophan via its alpha and beta reactions. In the alpha reaction, indole 3-glycerol phosphate is cleaved reversibly to...; Region: Trp-synth_B; cd06446 667015007429 pyridoxal 5'-phosphate binding site [chemical binding]; other site 667015007430 catalytic residue [active] 667015007431 Short repeat of unknown function (DUF308); Region: DUF308; pfam03729 667015007432 Cna protein B-type domain; Region: Cna_B_2; pfam13715 667015007433 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 667015007434 Pectic acid lyase; Region: Pec_lyase; pfam09492 667015007435 putative pectinesterase; Region: PLN02432; cl01911 667015007436 inosine 5'-monophosphate dehydrogenase; Reviewed; Region: PRK05567 667015007437 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 667015007438 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 667015007439 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 667015007440 active site 667015007441 PPIC-type PPIASE domain; Region: Rotamase_2; cl08278 667015007442 PPIC-type PPIASE domain; Region: Rotamase_2; pfam13145 667015007443 Parvulin-like peptidyl-prolyl isomerase [Posttranslational modification, protein turnover, chaperones]; Region: SurA; COG0760 667015007444 SurA N-terminal domain; Region: SurA_N_3; cl07813 667015007445 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 667015007446 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 667015007447 OstA-like protein; Region: OstA_2; pfam13100 667015007448 DNA mismatch repair protein; Reviewed; Region: mutL; PRK00095 667015007449 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 667015007450 ATP binding site [chemical binding]; other site 667015007451 Mg2+ binding site [ion binding]; other site 667015007452 G-X-G motif; other site 667015007453 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 667015007454 ATP binding site [chemical binding]; other site 667015007455 MutL C terminal dimerisation domain; Region: MutL_C; pfam08676 667015007456 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 667015007457 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 667015007458 dimer interface [polypeptide binding]; other site 667015007459 pyridoxal 5'-phosphate binding site [chemical binding]; other site 667015007460 catalytic residue [active] 667015007461 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 667015007462 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 667015007463 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 667015007464 3-oxoacyl-(acyl-carrier-protein) reductase; Region: 3oxo_ACP_reduc; TIGR01830 667015007465 NAD(P) binding site [chemical binding]; other site 667015007466 homotetramer interface [polypeptide binding]; other site 667015007467 homodimer interface [polypeptide binding]; other site 667015007468 active site 667015007469 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 667015007470 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 667015007471 active site 667015007472 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 667015007473 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 667015007474 active site 667015007475 phosphorylation site [posttranslational modification] 667015007476 intermolecular recognition site; other site 667015007477 dimerization interface [polypeptide binding]; other site 667015007478 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 667015007479 Walker A motif; other site 667015007480 ATP binding site [chemical binding]; other site 667015007481 Walker B motif; other site 667015007482 arginine finger; other site 667015007483 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 667015007484 Predicted AAA-ATPase; Region: AAA-ATPase_like; pfam09820 667015007485 Protein of unknown function (DUF1703); Region: DUF1703; pfam08011 667015007486 Predicted AAA-ATPase; Region: AAA-ATPase_like; pfam09820 667015007487 Protein of unknown function (DUF1703); Region: DUF1703; pfam08011 667015007488 starch binding outer membrane protein SusD; Region: SusD; cl17845 667015007489 starch binding outer membrane protein SusD; Region: SusD; cl17845 667015007490 starch binding outer membrane protein SusD; Region: SusD; cl17845 667015007491 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 667015007492 Cna protein B-type domain; Region: Cna_B_2; pfam13715 667015007493 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 667015007494 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 667015007495 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 667015007496 active site 667015007497 DNA binding site [nucleotide binding] 667015007498 Int/Topo IB signature motif; other site 667015007499 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 667015007500 Cna protein B-type domain; Region: Cna_B_2; pfam13715 667015007501 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 667015007502 TonB dependent receptor; Region: TonB_dep_Rec; pfam00593 667015007503 Starch-binding associating with outer membrane; Region: SusD-like_3; pfam14322 667015007504 starch binding outer membrane protein SusD; Region: SusD; cl17845 667015007505 starch binding outer membrane protein SusD; Region: SusD; cl17845 667015007506 SusD family; Region: SusD; pfam07980 667015007507 SusD family; Region: SusD; pfam07980 667015007508 Rhamnogalacturonan lyase of the polysaccharide lyase family 11; Region: RGL11; cd10318 667015007509 metal binding site [ion binding]; metal-binding site 667015007510 Family description; Region: VCBS; pfam13517 667015007511 active site 667015007512 Glycosyl hydrolases family 2, sugar binding domain; Region: Glyco_hydro_2_N; pfam02837 667015007513 Glycosyl hydrolases family 2; Region: Glyco_hydro_2; pfam00703 667015007514 Glycosyl hydrolases family 2, TIM barrel domain; Region: Glyco_hydro_2_C; pfam02836 667015007515 Endopygalactorunase [Cell envelope biogenesis, outer membrane]; Region: PGU1; COG5434 667015007516 Probable polygalacturonase At3g15720; Region: PLN03003; cl14103 667015007517 Rhamnogalacturan_acetylesterase_like subgroup of SGNH-hydrolases. Rhamnogalacturan acetylesterase removes acetyl esters from rhamnogalacturonan substrates, and renders them susceptible to degradation by rhamnogalacturonases. Rhamnogalacturonans are...; Region: Rhamnogalacturan_acetylesterase_like; cd01821 667015007518 active site 667015007519 catalytic triad [active] 667015007520 Rhamnogalacturan_acetylesterase_like subgroup of SGNH-hydrolases. Rhamnogalacturan acetylesterase removes acetyl esters from rhamnogalacturonan substrates, and renders them susceptible to degradation by rhamnogalacturonases. Rhamnogalacturonans are...; Region: Rhamnogalacturan_acetylesterase_like; cd01821 667015007521 active site 667015007522 catalytic triad [active] 667015007523 Domain of unknown function (DUF718); Region: DUF718; pfam05336 667015007524 (acyl-carrier-protein) S-malonyltransferase [Lipid metabolism]; Region: FabD; COG0331 667015007525 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 667015007526 4-amino-5-hydroxymethyl-2-methyl-pyrimidine phosphate kinase (HMPP-kinase) catalyzes two consecutive phosphorylation steps in the thiamine phosphate biosynthesis pathway, leading to the synthesis of vitamin B1. The first step is the phosphorylation of...; Region: HMPP_kinase; cd01169 667015007527 dimer interface [polypeptide binding]; other site 667015007528 substrate binding site [chemical binding]; other site 667015007529 ATP binding site [chemical binding]; other site 667015007530 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 667015007531 nudix motif; other site 667015007532 Uncharacterized conserved protein [General function prediction only]; Region: COG4111 667015007533 Sugar (pentulose and hexulose) kinases [Carbohydrate transport and metabolism]; Region: XylB; COG1070 667015007534 D-xylulose kinases, subgroup 2; members of the FGGY family of carbohydrate kinases; Region: FGGY_D-XK_2; cd07810 667015007535 putative N- and C-terminal domain interface [polypeptide binding]; other site 667015007536 putative active site [active] 667015007537 putative MgATP binding site [chemical binding]; other site 667015007538 catalytic site [active] 667015007539 metal binding site [ion binding]; metal-binding site 667015007540 putative xylulose binding site [chemical binding]; other site 667015007541 putative homodimer interface [polypeptide binding]; other site 667015007542 xylose isomerase; Provisional; Region: PRK05474 667015007543 xylose isomerase; Region: xylose_isom_A; TIGR02630 667015007544 D-xylose transporter XylE; Provisional; Region: xylE; PRK10077 667015007545 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 667015007546 putative substrate translocation pore; other site 667015007547 GDP-M1P_Guanylyltransferase catalyzes the formation of GDP-Mannose; Region: GDP-M1P_Guanylyltransferase; cd02509 667015007548 Mannose-1-phosphate guanylyltransferase [Cell envelope biogenesis, outer membrane]; Region: {ManC}; COG0836 667015007549 Substrate binding site; other site 667015007550 Domain of unknown function (DUF368); Region: DUF368; pfam04018 667015007551 Glycosyl Hydrolase Family 88; Region: Glyco_hydro_88; pfam07470 667015007552 Rhamnogalacturonan lyase of the polysaccharide lyase family 11; Region: RGL11; cd10318 667015007553 metal binding site [ion binding]; metal-binding site 667015007554 active site 667015007555 Pectate lyase superfamily protein; Region: Pectate_lyase_3; pfam12708 667015007556 Probable polygalacturonase At3g15720; Region: PLN03003; cl14103 667015007557 Glycoside hydrolase family 94 N-terminal-like domain of uncharacterized function; Region: GH94N_like_1; cd11747 667015007558 homodimer interface [polypeptide binding]; other site 667015007559 Beta-galactosidase [Carbohydrate transport and metabolism]; Region: LacA; COG1874 667015007560 Beta-galactosidase; Region: Glyco_hydro_42; pfam02449 667015007561 A4 beta-galactosidase middle domain: a type 1 glutamine amidotransferase (GATase1)-like domain; Region: A4_beta-galactosidase_middle_domain; cd03143 667015007562 Beta-galactosidase C-terminal domain; Region: Glyco_hydro_42C; pfam08533 667015007563 Rhamnogalacturan_acetylesterase_like subgroup of SGNH-hydrolases. Rhamnogalacturan acetylesterase removes acetyl esters from rhamnogalacturonan substrates, and renders them susceptible to degradation by rhamnogalacturonases. Rhamnogalacturonans are...; Region: Rhamnogalacturan_acetylesterase_like; cd01821 667015007564 active site 667015007565 catalytic triad [active] 667015007566 Predicted periplasmic ligand-binding sensor domain [Signal transduction mechanisms]; Region: COG3292 667015007567 Two component regulator propeller; Region: Reg_prop; pfam07494 667015007568 Y_Y_Y domain; Region: Y_Y_Y; pfam07495 667015007569 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 667015007570 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 667015007571 dimer interface [polypeptide binding]; other site 667015007572 phosphorylation site [posttranslational modification] 667015007573 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 667015007574 ATP binding site [chemical binding]; other site 667015007575 Mg2+ binding site [ion binding]; other site 667015007576 G-X-G motif; other site 667015007577 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 667015007578 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 667015007579 active site 667015007580 phosphorylation site [posttranslational modification] 667015007581 intermolecular recognition site; other site 667015007582 dimerization interface [polypeptide binding]; other site 667015007583 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 667015007584 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 667015007585 Glycosyl Hydrolase Family 88; Region: Glyco_hydro_88; pfam07470 667015007586 Glycosyl hydrolases family 28; Region: Glyco_hydro_28; pfam00295 667015007587 Probable polygalacturonase At3g15720; Region: PLN03003; cl14103 667015007588 Virulence protein [General function prediction only]; Region: COG3943 667015007589 Virulence protein RhuM family; Region: Virulence_RhuM; pfam13310 667015007590 DNA-binding protein, histone-like, putative; Region: HU_rel; TIGR01201 667015007591 50S ribosomal protein L19; Provisional; Region: rplS; PRK05338 667015007592 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 667015007593 Escherichia coli UshA-like family, N-terminal metallophosphatase domain; Region: MPP_UshA_N_like; cd00845 667015007594 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 667015007595 active site 667015007596 metal binding site [ion binding]; metal-binding site 667015007597 Beta-glucosidase-related glycosidases [Carbohydrate transport and metabolism]; Region: BglX; COG1472 667015007598 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; cl07971 667015007599 Beta-lactamase; Region: Beta-lactamase; cl17358 667015007600 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 667015007601 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 667015007602 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 667015007603 6-phosphogluconolactonase/Glucosamine-6-phosphate isomerase/deaminase [Carbohydrate transport and metabolism]; Region: NagB; COG0363 667015007604 GlcN6P_deaminase: Glucosamine-6-phosphate (GlcN6P) deaminase subfamily; GlcN6P deaminase catalyzes the reversible conversion of GlcN6P to D-fructose-6-phosphate (Fru6P) and ammonium. The reaction is an aldo-keto isomerization coupled with an amination or...; Region: GlcN6P_deaminase; cd01399 667015007605 active site 667015007606 trimer interface [polypeptide binding]; other site 667015007607 allosteric site; other site 667015007608 active site lid [active] 667015007609 hexamer (dimer of trimers) interface [polypeptide binding]; other site 667015007610 glucosamine-6-phosphate deaminase-like protein; Validated; Region: PRK02122 667015007611 GlcN6P_deaminase: Glucosamine-6-phosphate (GlcN6P) deaminase subfamily; GlcN6P deaminase catalyzes the reversible conversion of GlcN6P to D-fructose-6-phosphate (Fru6P) and ammonium. The reaction is an aldo-keto isomerization coupled with an amination or...; Region: GlcN6P_deaminase; cd01399 667015007612 active site 667015007613 trimer interface [polypeptide binding]; other site 667015007614 allosteric site; other site 667015007615 active site lid [active] 667015007616 hexamer (dimer of trimers) interface [polypeptide binding]; other site 667015007617 GlcNAc-PI de-N-acetylase; Region: PIG-L; pfam02585 667015007618 Sulfotransferase domain; Region: Sulfotransfer_1; pfam00685 667015007619 sulfate adenylyltransferase subunit 1; Provisional; Region: cysN; PRK05124 667015007620 CysN, together with protein CysD, forms the ATP sulfurylase (ATPS) complex; Region: CysN_ATPS; cd04166 667015007621 G1 box; other site 667015007622 putative GEF interaction site [polypeptide binding]; other site 667015007623 GTP/Mg2+ binding site [chemical binding]; other site 667015007624 Switch I region; other site 667015007625 G2 box; other site 667015007626 CysD dimerization site [polypeptide binding]; other site 667015007627 G3 box; other site 667015007628 Switch II region; other site 667015007629 G4 box; other site 667015007630 G5 box; other site 667015007631 CysN_NodQ_II: This subfamily represents the domain II of the large subunit of ATP sulfurylase (ATPS): CysN or the N-terminal portion of NodQ, found mainly in proteobacteria and homologous to the domain II of EF-Tu. Escherichia coli ATPS consists of CysN...; Region: CysN_NodQ_II; cd03695 667015007632 TCysN_NoDQ_II: This subfamily represents the domain II of the large subunit of ATP sulfurylase (ATPS): CysN or the N-terminal portion of NodQ, found mainly in proteobacteria and homologous to the domain II of EF-Tu. Escherichia coli ATPS consists of CysN...; Region: CysN_NoDQ_III; cd04095 667015007633 sulfate adenylyltransferase, small subunit; Region: CysD; TIGR02039 667015007634 This domain is found in phosphoadenosine phosphosulphate (PAPS) reductase enzymes or PAPS sulphotransferase. PAPS reductase is part of the adenine nucleotide alpha hydrolases superfamily also including N type ATP PPases and ATP sulphurylases. A highly...; Region: PAPS_reductase; cd01713 667015007635 Active Sites [active] 667015007636 Adenosine 5'-phosphosulfate kinase (APSK) catalyzes the phosphorylation of adenosine 5'-phosphosulfate to form 3'-phosphoadenosine 5'-phosphosulfate (PAPS). The end-product PAPS is a biologically "activated" sulfate form...; Region: APSK; cd02027 667015007637 ligand-binding site [chemical binding]; other site 667015007638 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 667015007639 transmembrane helices; other site 667015007640 TrkA-C domain; Region: TrkA_C; pfam02080 667015007641 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 667015007642 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 667015007643 CysQ, a 3'-Phosphoadenosine-5'-phosphosulfate (PAPS) 3'-phosphatase, is a bacterial member of the inositol monophosphatase family. It has been proposed that CysQ helps control intracellular levels of PAPS, which is an intermediate in...; Region: CysQ; cd01638 667015007644 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 667015007645 active site 667015007646 amino acid transporter; Region: 2A0306; TIGR00909 667015007647 C-terminus of AA_permease; Region: AA_permease_C; pfam13906 667015007648 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 667015007649 efflux pump membrane protein (multidrug resistance protein A); Region: 8a0101; TIGR00998 667015007650 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 667015007651 HlyD family secretion protein; Region: HlyD_3; pfam13437 667015007652 Outer membrane efflux protein; Region: OEP; pfam02321 667015007653 Outer membrane efflux protein; Region: OEP; pfam02321 667015007654 MarR family; Region: MarR; pfam01047 667015007655 Members of the Nudix hydrolase superfamily catalyze the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+, for their activity and contain a highly...; Region: Nudix_Hydrolase_22; cd04681 667015007656 nudix motif; other site 667015007657 tol-pal system protein YbgF; Region: tol_pal_ybgF; TIGR02795 667015007658 tol-pal system protein YbgF; Region: tol_pal_ybgF; TIGR02795 667015007659 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 667015007660 binding surface 667015007661 TPR repeat; Region: TPR_11; pfam13414 667015007662 TPR motif; other site 667015007663 TPR repeat; Region: TPR_11; pfam13414 667015007664 tol-pal system protein YbgF; Region: tol_pal_ybgF; TIGR02795 667015007665 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 667015007666 binding surface 667015007667 TPR motif; other site 667015007668 tol-pal system protein YbgF; Region: tol_pal_ybgF; TIGR02795 667015007669 DNA topoisomerase I; Provisional; Region: PRK08780 667015007670 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 667015007671 active site 667015007672 interdomain interaction site; other site 667015007673 putative metal-binding site [ion binding]; other site 667015007674 nucleotide binding site [chemical binding]; other site 667015007675 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 667015007676 domain I; other site 667015007677 DNA binding groove [nucleotide binding] 667015007678 phosphate binding site [ion binding]; other site 667015007679 domain II; other site 667015007680 domain III; other site 667015007681 nucleotide binding site [chemical binding]; other site 667015007682 catalytic site [active] 667015007683 domain IV; other site 667015007684 Topoisomerase C-terminal repeat; Region: Toprim_C_rpt; pfam13368 667015007685 Topoisomerase C-terminal repeat; Region: Toprim_C_rpt; pfam13368 667015007686 Shikimate kinase [Amino acid transport and metabolism]; Region: AroK; COG0703 667015007687 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 667015007688 ADP binding site [chemical binding]; other site 667015007689 magnesium binding site [ion binding]; other site 667015007690 putative shikimate binding site; other site 667015007691 arginine decarboxylase; Provisional; Region: PRK05354 667015007692 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Arginine Decarboxylase; Region: PLPDE_III_ADC; cd06830 667015007693 dimer interface [polypeptide binding]; other site 667015007694 active site 667015007695 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 667015007696 catalytic residues [active] 667015007697 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes; Region: PLPDE_III; cl00261 667015007698 AAK_NAGK-like: N-Acetyl-L-glutamate kinase (NAGK)-like . Included in this CD are the Escherichia coli and Pseudomonas aeruginosa type NAGKs which catalyze the phosphorylation of N-acetyl-L-glutamate (NAG) by ATP in the second step of arginine...; Region: AAK_NAGK-like; cd04238 667015007699 nucleotide binding site [chemical binding]; other site 667015007700 N-acetyl-L-glutamate binding site [chemical binding]; other site 667015007701 DNA-directed RNA polymerase specialized sigma subunit, sigma24 homolog [Transcription]; Region: RpoE; COG1595 667015007702 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 667015007703 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 667015007704 DNA binding residues [nucleotide binding] 667015007705 Protein of unknown function DUF45; Region: DUF45; pfam01863 667015007706 MFS transport protein AraJ; Provisional; Region: PRK10091 667015007707 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 667015007708 putative substrate translocation pore; other site 667015007709 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 667015007710 FtsX-like permease family; Region: FtsX; pfam02687 667015007711 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 667015007712 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 667015007713 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 667015007714 Walker A/P-loop; other site 667015007715 ATP binding site [chemical binding]; other site 667015007716 Q-loop/lid; other site 667015007717 ABC transporter signature motif; other site 667015007718 Walker B; other site 667015007719 D-loop; other site 667015007720 H-loop/switch region; other site 667015007721 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 667015007722 Acidobacterial duplicated orphan permease; Region: ADOP; TIGR03434 667015007723 FtsX-like permease family; Region: FtsX; pfam02687 667015007724 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 667015007725 FtsX-like permease family; Region: FtsX; pfam02687 667015007726 IclR helix-turn-helix domain; Region: HTH_IclR; cl17605 667015007727 Predicted periplasmic ligand-binding sensor domain [Signal transduction mechanisms]; Region: COG3292 667015007728 Y_Y_Y domain; Region: Y_Y_Y; pfam07495 667015007729 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 667015007730 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 667015007731 dimer interface [polypeptide binding]; other site 667015007732 phosphorylation site [posttranslational modification] 667015007733 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 667015007734 ATP binding site [chemical binding]; other site 667015007735 Mg2+ binding site [ion binding]; other site 667015007736 G-X-G motif; other site 667015007737 Response regulator receiver domain; Region: Response_reg; pfam00072 667015007738 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 667015007739 active site 667015007740 phosphorylation site [posttranslational modification] 667015007741 intermolecular recognition site; other site 667015007742 dimerization interface [polypeptide binding]; other site 667015007743 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 667015007744 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 667015007745 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 667015007746 MUG-like Uracil-DNA glycosylase enzyme family; Region: UDG_MUG_like; cd10032 667015007747 putative active site [active] 667015007748 Cell division protein ZapA; Region: ZapA; pfam05164 667015007749 phosphodiesterase; Provisional; Region: PRK12704 667015007750 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 667015007751 Zn2+ binding site [ion binding]; other site 667015007752 Mg2+ binding site [ion binding]; other site 667015007753 Protein of unknown function (DUF1573); Region: DUF1573; pfam07610 667015007754 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; pfam13505 667015007755 Domain of unknown function (DUF4136); Region: DUF4136; pfam13590 667015007756 Domain of unknown function (DUF4251); Region: DUF4251; pfam14059 667015007757 type I secretion outer membrane protein, TolC family; Region: type_I_sec_TolC; TIGR01844 667015007758 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 667015007759 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 667015007760 HlyD family secretion protein; Region: HlyD_3; pfam13437 667015007761 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 667015007762 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 667015007763 FtsX-like permease family; Region: FtsX; pfam02687 667015007764 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 667015007765 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 667015007766 FtsX-like permease family; Region: FtsX; pfam02687 667015007767 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 667015007768 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 667015007769 Walker A/P-loop; other site 667015007770 ATP binding site [chemical binding]; other site 667015007771 Q-loop/lid; other site 667015007772 ABC transporter signature motif; other site 667015007773 Walker B; other site 667015007774 D-loop; other site 667015007775 H-loop/switch region; other site 667015007776 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 667015007777 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 667015007778 nucleotide binding site [chemical binding]; other site 667015007779 BadF/BadG/BcrA/BcrD ATPase family; Region: BcrAD_BadFG; cl17271 667015007780 ABC-type transport system involved in resistance to organic solvents, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2A; COG1127 667015007781 ATP-binding cassette transport system involved in resistant to organic solvents; Region: ABC_Org_Solvent_Resistant; cd03261 667015007782 Walker A/P-loop; other site 667015007783 ATP binding site [chemical binding]; other site 667015007784 Q-loop/lid; other site 667015007785 ABC transporter signature motif; other site 667015007786 Walker B; other site 667015007787 D-loop; other site 667015007788 H-loop/switch region; other site 667015007789 ABC-type transport system involved in resistance to organic solvents, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2B; COG0767 667015007790 Permease; Region: Permease; pfam02405 667015007791 ABC-type (unclassified) transport system, ATPase component [General function prediction only]; Region: YhbG; COG1137 667015007792 ATP-binding cassette component of YhbG transport system; Region: ABC_YhbG; cd03218 667015007793 Walker A/P-loop; other site 667015007794 ATP binding site [chemical binding]; other site 667015007795 Q-loop/lid; other site 667015007796 ABC transporter signature motif; other site 667015007797 Walker B; other site 667015007798 D-loop; other site 667015007799 H-loop/switch region; other site 667015007800 trigger factor; Region: tig; TIGR00115 667015007801 Clp protease; Region: CLP_protease; pfam00574 667015007802 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 667015007803 oligomer interface [polypeptide binding]; other site 667015007804 active site residues [active] 667015007805 ATP-dependent protease ATP-binding subunit ClpX; Provisional; Region: clpX; PRK05342 667015007806 ClpX C4-type zinc finger; Region: zf-C4_ClpX; smart00994 667015007807 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 667015007808 Walker A motif; other site 667015007809 ATP binding site [chemical binding]; other site 667015007810 Walker B motif; other site 667015007811 arginine finger; other site 667015007812 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 667015007813 Superfamily II DNA helicase [DNA replication, recombination, and repair]; Region: RecQ; COG0514 667015007814 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 667015007815 ATP binding site [chemical binding]; other site 667015007816 putative Mg++ binding site [ion binding]; other site 667015007817 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 667015007818 nucleotide binding region [chemical binding]; other site 667015007819 ATP-binding site [chemical binding]; other site 667015007820 RQC domain; Region: RQC; pfam09382 667015007821 HRDC domain; Region: HRDC; pfam00570 667015007822 Protein of unknown function (DUF3843); Region: DUF3843; pfam12954 667015007823 Domain of unknown function (DUF4251); Region: DUF4251; pfam14059 667015007824 Transcriptional regulators [Transcription]; Region: MarR; COG1846 667015007825 Winged helix DNA-binding domain; Region: HTH_34; pfam13601 667015007826 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 667015007827 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 667015007828 Uncharacterized protein conserved in bacteria (DUF2141); Region: DUF2141; cl01930 667015007829 D-mannonate oxidoreductase; Provisional; Region: PRK08277 667015007830 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 667015007831 NAD(P) binding site [chemical binding]; other site 667015007832 active site 667015007833 Fe2+/Zn2+ uptake regulation proteins [Inorganic ion transport and metabolism]; Region: Fur; COG0735 667015007834 metal binding site 2 [ion binding]; metal-binding site 667015007835 putative DNA binding helix; other site 667015007836 metal binding site 1 [ion binding]; metal-binding site 667015007837 dimer interface [polypeptide binding]; other site 667015007838 structural Zn2+ binding site [ion binding]; other site 667015007839 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 667015007840 Predicted methyltransferases [General function prediction only]; Region: COG0313 667015007841 Ribosomal RNA small subunit methyltransferase I, also known as rRNA (cytidine-2'-O-)-methyltransferase RsmI; Region: RsmI; cd11648 667015007842 putative SAM binding site [chemical binding]; other site 667015007843 putative homodimer interface [polypeptide binding]; other site 667015007844 Trehalose and maltose hydrolases (possible phosphorylases) [Carbohydrate transport and metabolism]; Region: ATH1; COG1554 667015007845 Glycosyl hydrolase family 65, N-terminal domain; Region: Glyco_hydro_65N; pfam03636 667015007846 Glycosyl hydrolase family 65 central catalytic domain; Region: Glyco_hydro_65m; pfam03632 667015007847 Abi-like protein; Region: Abi_2; pfam07751 667015007848 Domain of unknown function, B. Theta Gene description (DUF3871); Region: DUF3871; pfam12987 667015007849 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 667015007850 Protein of unknown function (DUF1071); Region: DUF1071; pfam06378 667015007851 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 667015007852 multiple promoter invertase; Provisional; Region: mpi; PRK13413 667015007853 catalytic residues [active] 667015007854 catalytic nucleophile [active] 667015007855 Presynaptic Site I dimer interface [polypeptide binding]; other site 667015007856 Synaptic Antiparallel dimer interface [polypeptide binding]; other site 667015007857 Synaptic Flat tetramer interface [polypeptide binding]; other site 667015007858 Synaptic Site I dimer interface [polypeptide binding]; other site 667015007859 DNA binding site [nucleotide binding] 667015007860 Homeodomain-like domain; Region: HTH_23; pfam13384 667015007861 LPP20 lipoprotein; Region: LPP20; pfam02169 667015007862 VirE N-terminal domain; Region: VirE_N; pfam08800 667015007863 Phage protein Gp37/Gp68; Region: Gp37_Gp68; pfam07505 667015007864 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 667015007865 active site 667015007866 DNA binding site [nucleotide binding] 667015007867 Int/Topo IB signature motif; other site 667015007868 thymidine kinase; Provisional; Region: PRK04296 667015007869 Tn4399 and related integrases, DNA breaking-rejoining enzymes, integrase/recombinases, N- and C-terminal domains. This CD includes various bacterial integrases, including cLV25, a Bacteroides fragilis chromosomal transfer factor integrase similar to the...; Region: INT_Tn4399; cd01185 667015007870 Int/Topo IB signature motif; other site 667015007871 Domain of unknown function (DUF4313); Region: DUF4313; pfam14190 667015007872 Domain of unknown function (DUF4120); Region: DUF4120; pfam13496 667015007873 DNA polymerase V subunit UmuC; Reviewed; Region: umuC; PRK03609 667015007874 umuC subunit of DNA Polymerase V; Region: PolY_Pol_V_umuC; cd01700 667015007875 active site 667015007876 DNA binding site [nucleotide binding] 667015007877 Domain of unknown function (DUF4113); Region: DUF4113; pfam13438 667015007878 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 667015007879 Catalytic site [active] 667015007880 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 667015007881 IHF dimer interface [polypeptide binding]; other site 667015007882 IHF - DNA interface [nucleotide binding]; other site 667015007883 Domain of unknown function (DUF4121); Region: DUF4121; pfam13497 667015007884 Type I restriction-modification system methyltransferase subunit [Defense mechanisms]; Region: HsdM; COG0286 667015007885 23S rRNA m(2)G2445 methyltransferase; Provisional; Region: rlmL; PRK11783 667015007886 Transposase zinc-ribbon domain; Region: Zn_Tnp_IS1595; pfam12760 667015007887 ISXO2-like transposase domain; Region: DDE_Tnp_IS1595; pfam12762 667015007888 Phage derived protein Gp49-like (DUF891); Region: Gp49; pfam05973 667015007889 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 667015007890 non-specific DNA binding site [nucleotide binding]; other site 667015007891 salt bridge; other site 667015007892 sequence-specific DNA binding site [nucleotide binding]; other site 667015007893 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 667015007894 catalytic residue [active] 667015007895 Domain of unknown function, B. Theta Gene description (DUF3872); Region: DUF3872; pfam12988 667015007896 CHC2 zinc finger; Region: zf-CHC2; cl17510 667015007897 Toprim-like; Region: Toprim_2; pfam13155 667015007898 Conjugative transposon protein TraO; Region: TraO; pfam10626 667015007899 Bacteroides conjugative transposon TraN protein; Region: Bac_Flav_CT_N; TIGR03780 667015007900 Domain of unknown function (DUF4138); Region: DUF4138; pfam13595 667015007901 Bacteroides conjugative transposon TraM protein; Region: Bac_Flav_CT_M; TIGR03779 667015007902 Protein of unknown function (DUF3714); Region: DUF3714; pfam12508 667015007903 Protein of unknown function (DUF3989); Region: DUF3989; pfam13150 667015007904 Bacteroides conjugative transposon TraK protein; Region: Bac_Flav_CT_K; TIGR03781 667015007905 Bacteroides conjugative transposon TraJ protein; Region: Bac_Flav_CT_J; TIGR03782 667015007906 Domain of unknown function (DUF4141); Region: DUF4141; pfam13605 667015007907 Domain of unknown function, B. Theta Gene description (DUF3876); Region: DUF3876; pfam12992 667015007908 Bacteroides conjugation system ATPase, TraG family; Region: Bac_Flav_CT_G; TIGR03783 667015007909 Domain of unknown function, B. Theta Gene description (DUF3875); Region: DUF3875; pfam12991 667015007910 Domain of unknown function (DUF4133); Region: DUF4133; pfam13571 667015007911 Domain of unknown function (DUF4134); Region: DUF4134; pfam13572 667015007912 Domain of unknown function (DUF4122); Region: DUF4122; pfam13498 667015007913 Protein of unknown function (DUF3408); Region: DUF3408; pfam11888 667015007914 Protein of unknown function (DUF3408); Region: DUF3408; pfam11888 667015007915 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 667015007916 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 667015007917 P-loop; other site 667015007918 Magnesium ion binding site [ion binding]; other site 667015007919 Relaxase/Mobilisation nuclease domain; Region: Relaxase; pfam03432 667015007920 YWFCY protein; Region: YWFCY; pfam14293 667015007921 AAA-like domain; Region: AAA_10; pfam12846 667015007922 TraM recognition site of TraD and TraG; Region: TraG-D_C; cl17375 667015007923 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 667015007924 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 667015007925 active site 667015007926 phosphorylation site [posttranslational modification] 667015007927 intermolecular recognition site; other site 667015007928 dimerization interface [polypeptide binding]; other site 667015007929 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 667015007930 Walker A motif; other site 667015007931 ATP binding site [chemical binding]; other site 667015007932 Walker B motif; other site 667015007933 arginine finger; other site 667015007934 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 667015007935 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 667015007936 dimer interface [polypeptide binding]; other site 667015007937 phosphorylation site [posttranslational modification] 667015007938 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 667015007939 ATP binding site [chemical binding]; other site 667015007940 Mg2+ binding site [ion binding]; other site 667015007941 G-X-G motif; other site 667015007942 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 667015007943 active site 667015007944 phosphorylation site [posttranslational modification] 667015007945 intermolecular recognition site; other site 667015007946 dimerization interface [polypeptide binding]; other site 667015007947 Phosphofructokinase, a key regulatory enzyme in glycolysis, catalyzes the phosphorylation of fructose-6-phosphate to fructose-1,6-biphosphate. The members belong to PFK family that includes ATP- and pyrophosphate (PPi)- dependent phosphofructokinases; Region: PFK; cl00204 667015007948 Domain of unknown function (DUF4303); Region: DUF4303; pfam14136 667015007949 Protein of unknown function (DUF3997); Region: DUF3997; pfam13162 667015007950 Domain of unknown function (DUF4274); Region: DUF4274; pfam14096 667015007951 SUKH-3 immunity protein; Region: SUKH-3; pfam14433 667015007952 Domain of unknown function (DUF4274); Region: DUF4274; pfam14096 667015007953 Domain of unknown function (DUF4274); Region: DUF4274; pfam14096 667015007954 SMI1 / KNR4 family (SUKH-1); Region: SMI1_KNR4; pfam09346 667015007955 Site-specific recombinase XerD [DNA replication, recombination, and repair]; Region: XerD; COG4974 667015007956 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 667015007957 active site 667015007958 DNA binding site [nucleotide binding] 667015007959 Int/Topo IB signature motif; other site 667015007960 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 667015007961 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 667015007962 Domain of unknown function (DUF4274); Region: DUF4274; pfam14096 667015007963 Domain of unknown function (DUF1910); Region: DUF1910; pfam08928 667015007964 Domain of unknown function (DUF1911); Region: DUF1911; pfam08929 667015007965 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 667015007966 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 667015007967 Predicted ATPase (AAA+ superfamily) [General function prediction only]; Region: COG1373 667015007968 AAA domain; Region: AAA_14; pfam13173 667015007969 Predicted ATPase (AAA+ superfamily) [General function prediction only]; Region: COG1373 667015007970 AAA domain; Region: AAA_14; pfam13173 667015007971 SMI1 / KNR4 family (SUKH-1); Region: SMI1_KNR4; pfam09346 667015007972 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 667015007973 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 667015007974 Formate/glycerate dehydrogenases, D-specific 2-hydroxy acid dehydrogenases and related dehydrogenases; Region: FDH_GDH_like; cl17240 667015007975 acyl-activating enzyme; Provisional; Region: PLN03102 667015007976 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 667015007977 binding surface 667015007978 TPR motif; other site 667015007979 Tetratricopeptide repeat; Region: TPR_16; pfam13432 667015007980 Protein of unknown function (DUF2004); Region: DUF2004; pfam09406 667015007981 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 667015007982 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 667015007983 Immunity protein Imm5; Region: Imm5; pfam14423 667015007984 Domain of unknown function (DUF4284); Region: DUF4284; pfam14112 667015007985 Immunity protein Imm5; Region: Imm5; pfam14423 667015007986 SUKH-3 immunity protein; Region: SUKH-3; pfam14433 667015007987 radical SAM family uncharacterized protein; Region: rSAM_fuse_unch; TIGR03960 667015007988 WGR domain of molybdate metabolism regulator and related proteins; Region: WGR_MMR_like; cd07996 667015007989 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4884 667015007990 Domain of unknown function (DUF1910); Region: DUF1910; pfam08928 667015007991 Domain of unknown function (DUF1911); Region: DUF1911; pfam08929 667015007992 radical SAM family uncharacterized protein; Region: rSAM_fuse_unch; TIGR03960 667015007993 Protein of unknown function (DUF4099); Region: DUF4099; pfam13351 667015007994 Protein of unknown function (DUF3945); Region: DUF3945; pfam13101 667015007995 Protein of unknown function (DUF3945); Region: DUF3945; pfam13101 667015007996 Protein of unknown function (DUF3945); Region: DUF3945; pfam13101 667015007997 Protein of unknown function (DUF4099); Region: DUF4099; pfam13351 667015007998 DNA topoisomerase III; Provisional; Region: PRK07726 667015007999 TOPRIM_TopoIA_TopoIII: The topoisomerase-primase (TORPIM) domain found in members of the type IA family of DNA topoisomerases (Topo IA) similar to topoisomerase III. Type IA DNA topoisomerases remove (relax) negative supercoils in the DNA by: cleaving...; Region: TOPRIM_TopoIA_TopoIII; cd03362 667015008000 active site 667015008001 putative interdomain interaction site [polypeptide binding]; other site 667015008002 putative metal-binding site [ion binding]; other site 667015008003 putative nucleotide binding site [chemical binding]; other site 667015008004 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 667015008005 domain I; other site 667015008006 DNA binding groove [nucleotide binding] 667015008007 phosphate binding site [ion binding]; other site 667015008008 domain II; other site 667015008009 domain III; other site 667015008010 nucleotide binding site [chemical binding]; other site 667015008011 catalytic site [active] 667015008012 domain IV; other site 667015008013 PRTRC system protein E; Region: PRTRC_E; TIGR03741 667015008014 Prokaryotic Ubiquitin; Region: Prok_Ub; cl14020 667015008015 Prokaryotic E2 family D; Region: Prok-E2_D; cl14019 667015008016 PRTRC system ThiF family protein; Region: PRTRC_ThiF; TIGR03736 667015008017 Superfamily of activating enzymes (E1) of the ubiquitin-like proteins. This family includes classical ubiquitin-activating enzymes E1, ubiquitin-like (ubl) activating enzymes and other mechanistic homologes, like MoeB, Thif1 and others. The common...; Region: E1_enzyme_family; cd01483 667015008018 ATP binding site [chemical binding]; other site 667015008019 substrate interface [chemical binding]; other site 667015008020 Helix-turn-helix domain; Region: HTH_17; pfam12728 667015008021 Helix-turn-helix domain; Region: HTH_17; pfam12728 667015008022 Phosphoenolpyruvate carboxylase; Region: PEPcase; cl17418 667015008023 Helix-turn-helix domain; Region: HTH_17; pfam12728 667015008024 Queuosine biosynthesis protein; Region: Queuosine_synth; pfam02547 667015008025 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Region: queA; TIGR00113 667015008026 Protein of unknown function (DUF3575); Region: DUF3575; pfam12099 667015008027 Domain of unknown function, B. Theta Gene description (DUF3868); Region: DUF3868; pfam12984 667015008028 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cl02931 667015008029 ligand binding site [chemical binding]; other site 667015008030 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 667015008031 TPR motif; other site 667015008032 Tetratricopeptide repeat; Region: TPR_12; pfam13424 667015008033 binding surface 667015008034 Major fimbrial subunit protein (FimA); Region: P_gingi_FimA; pfam06321 667015008035 Fimbrillin-A associated anchor proteins Mfa1 and Mfa2; Region: Mfa2; pfam08842 667015008036 AAA domain; Region: AAA_22; pfam13401 667015008037 AAA domain; Region: AAA_14; pfam13173 667015008038 Domain of unknown function (DUF4143); Region: DUF4143; pfam13635 667015008039 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 667015008040 AsmA-like C-terminal region; Region: AsmA_2; pfam13502 667015008041 Domain of unknown function (DUF2027); Region: DUF2027; pfam09640 667015008042 Smr domain; Region: Smr; pfam01713 667015008043 MG2 domain; Region: A2M_N; pfam01835 667015008044 Alpha-2-macroglobulin family; Region: A2M; pfam00207 667015008045 Protein of unknown function (DUF1573); Region: DUF1573; pfam07610 667015008046 Protein of unknown function (DUF1573); Region: DUF1573; pfam07610 667015008047 membrane ATPase/protein kinase; Provisional; Region: PRK09435 667015008048 The function of this protein family is unkown. The protein sequences are similar to the ArgK protein in E. coli. ArgK protein is a membrane ATPase which is required for transporting arginine, ornithine and lysine into the cells by the arginine and...; Region: ArgK-like; cd03114 667015008049 Walker A; other site 667015008050 Membrane transporters of cations and cationic drugs [Inorganic ion transport and metabolism]; Region: EmrE; COG2076 667015008051 Protein of unknown function (DUF541); Region: SIMPL; pfam04402 667015008052 Uncharacterized homolog of gamma-carboxymuconolactone decarboxylase subunit [Function unknown]; Region: COG0599 667015008053 Uncharacterized conserved protein, contains double-stranded beta-helix domain [Function unknown]; Region: COG1917 667015008054 Protein of unknown function (DUF3737); Region: DUF3737; pfam12541 667015008055 3-oxoacyl-(acyl-carrier-protein) synthase [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: FabB; COG0304 667015008056 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 667015008057 dimer interface [polypeptide binding]; other site 667015008058 active site 667015008059 Phosphopantetheine attachment site; Region: PP-binding; cl09936 667015008060 FabA/Z, beta-hydroxyacyl-acyl carrier protein (ACP)-dehydratases: One of several distinct enzyme types of the dissociative, type II, fatty acid synthase system (found in bacteria and plants) required to complete successive cycles of fatty acid elongation; Region: FabA_FabZ; cd00493 667015008061 active site 2 [active] 667015008062 dimer interface [polypeptide binding]; other site 667015008063 active site 1 [active] 667015008064 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 667015008065 active site 1 [active] 667015008066 Flavin containing amine oxidoreductase; Region: Amino_oxidase; pfam01593 667015008067 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 667015008068 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 667015008069 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 667015008070 NAD(P) binding site [chemical binding]; other site 667015008071 homotetramer interface [polypeptide binding]; other site 667015008072 homodimer interface [polypeptide binding]; other site 667015008073 active site 667015008074 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; pfam01066 667015008075 Cna protein B-type domain; Region: Cna_B_2; pfam13715 667015008076 Transglycosylase; Region: Transgly; pfam00912 667015008077 aspartate aminotransferase; Provisional; Region: PRK05764 667015008078 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 667015008079 pyridoxal 5'-phosphate binding site [chemical binding]; other site 667015008080 homodimer interface [polypeptide binding]; other site 667015008081 catalytic residue [active] 667015008082 Integral membrane protein, interacts with FtsH [General function prediction only]; Region: COG0670 667015008083 Bacterial BAX inhibitor (BI)-1/YccA-like proteins; Region: BI-1-like_bacterial; cd10432 667015008084 bifunctional 3,4-dihydroxy-2-butanone 4-phosphate synthase/GTP cyclohydrolase II protein; Provisional; Region: PRK09311 667015008085 3,4-dihydroxy-2-butanone 4-phosphate synthase; Region: DHBP_synthase; pfam00926 667015008086 GTP cyclohydrolase II (RibA). GTP cyclohydrolase II catalyzes the conversion of GTP to 2,5-diamino-6-ribosylamino-4(3H)-pyrimidinone 5' phosphate, formate, pyrophosphate (APy), and GMP in the biosynthetic pathway of riboflavin. Riboflavin is the...; Region: GTP_cyclohydro2; cd00641 667015008087 dimerization interface [polypeptide binding]; other site 667015008088 active site 667015008089 Predicted permeases [General function prediction only]; Region: COG0795; cl12074 667015008090 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 667015008091 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 667015008092 Nitrous oxide-stimulated promoter; Region: YgbA_NO; cl08119 667015008093 6-phosphofructokinase; Provisional; Region: PRK03202 667015008094 6-phosphofructokinase; Region: PFKA_ATP; TIGR02482 667015008095 active site 667015008096 ADP/pyrophosphate binding site [chemical binding]; other site 667015008097 dimerization interface [polypeptide binding]; other site 667015008098 allosteric effector site; other site 667015008099 fructose-1,6-bisphosphate binding site; other site 667015008100 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 667015008101 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 667015008102 motif II; other site 667015008103 Uncharacterized protein family (UPF0150); Region: UPF0150; pfam03681 667015008104 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 667015008105 Escherichia coli YbbF/LpxH and related proteins, metallophosphatase domain; Region: MPP_YbbF-LpxH; cd07398 667015008106 putative active site [active] 667015008107 putative metal binding site [ion binding]; other site 667015008108 Glycosyl transferase family 1; Region: Glyco_trans_1_3; pfam13528 667015008109 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 667015008110 polyphosphate kinase; Provisional; Region: PRK05443 667015008111 Polyphosphate kinase N-terminal domain; Region: PP_kinase_N; pfam13089 667015008112 Polyphosphate kinase middle domain; Region: PP_kinase; pfam02503 667015008113 Catalytic C-terminal domain, first repeat, of Escherichia coli polyphosphate kinase 1 and similar proteins; Region: PLDc_EcPPK1_C1_like; cd09164 667015008114 domain interface [polypeptide binding]; other site 667015008115 active site 667015008116 catalytic site [active] 667015008117 Catalytic C-terminal domain, second repeat, of Escherichia coli polyphosphate kinase 1 and similar proteins; Region: PLDc_EcPPK1_C2_like; cd09167 667015008118 domain interface [polypeptide binding]; other site 667015008119 active site 667015008120 catalytic site [active] 667015008121 exopolyphosphatase; Region: exo_poly_only; TIGR03706 667015008122 Ppx/GppA phosphatase family; Region: Ppx-GppA; pfam02541 667015008123 BlaR1 peptidase M56; Region: Peptidase_M56; pfam05569 667015008124 Gram-negative bacterial tonB protein; Region: TonB; pfam03544 667015008125 TonB-dependent outer membrane receptor, SusC/RagA subfamily, signature region; Region: SusC_RagA_signa; TIGR04057 667015008126 Penicillinase repressor; Region: Pencillinase_R; pfam03965 667015008127 Endopygalactorunase [Cell envelope biogenesis, outer membrane]; Region: PGU1; COG5434 667015008128 Probable polygalacturonase At3g15720; Region: PLN03003; cl14103 667015008129 Predicted Fe-S oxidoreductase [General function prediction only]; Region: COG1242 667015008130 Radical SAM superfamily. Enzymes of this family generate radicals by combining a 4Fe-4S cluster and S-adenosylmethionine (SAM) in close proximity. They are characterized by a conserved CxxxCxxC motif, which coordinates the conserved iron-sulfur cluster; Region: Radical_SAM; cl15377 667015008131 FeS/SAM binding site; other site 667015008132 Uncharacterized flavoproteins [Energy production and conversion]; Region: FpaA; COG0426 667015008133 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 667015008134 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 667015008135 Telomere recombination; Region: Sua5_yciO_yrdC; cl00305 667015008136 Mechanosensitive ion channel; Region: MS_channel; pfam00924 667015008137 Glycosyl hydrolases family 2, sugar binding domain; Region: Glyco_hydro_2_N; pfam02837 667015008138 Glycosyl hydrolases family 2; Region: Glyco_hydro_2; pfam00703 667015008139 Glycosyl hydrolases family 2, TIM barrel domain; Region: Glyco_hydro_2_C; pfam02836 667015008140 Glycosyl hydrolases family 35; Region: Glyco_hydro_35; pfam01301 667015008141 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 667015008142 TPR motif; other site 667015008143 binding surface 667015008144 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 667015008145 binding surface 667015008146 TPR motif; other site 667015008147 TPR repeat; Region: TPR_11; pfam13414 667015008148 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 667015008149 binding surface 667015008150 TPR motif; other site 667015008151 Tetratricopeptide repeat; Region: TPR_12; pfam13424 667015008152 D-xylose transporter XylE; Provisional; Region: xylE; PRK10077 667015008153 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 667015008154 putative substrate translocation pore; other site 667015008155 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 667015008156 DDE_Tnp_1-associated; Region: DDE_Tnp_1_assoc; pfam13808 667015008157 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 667015008158 Transposase [DNA replication, recombination, and repair]; Region: COG5433 667015008159 DDE_Tnp_1-associated; Region: DDE_Tnp_1_assoc; cl17880 667015008160 Domain of unknown function (DUF4377); Region: DUF4377; pfam14302 667015008161 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 667015008162 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 667015008163 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 667015008164 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 667015008165 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 667015008166 dTDP-D-glucose 4,6-dehydratase [Cell envelope biogenesis, outer membrane]; Region: RfbB; COG1088 667015008167 dTDP-D-glucose 4,6-dehydratase, extended (e) SDRs; Region: dTDP_GD_SDR_e; cd05246 667015008168 NAD binding site [chemical binding]; other site 667015008169 substrate binding site [chemical binding]; other site 667015008170 homodimer interface [polypeptide binding]; other site 667015008171 active site 667015008172 Escherichia coli YfcE and related proteins, metallophosphatase domain; Region: MPP_YfcE; cd00841 667015008173 active site 667015008174 metal binding site [ion binding]; metal-binding site 667015008175 homotetramer interface [polypeptide binding]; other site 667015008176 Cytidylate kinase-like family; Region: Cytidylate_kin2; pfam13189 667015008177 Nucleoside/nucleotide kinase (NK) is a protein superfamily consisting of multiple families of enzymes that share structural similarity and are functionally related to the catalysis of the reversible phosphate group transfer from nucleoside triphosphates...; Region: NK; cl17190 667015008178 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Streptococcus aureus MepA; Region: MATE_MepA_like; cd13143 667015008179 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 667015008180 exodeoxyribonuclease VII large subunit; Reviewed; Region: xseA; PRK00286 667015008181 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 667015008182 generic binding surface II; other site 667015008183 generic binding surface I; other site 667015008184 Dehydroquinate synthase-like (DHQ-like) and iron-containing alcohol dehydrogenases (Fe-ADH); Region: DHQ_Fe-ADH; cl02872 667015008185 Exonuclease VII small subunit; Region: Exonuc_VII_S; pfam02609 667015008186 branched-chain amino acid aminotransferase; Provisional; Region: PRK13357 667015008187 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 667015008188 homodimer interface [polypeptide binding]; other site 667015008189 substrate-cofactor binding pocket; other site 667015008190 catalytic residue [active] 667015008191 Protein of unknown function (DUF975); Region: DUF975; cl10504 667015008192 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 667015008193 S-adenosylmethionine binding site [chemical binding]; other site 667015008194 Domain of unknown function DUF59; Region: DUF59; pfam01883 667015008195 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 667015008196 Conserved protein/domain typically associated with flavoprotein oxygenases, DIM6/NTAB family [General function prediction only]; Region: COG1853 667015008197 Uncharacterized protein related to the periplasmic component of the Tol biopolymer transport system [Function unknown]; Region: COG4946 667015008198 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 667015008199 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 667015008200 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 667015008201 Periplasmic protease [Cell envelope biogenesis, outer membrane]; Region: Prc; COG0793 667015008202 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 667015008203 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 667015008204 protein binding site [polypeptide binding]; other site 667015008205 Tricorn protease; serine protease family S41; Region: Peptidase_S41_TRI; cd07562 667015008206 Domain interface; other site 667015008207 Peptide binding site; other site 667015008208 Active site tetrad [active] 667015008209 Transposase domain (DUF772); Region: DUF772; pfam05598 667015008210 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 667015008211 Glycosyl hydrolase family 43; Region: GH43_2; cd08981 667015008212 active site 667015008213 Glycosyl hydrolase families: GH43, GH62, GH32, GH68; Region: GH43_62_32_68; cl14647 667015008214 active site 667015008215 aspartate-semialdehyde dehydrogenase; Provisional; Region: PRK14874 667015008216 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 667015008217 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; COG0475 667015008218 Sodium/hydrogen exchanger family; Region: Na_H_Exchanger; pfam00999 667015008219 The C-terminal domain of a subfamily of Na+ /H+ antiporter existed in bacteria and archea . Na+/H+ exchange proteins eject protons from cells, effectively eliminating excess acid from actively metabolising cells. Na+ /H+ exchange activity is also crucial...; Region: Na_H_Antiporter_C; cd01988 667015008220 Ligand Binding Site [chemical binding]; other site 667015008221 Dinucleotide-utilizing enzymes involved in molybdopterin and thiamine biosynthesis family 1 [Coenzyme metabolism]; Region: COG1179 667015008222 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 667015008223 putative ATP binding site [chemical binding]; other site 667015008224 putative substrate interface [chemical binding]; other site 667015008225 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 667015008226 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 667015008227 Walker A/P-loop; other site 667015008228 ATP binding site [chemical binding]; other site 667015008229 Q-loop/lid; other site 667015008230 ABC transporter signature motif; other site 667015008231 Walker B; other site 667015008232 D-loop; other site 667015008233 H-loop/switch region; other site 667015008234 Pyrimidine reductase, riboflavin biosynthesis [Coenzyme metabolism]; Region: RibD; COG1985 667015008235 RibD C-terminal domain; Region: RibD_C; cl17279 667015008236 Exonuclease-Endonuclease-Phosphatase domain; uncharacterized family 1; Region: EEP-1; cd09083 667015008237 putative catalytic site [active] 667015008238 putative metal binding site [ion binding]; other site 667015008239 putative phosphate binding site [ion binding]; other site 667015008240 Predicted RNA-bindining protein (contains S1 and HTH domains) [General function prediction only]; Region: COG2996 667015008241 S1 domain; Region: S1_2; pfam13509 667015008242 6-phosphofructokinase; Provisional; Region: PRK03202 667015008243 6-phosphofructokinase; Region: PFKA_ATP; TIGR02482 667015008244 active site 667015008245 ADP/pyrophosphate binding site [chemical binding]; other site 667015008246 dimerization interface [polypeptide binding]; other site 667015008247 allosteric effector site; other site 667015008248 fructose-1,6-bisphosphate binding site; other site 667015008249 LytB protein; Region: LYTB; cl00507 667015008250 4-hydroxy-3-methylbut-2-enyl diphosphate reductase; Reviewed; Region: ispH; PRK01045 667015008251 cytidylate kinase; Provisional; Region: cmk; PRK00023 667015008252 Nucleoside/nucleotide kinase (NK) is a protein superfamily consisting of multiple families of enzymes that share structural similarity and are functionally related to the catalysis of the reversible phosphate group transfer from nucleoside triphosphates...; Region: NK; cl17190 667015008253 active site 667015008254 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 667015008255 CMP-binding site; other site 667015008256 The sites determining sugar specificity; other site 667015008257 Periplasmic protein TonB, links inner and outer membranes [Cell envelope biogenesis, outer membrane]; Region: TonB; COG0810 667015008258 Gram-negative bacterial tonB protein; Region: TonB; pfam03544 667015008259 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 667015008260 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 667015008261 substrate binding pocket [chemical binding]; other site 667015008262 chain length determination region; other site 667015008263 substrate-Mg2+ binding site; other site 667015008264 catalytic residues [active] 667015008265 aspartate-rich region 1; other site 667015008266 active site lid residues [active] 667015008267 aspartate-rich region 2; other site 667015008268 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 667015008269 active site 667015008270 Biopolymer transport proteins [Intracellular trafficking and secretion]; Region: TolQ; COG0811 667015008271 Biopolymer transport protein ExbD/TolR; Region: ExbD; pfam02472 667015008272 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 667015008273 Biopolymer transport protein ExbD/TolR; Region: ExbD; pfam02472 667015008274 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 667015008275 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 667015008276 Coenzyme A binding pocket [chemical binding]; other site 667015008277 IgA Peptidase M64; Region: Peptidase_M64; pfam09471 667015008278 DNA-binding transcriptional regulator AsnC; Provisional; Region: PRK11179 667015008279 AsnC-type helix-turn-helix domain; Region: HTH_AsnC-type; pfam13404 667015008280 putative DNA binding site [nucleotide binding]; other site 667015008281 putative Zn2+ binding site [ion binding]; other site 667015008282 AsnC family; Region: AsnC_trans_reg; pfam01037 667015008283 Phosphatidylserine synthase [Lipid metabolism]; Region: PssA; COG1183 667015008284 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; pfam01066 667015008285 phosphatidylserine decarboxylase; Provisional; Region: PRK05305 667015008286 DNA polymerase III subunit alpha; Validated; Region: dnaE; PRK05673 667015008287 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III DnaE3; Region: PHP_PolIIIA_DnaE3; cd12113 667015008288 active site 667015008289 PHP Thumb interface [polypeptide binding]; other site 667015008290 metal binding site [ion binding]; metal-binding site 667015008291 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 667015008292 generic binding surface II; other site 667015008293 generic binding surface I; other site 667015008294 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 667015008295 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 667015008296 catalytic residues [active] 667015008297 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; pfam13505 667015008298 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 667015008299 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 667015008300 Predicted ATPase or kinase [General function prediction only]; Region: COG0802 667015008301 ABC-type Mn2+/Zn2+ transport systems, permease components [Inorganic ion transport and metabolism]; Region: ZnuB; COG1108 667015008302 Transmembrane subunit (TM), of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters involved in the uptake of siderophores, heme, vitamin B12, or the divalent cations Mg2+ and Zn2+. PBP-dependent ABC transporters consist of...; Region: TM_ABC_iron-siderophores_like; cd06550 667015008303 ABC-ATPase subunit interface; other site 667015008304 dimer interface [polypeptide binding]; other site 667015008305 putative PBP binding regions; other site 667015008306 3-phosphoshikimate 1-carboxyvinyltransferase; Provisional; Region: PRK02427 667015008307 EPSP synthase domain. 3-phosphoshikimate 1-carboxyvinyltransferase (5-enolpyruvylshikimate-3-phosphate synthase) (EC 2.5.1.19) catalyses the reaction between shikimate-3-phosphate (S3P) and phosphoenolpyruvate (PEP) to form...; Region: EPSP_synthase; cd01556 667015008308 hinge; other site 667015008309 active site 667015008310 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 667015008311 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 667015008312 active site 667015008313 catalytic tetrad [active] 667015008314 Uncharacterized iron-regulated membrane protein [Function unknown]; Region: PiuB; COG3182 667015008315 PepSY-associated TM helix; Region: PepSY_TM_2; pfam13703 667015008316 Domain of unknown function (DUF4374); Region: DUF4374; pfam14298 667015008317 Cna protein B-type domain; Region: Cna_B_2; pfam13715 667015008318 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 667015008319 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 667015008320 rRNA large subunit methyltransferase; Provisional; Region: PRK00103 667015008321 Nicotinate-nucleotide pyrophosphorylase [Coenzyme metabolism]; Region: NadC; COG0157 667015008322 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 667015008323 dimerization interface [polypeptide binding]; other site 667015008324 active site 667015008325 Protein of unknown function (DUF1016); Region: DUF1016; pfam06250 667015008326 Protein of unknown function (DUF2971); Region: DUF2971; pfam11185 667015008327 Eco57I restriction-modification methylase; Region: Eco57I; pfam07669 667015008328 TaqI-like C-terminal specificity domain; Region: TaqI_C; pfam12950 667015008329 N-terminal putative catalytic domain of uncharacterized HKD family nucleases fused to putative helicases from the Snf2-like family; Region: PLDc_N_Snf2_like; cd09178 667015008330 PLD-like domain; Region: PLDc_2; pfam13091 667015008331 putative homodimer interface [polypeptide binding]; other site 667015008332 putative active site [active] 667015008333 catalytic site [active] 667015008334 DEAD-like helicases superfamily; Region: DEXDc; smart00487 667015008335 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 667015008336 ATP binding site [chemical binding]; other site 667015008337 Superfamily II DNA/RNA helicases, SNF2 family [Transcription / DNA replication, recombination, and repair]; Region: HepA; COG0553 667015008338 putative Mg++ binding site [ion binding]; other site 667015008339 Superfamily II DNA and RNA helicases [DNA replication, recombination, and repair / Transcription / Translation, ribosomal structure and biogenesis]; Region: SrmB; COG0513 667015008340 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 667015008341 nucleotide binding region [chemical binding]; other site 667015008342 ATP-binding site [chemical binding]; other site 667015008343 Virulence protein RhuM family; Region: Virulence_RhuM; pfam13310 667015008344 Fic/DOC family; Region: Fic; pfam02661 667015008345 PIF1-like helicase; Region: PIF1; pfam05970 667015008346 AAA domain; Region: AAA_30; pfam13604 667015008347 Family description; Region: UvrD_C_2; pfam13538 667015008348 TPR repeat; Region: TPR_11; pfam13414 667015008349 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 667015008350 binding surface 667015008351 TPR motif; other site 667015008352 TPR repeat; Region: TPR_11; pfam13414 667015008353 TPR repeat; Region: TPR_11; pfam13414 667015008354 Predicted membrane protein [Function unknown]; Region: COG2364 667015008355 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 667015008356 Cytidylate kinase-like family; Region: Cytidylate_kin2; pfam13189 667015008357 Predicted Zn-dependent hydrolases of the beta-lactamase fold [General function prediction only]; Region: COG2220 667015008358 Beta-lactamase superfamily domain; Region: Lactamase_B_2; pfam12706 667015008359 Cupin domain; Region: Cupin_2; pfam07883 667015008360 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 667015008361 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 667015008362 tRNA delta(2)-isopentenylpyrophosphate transferase [Translation, ribosomal structure and biogenesis]; Region: MiaA; COG0324 667015008363 tRNA delta(2)-isopentenylpyrophosphate transferase; Reviewed; Region: miaA; PRK00091 667015008364 Plasmid pRiA4b ORF-3-like protein; Region: PRiA4_ORF3; pfam07929 667015008365 UDP-N-acetylglucosamine acyltransferase; Provisional; Region: PRK05289 667015008366 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 667015008367 active site 667015008368 bifunctional UDP-3-O-[3-hydroxymyristoyl] N-acetylglucosamine deacetylase/(3R)-hydroxymyristoyl-[acyl-carrier-protein] dehydratase; Reviewed; Region: PRK13188 667015008369 UDP-3-O-acyl-N-acetylglucosamine deacetylase [Cell envelope biogenesis, outer membrane]; Region: LpxC; cl00512 667015008370 FabZ is a 17kD beta-hydroxyacyl-acyl carrier protein (ACP) dehydratase that primarily catalyzes the dehydration of beta-hydroxyacyl-ACP to trans-2-acyl-ACP, the third step in the elongation phase of the bacterial/ plastid, type II, fatty-acid...; Region: FabZ; cd01288 667015008371 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase; Provisional; Region: lpxD; PRK00892 667015008372 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase, LpxD; Region: LpxD; pfam04613 667015008373 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 667015008374 trimer interface [polypeptide binding]; other site 667015008375 active site 667015008376 UDP-GlcNAc binding site [chemical binding]; other site 667015008377 lipid binding site [chemical binding]; lipid-binding site 667015008378 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 667015008379 active site 667015008380 dimer interface [polypeptide binding]; other site 667015008381 Domain of unknown function (DUF4153); Region: DUF4153; pfam13687 667015008382 peptide chain release factor 1; Validated; Region: prfA; PRK00591 667015008383 This domain is found in peptide chain release factors; Region: PCRF; smart00937 667015008384 RF-1 domain; Region: RF-1; pfam00472 667015008385 Fic family protein [Function unknown]; Region: COG3177 667015008386 Fic/DOC family; Region: Fic; pfam02661 667015008387 phosphoribosylaminoimidazole synthetase; Region: purM; TIGR00878 667015008388 AIR (aminoimidazole ribonucleotide) synthase related protein. This family includes Hydrogen expression/formation protein HypE, AIR synthases, FGAM (formylglycinamidine ribonucleotide) synthase and Selenophosphate synthetase (SelD). The N-terminal domain...; Region: PurM-like; cl10019 667015008389 dimerization interface [polypeptide binding]; other site 667015008390 ATP binding site [chemical binding]; other site 667015008391 Uncharacterized BCR, COG1649; Region: DUF187; pfam02638 667015008392 Glycosyl Hydrolase Family 88; Region: Glyco_hydro_88; pfam07470 667015008393 Endopygalactorunase [Cell envelope biogenesis, outer membrane]; Region: PGU1; COG5434 667015008394 Probable polygalacturonase At3g15720; Region: PLN03003; cl14103 667015008395 N-terminal domain of glycoside hydrolase family 94 and related domains; Region: GH94N_like; cl17067 667015008396 Bacterial alpha-L-rhamnosidase; Region: Bac_rhamnosid; pfam05592 667015008397 Two component regulator propeller; Region: Reg_prop; pfam07494 667015008398 Predicted periplasmic ligand-binding sensor domain [Signal transduction mechanisms]; Region: COG3292 667015008399 Two component regulator propeller; Region: Reg_prop; pfam07494 667015008400 Y_Y_Y domain; Region: Y_Y_Y; pfam07495 667015008401 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 667015008402 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 667015008403 dimer interface [polypeptide binding]; other site 667015008404 phosphorylation site [posttranslational modification] 667015008405 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 667015008406 ATP binding site [chemical binding]; other site 667015008407 Mg2+ binding site [ion binding]; other site 667015008408 G-X-G motif; other site 667015008409 Response regulator receiver domain; Region: Response_reg; pfam00072 667015008410 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 667015008411 active site 667015008412 phosphorylation site [posttranslational modification] 667015008413 intermolecular recognition site; other site 667015008414 dimerization interface [polypeptide binding]; other site 667015008415 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 667015008416 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 667015008417 amidophosphoribosyltransferase; Region: purF; TIGR01134 667015008418 Glutamine amidotransferases class-II (GATase). The glutaminase domain catalyzes an amide nitrogen transfer from glutamine to the appropriate substrate. In this process, glutamine is hydrolyzed to glutamic acid and ammonia. This domain is related to...; Region: Gn_AT_II; cl00319 667015008419 active site 667015008420 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 667015008421 active site 667015008422 Surface antigen; Region: Bac_surface_Ag; pfam01103 667015008423 peptidase T; Region: peptidase-T; TIGR01882 667015008424 M20 Peptidase T specifically cleaves tripeptides; Region: M20_peptT; cd03892 667015008425 metal binding site [ion binding]; metal-binding site 667015008426 dimer interface [polypeptide binding]; other site 667015008427 glycine cleavage system aminomethyltransferase T; Reviewed; Region: gcvT; PRK00389 667015008428 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 667015008429 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 667015008430 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 667015008431 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Thermotoga marina NorM; Region: MATE_NorM_like; cd13137 667015008432 Cytotoxic translational repressor of toxin-antitoxin stability system [Translation, ribosomal structure and biogenesis / Cell division and chromosome partitioning]; Region: RelE; COG2026 667015008433 TIGR02646 family protein; Region: TIGR02646 667015008434 Predicted ATP-binding protein involved in virulence [General function prediction only]; Region: COG3950 667015008435 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 667015008436 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 667015008437 non-specific DNA binding site [nucleotide binding]; other site 667015008438 salt bridge; other site 667015008439 sequence-specific DNA binding site [nucleotide binding]; other site 667015008440 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 667015008441 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 667015008442 non-specific DNA binding site [nucleotide binding]; other site 667015008443 salt bridge; other site 667015008444 sequence-specific DNA binding site [nucleotide binding]; other site 667015008445 Helix-turn-helix domain; Region: HTH_17; pfam12728 667015008446 DNA primase (bacterial type) [DNA replication, recombination, and repair]; Region: DnaG; COG0358 667015008447 TOPRIM_primases: The topoisomerase-primase (TORPIM) nucleotidyl transferase/hydrolase domain found in the active site regions of bacterial DnaG-type primases and their homologs. Primases synthesize RNA primers for the initiation of DNA replication. DnaG...; Region: TOPRIM_primases; cd01029 667015008448 active site 667015008449 metal binding site [ion binding]; metal-binding site 667015008450 interdomain interaction site; other site 667015008451 AAA domain; Region: AAA_25; pfam13481 667015008452 Helix-turn-helix domain; Region: HTH_17; pfam12728 667015008453 Toprim-like; Region: Toprim_2; pfam13155 667015008454 Domain of unknown function (DUF4095); Region: DUF4095; pfam13338 667015008455 Protein of unknwon function (DUF2893); Region: DUF2893; pfam11459 667015008456 Nucleotidyl transferase of unknown function (DUF1814); Region: DUF1814; pfam08843 667015008457 Domain of unknown function (DUF4134); Region: DUF4134; pfam13572 667015008458 Domain of unknown function (DUF4134); Region: DUF4134; pfam13572 667015008459 Bacteroides conjugation system ATPase, TraG family; Region: Bac_Flav_CT_G; TIGR03783 667015008460 Prophage antirepressor [Transcription]; Region: COG3617 667015008461 BRO family, N-terminal domain; Region: Bro-N; smart01040 667015008462 Phage antirepressor protein KilAC domain; Region: ANT; pfam03374 667015008463 Bacteroides conjugative transposon TraK protein; Region: Bac_Flav_CT_K; TIGR03781 667015008464 Bacteroides conjugative transposon TraM protein; Region: Bac_Flav_CT_M; TIGR03779 667015008465 Protein of unknown function (DUF3714); Region: DUF3714; pfam12508 667015008466 Bacteroides conjugative transposon TraN protein; Region: Bac_Flav_CT_N; TIGR03780 667015008467 Domain of unknown function (DUF4138); Region: DUF4138; pfam13595 667015008468 propionate catabolism operon regulatory protein PrpR; Provisional; Region: PRK15424 667015008469 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 667015008470 TraM recognition site of TraD and TraG; Region: TraG-D_C; cl17375 667015008471 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 667015008472 catalytic residue [active] 667015008473 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 667015008474 active site 667015008475 DNA binding site [nucleotide binding] 667015008476 Int/Topo IB signature motif; other site 667015008477 N-Utilization Substance G (NusG) N-terminal domain in the NusG Specialized Paralog (SP), UpxY; Region: NGN_SP_UpxY; cd09895 667015008478 Transcription antiterminator [Transcription]; Region: NusG; COG0250 667015008479 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 667015008480 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 667015008481 active site 667015008482 Int/Topo IB signature motif; other site 667015008483 DNA binding site [nucleotide binding] 667015008484 UDP-glucose 6-dehydrogenase; Provisional; Region: PRK15057 667015008485 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 667015008486 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 667015008487 UDP binding domain; Region: UDPG_MGDP_dh_C; smart00984 667015008488 Fucose 4-O-acetylase and related acetyltransferases [Carbohydrate transport and metabolism]; Region: NolL; COG3594 667015008489 Acyltransferase family; Region: Acyl_transf_3; pfam01757 667015008490 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 667015008491 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 667015008492 Dehydrogenases with different specificities (related to short-chain alcohol dehydrogenases) [Secondary metabolites biosynthesis, transport, and catabolism / General function prediction only]; Region: FabG; COG1028 667015008493 classical (c) SDRs; Region: SDR_c; cd05233 667015008494 NAD(P) binding site [chemical binding]; other site 667015008495 active site 667015008496 2-succinyl-5-enolpyruvyl-6-hydroxy-3-cyclohexene-1- carboxylic-acid synthase; Region: menD; TIGR00173 667015008497 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 667015008498 dimer interface [polypeptide binding]; other site 667015008499 tetramer interface [polypeptide binding]; other site 667015008500 PYR/PP interface [polypeptide binding]; other site 667015008501 TPP binding site [chemical binding]; other site 667015008502 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 667015008503 TPP-binding site [chemical binding]; other site 667015008504 Polysaccharide pyruvyl transferase; Region: PS_pyruv_trans; pfam04230 667015008505 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 667015008506 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 667015008507 Maltose O-acyltransferase (MAT)-like: This family is composed of maltose O-acetyltransferase, galactoside O-acetyltransferase (GAT), xenobiotic acyltransferase (XAT) and similar proteins. MAT and GAT catalyze the CoA-dependent acetylation of the...; Region: LbH_MAT_like; cd04647 667015008508 trimer interface [polypeptide binding]; other site 667015008509 active site 667015008510 substrate binding site [chemical binding]; other site 667015008511 CoA binding site [chemical binding]; other site 667015008512 Glycosyl hydrolase family 99-like domain of WbsX-like glycosyltransferases; Region: Glyco_tran_WbsX; cd11579 667015008513 putative ligand binding site [chemical binding]; other site 667015008514 putative catalytic site [active] 667015008515 Sialidases or neuraminidases function to bind and hydrolyze terminal sialic acid residues from various glycoconjugates as well as playing roles in pathogenesis, bacterial nutrition and cellular interactions. They have a six-bladed, beta-propeller fold...; Region: Sialidase; cd00260 667015008516 catalytic site [active] 667015008517 Asp-box motif; other site 667015008518 Acetyltransferase (isoleucine patch superfamily) [General function prediction only]; Region: WbbJ; COG0110 667015008519 Maltose O-acyltransferase (MAT)-like: This family is composed of maltose O-acetyltransferase, galactoside O-acetyltransferase (GAT), xenobiotic acyltransferase (XAT) and similar proteins. MAT and GAT catalyze the CoA-dependent acetylation of the...; Region: LbH_MAT_like; cd04647 667015008520 trimer interface [polypeptide binding]; other site 667015008521 active site 667015008522 substrate binding site [chemical binding]; other site 667015008523 CoA binding site [chemical binding]; other site 667015008524 NeuB family; Region: NeuB; pfam03102 667015008525 CMP-NeuAc_Synthase activates N-acetylneuraminic acid by adding CMP moiety; Region: CMP-NeuAc_Synthase; cd02513 667015008526 ligand binding site; other site 667015008527 tetramer interface; other site 667015008528 HAD-superfamily hydrolase, subfamily IIIA; Region: HAD-SF-IIIA; TIGR01662 667015008529 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 667015008530 active site 667015008531 motif I; other site 667015008532 motif II; other site 667015008533 Oligosaccharide biosynthesis protein Alg14 like; Region: Alg14; pfam08660 667015008534 Glycosyltransferase family 28 C-terminal domain; Region: Glyco_tran_28_C; cl17369 667015008535 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 667015008536 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 667015008537 DNA or RNA helicases of superfamily II [Transcription / DNA replication, recombination, and repair]; Region: SSL2; COG1061 667015008538 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 667015008539 ATP binding site [chemical binding]; other site 667015008540 putative Mg++ binding site [ion binding]; other site 667015008541 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 667015008542 nucleotide binding region [chemical binding]; other site 667015008543 ATP-binding site [chemical binding]; other site 667015008544 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 667015008545 Peptidase family M23; Region: Peptidase_M23; pfam01551 667015008546 Protein of unknown function (DUF4099); Region: DUF4099; pfam13351 667015008547 Protein of unknown function (DUF3945); Region: DUF3945; pfam13101 667015008548 Protein of unknown function (DUF3991); Region: DUF3991; pfam13154 667015008549 Toprim-like; Region: Toprim_2; pfam13155 667015008550 active site 667015008551 metal binding site [ion binding]; metal-binding site 667015008552 Bacterial PH domain; Region: DUF304; pfam03703 667015008553 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 667015008554 Peptidase family M23; Region: Peptidase_M23; pfam01551 667015008555 Antirestriction protein [DNA replication, recombination, and repair]; Region: COG4227 667015008556 Domain of unknown function (DUF1738); Region: DUF1738; pfam08401 667015008557 MutS domain I; Region: MutS_I; pfam01624 667015008558 Mannosyl-glycoprotein endo-beta-N-acetylglucosaminidase; Region: Glucosaminidase; pfam01832 667015008559 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 667015008560 Peptidase family M23; Region: Peptidase_M23; pfam01551 667015008561 Domain of unknown function (DUF1738); Region: DUF1738; pfam08401 667015008562 Antirestriction protein [DNA replication, recombination, and repair]; Region: COG4227 667015008563 Antirestriction protein [DNA replication, recombination, and repair]; Region: COG4227 667015008564 DNA polymerase III subunit beta; Validated; Region: PRK05643 667015008565 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 667015008566 putative DNA binding surface [nucleotide binding]; other site 667015008567 dimer interface [polypeptide binding]; other site 667015008568 beta-clamp/clamp loader binding surface; other site 667015008569 beta-clamp/translesion DNA polymerase binding surface; other site 667015008570 Predicted amidophosphoribosyltransferases [General function prediction only]; Region: ComFC; COG1040 667015008571 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 667015008572 active site 667015008573 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 667015008574 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 667015008575 ligand binding site [chemical binding]; other site 667015008576 Plasmid recombination enzyme; Region: Mob_Pre; pfam01076 667015008577 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 667015008578 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; cl02788 667015008579 catalytic residues [active] 667015008580 Protein of unknown function (DUF1273); Region: DUF1273; cl01859 667015008581 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 667015008582 active site 667015008583 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 667015008584 AAA domain; Region: AAA_21; pfam13304 667015008585 Walker A/P-loop; other site 667015008586 ATP binding site [chemical binding]; other site 667015008587 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 667015008588 Walker B; other site 667015008589 D-loop; other site 667015008590 H-loop/switch region; other site 667015008591 RloB-like protein; Region: RloB; pfam13707 667015008592 Methyltransferase domain; Region: Methyltransf_26; pfam13659 667015008593 DNA methylase [Transcription / DNA replication, recombination, and repair]; Region: COG4646 667015008594 DEAD-like helicases superfamily; Region: DEXDc; smart00487 667015008595 Superfamily II DNA/RNA helicases, SNF2 family [Transcription / DNA replication, recombination, and repair]; Region: HepA; COG0553 667015008596 DNA methylase [Transcription / DNA replication, recombination, and repair]; Region: COG4646 667015008597 nucleotide binding region [chemical binding]; other site 667015008598 helicase superfamily c-terminal domain; Region: HELICc; smart00490 667015008599 ATP-binding site [chemical binding]; other site 667015008600 PcfJ-like protein; Region: PcfJ; pfam14284 667015008601 PcfK-like protein; Region: PcfK; pfam14058 667015008602 Myosin N-terminal SH3-like domain; Region: Myosin_N; pfam02736 667015008603 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 667015008604 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 667015008605 dimer interface [polypeptide binding]; other site 667015008606 ssDNA binding site [nucleotide binding]; other site 667015008607 tetramer (dimer of dimers) interface [polypeptide binding]; other site 667015008608 SOS-response transcriptional repressors (RecA-mediated autopeptidases) [Transcription / Signal transduction mechanisms]; Region: LexA; COG1974 667015008609 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 667015008610 Catalytic site [active] 667015008611 DNA polymerase V subunit UmuC; Reviewed; Region: umuC; PRK03609 667015008612 umuC subunit of DNA Polymerase V; Region: PolY_Pol_V_umuC; cd01700 667015008613 active site 667015008614 DNA binding site [nucleotide binding] 667015008615 Domain of unknown function (DUF4113); Region: DUF4113; pfam13438 667015008616 Tn4399 and related integrases, DNA breaking-rejoining enzymes, integrase/recombinases, N- and C-terminal domains. This CD includes various bacterial integrases, including cLV25, a Bacteroides fragilis chromosomal transfer factor integrase similar to the...; Region: INT_Tn4399; cd01185 667015008617 tyrosine recombinase XerC; Region: recomb_XerC; TIGR02224 667015008618 Int/Topo IB signature motif; other site 667015008619 ACT domain proteins similar to the yet uncharacterized Streptococcus pneumoniae ACT domain protein; Region: ACT_1ZPV; cd04872 667015008620 Uncharacterized proteins with similarity to Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL_like_DUF711; cd08025 667015008621 ATP-dependent DNA helicase PcrA; Region: pcrA; TIGR01073 667015008622 Part of AAA domain; Region: AAA_19; pfam13245 667015008623 Family description; Region: UvrD_C_2; pfam13538 667015008624 carboxynorspermidine decarboxylase; Region: nspC; TIGR01047 667015008625 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Carboxynorspermidine Decarboxylase; Region: PLPDE_III_CANSDC; cd06829 667015008626 dimer interface [polypeptide binding]; other site 667015008627 active site 667015008628 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 667015008629 catalytic residues [active] 667015008630 substrate binding site [chemical binding]; other site 667015008631 riboflavin synthase subunit alpha; Provisional; Region: PRK09289 667015008632 Lumazine binding domain; Region: Lum_binding; pfam00677 667015008633 Lumazine binding domain; Region: Lum_binding; pfam00677 667015008634 beta-D-galactosidase; Reviewed; Region: lacZ; PRK09525 667015008635 Glycosyl hydrolases family 2, sugar binding domain; Region: Glyco_hydro_2_N; pfam02837 667015008636 Glycosyl hydrolases family 2; Region: Glyco_hydro_2; pfam00703 667015008637 Glycosyl hydrolases family 2, TIM barrel domain; Region: Glyco_hydro_2_C; pfam02836 667015008638 Beta galactosidase small chain; Region: Bgal_small_N; smart01038 667015008639 mRNA degradation ribonucleases J1/J2 (metallo-beta-lactamase superfamily) [Translation, ribosomal structure and biogenesis; Replication, recombination and repair]; Region: COG0595 667015008640 Beta-lactamase superfamily domain; Region: Lactamase_B_2; pfam12706 667015008641 Homo sapiens 239FB and related proteins, metallophosphatase domain; Region: MPP_239FB; cd07379 667015008642 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 667015008643 putative active site [active] 667015008644 putative metal binding site [ion binding]; other site 667015008645 Protein of unknown function (DUF1445); Region: DUF1445; cl01790 667015008646 Virulence factor BrkB; Region: Virul_fac_BrkB; pfam03631 667015008647 periplasmic serine protease, Do/DeqQ family; Region: degP_htrA_DO; TIGR02037 667015008648 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 667015008649 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 667015008650 protein binding site [polypeptide binding]; other site 667015008651 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 667015008652 protein binding site [polypeptide binding]; other site 667015008653 Domain of unknown function (DUF4369); Region: DUF4369; pfam14289 667015008654 Peptidase S46; Region: Peptidase_S46; pfam10459 667015008655 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 667015008656 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 667015008657 Peptidase S46; Region: Peptidase_S46; pfam10459 667015008658 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 667015008659 Glutamine phosphoribosylpyrophosphate amidotransferase [Nucleotide transport and metabolism]; Region: PurF; COG0034 667015008660 Glutamine amidotransferases class-II (GATase). The glutaminase domain catalyzes an amide nitrogen transfer from glutamine to the appropriate substrate. In this process, glutamine is hydrolyzed to glutamic acid and ammonia. This domain is related to...; Region: Gn_AT_II; cl00319 667015008661 active site 667015008662 Glycosyl hydrolase families: GH43, GH62, GH32, GH68; Region: GH43_62_32_68; cl14647 667015008663 active site 667015008664 carbamoyl phosphate synthase small subunit; Reviewed; Region: PRK12564 667015008665 Carbamoyl-phosphate synthase small chain, CPSase domain; Region: CPSase_sm_chain; smart01097 667015008666 Small chain of the glutamine-dependent form of carbamoyl phosphate synthase, CPSase II; Region: GATase1_CPSase; cd01744 667015008667 catalytic site [active] 667015008668 subunit interface [polypeptide binding]; other site 667015008669 carbamoyl-phosphate synthase, large subunit; Region: CPSaseII_lrg; TIGR01369 667015008670 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 667015008671 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 667015008672 Carbamoyl-phosphate synthetase large chain, oligomerisation domain; Region: CPSase_L_D3; pfam02787 667015008673 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 667015008674 ATP-grasp domain; Region: ATP-grasp_4; cl17255 667015008675 Methylglyoxal synthase-like domain found in pyr1 and URA1-like carbamoyl phosphate synthetases (CPS), including ammonia-dependent CPS Type I, and glutamine-dependent CPS Type III. These are multidomain proteins, in which MGS is the C-terminal domain; Region: MGS_CPS_I_III; cd01423 667015008676 probable substrate binding site [chemical binding]; other site 667015008677 galactarate dehydratase; Region: galactar-dH20; TIGR03248 667015008678 Domains similar to fish antifreeze type III protein; Region: SAF_AH_GD; cd11613 667015008679 D-galactarate dehydratase / Altronate hydrolase, C terminus; Region: GD_AH_C; pfam04295 667015008680 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 667015008681 DNA binding site [nucleotide binding] 667015008682 domain linker motif; other site 667015008683 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 667015008684 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 667015008685 ligand binding site [chemical binding]; other site 667015008686 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 667015008687 2-keto-3-deoxygluconate kinase (KdgK) phosphorylates 2-keto-3-deoxygluconate (KDG) to form 2-keto-3-deoxy-6-phosphogluconate (KDGP). KDG is the common intermediate product, that allows organisms to channel D-glucuronate and/or D-galacturinate into the...; Region: KdgK; cd01166 667015008688 substrate binding site [chemical binding]; other site 667015008689 ATP binding site [chemical binding]; other site 667015008690 2-keto-3-deoxy-6-phosphogluconate aldolase [Carbohydrate transport and metabolism]; Region: Eda; COG0800 667015008691 KDPG and KHG aldolase; Region: KDPG_aldolase; cd00452 667015008692 active site 667015008693 intersubunit interface [polypeptide binding]; other site 667015008694 catalytic residue [active] 667015008695 Tetratricopeptide repeat; Region: TPR_12; pfam13424 667015008696 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 667015008697 binding surface 667015008698 TPR motif; other site 667015008699 Anaphase-promoting complex, cyclosome, subunit 3; Region: Apc3; pfam12895 667015008700 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 667015008701 Fimbrillin-A associated anchor proteins Mfa1 and Mfa2; Region: Mfa2; pfam08842 667015008702 Protein of unknown function (DUF3988); Region: DUF3988; pfam13149 667015008703 N-terminal domain found in Bacteroides fragilis Nctc 9343 BF2867 and related proteins; Region: BF2867_like_N; cd13120 667015008704 C-terminal domain found in Bacteroides fragilisNctc 9343 BF2867 and related proteins; Region: BF2867_like_C; cd13121 667015008705 Protein of unknown function (DUF3988); Region: DUF3988; pfam13149 667015008706 N-terminal domain found in Bacteroides fragilis Nctc 9343 BF2867 and related proteins; Region: BF2867_like_N; cd13120 667015008707 C-terminal domain found in Bacteroides fragilisNctc 9343 BF2867 and related proteins; Region: BF2867_like_C; cd13121 667015008708 Protein of unknown function (DUF3988); Region: DUF3988; pfam13149 667015008709 N-terminal domain found in Bacteroides fragilis Nctc 9343 BF2867 and related proteins; Region: BF2867_like_N; cd13120 667015008710 C-terminal domain found in Bacteroides fragilisNctc 9343 BF2867 and related proteins; Region: BF2867_like_C; cd13121 667015008711 PcfK-like protein; Region: PcfK; pfam14058 667015008712 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; pfam13505 667015008713 Outer membrane protein beta-barrel domain; Region: OMP_b-brl_2; pfam13568 667015008714 Predicted permeases [General function prediction only]; Region: COG0679 667015008715 YcfA-like protein; Region: YcfA; cl00752 667015008716 Protein of unknown function (DUF3832); Region: DUF3832; pfam12909 667015008717 isoleucyl-tRNA synthetase; Region: ileS; TIGR00392 667015008718 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 667015008719 active site 667015008720 HIGH motif; other site 667015008721 nucleotide binding site [chemical binding]; other site 667015008722 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 667015008723 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 667015008724 active site 667015008725 KMSKS motif; other site 667015008726 Anticodon-binding domain of archaeal, bacterial, and eukaryotic cytoplasmic isoleucyl tRNA synthetases; Region: Anticodon_Ia_Ile_ABEc; cd07961 667015008727 tRNA binding surface [nucleotide binding]; other site 667015008728 anticodon binding site; other site 667015008729 DnaK suppressor protein [Signal transduction mechanisms]; Region: DksA; COG1734 667015008730 lipoprotein signal peptidase; Provisional; Region: PRK14788 667015008731 Domain of unknown function (DUF4296); Region: DUF4296; pfam14129 667015008732 rRNA methylases [Translation, ribosomal structure and biogenesis]; Region: SpoU; COG0566 667015008733 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; smart00967 667015008734 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 667015008735 Outer membrane protein/protective antigen OMA87 [Cell envelope biogenesis, outer membrane]; Region: COG4775 667015008736 Surface antigen; Region: Bac_surface_Ag; pfam01103 667015008737 Stage 0 sporulation protein J (antagonist of Soj) containing ParB-like nuclease domain [Transcription]; Region: Spo0J; COG1475 667015008738 ParB-like nuclease domain; Region: ParB; smart00470 667015008739 Predicted phosphoadenosine phosphosulfate sulfotransferase [General function prediction only]; Region: COG3969 667015008740 This domain is found in phosphoadenosine phosphosulphate (PAPS) reductase enzymes or PAPS sulphotransferase. PAPS reductase is part of the adenine nucleotide alpha hydrolases superfamily also including N type ATP PPases and ATP sulphurylases. A highly...; Region: PAPS_reductase; cd01713 667015008741 Active Sites [active] 667015008742 Domain of unknown function (DUF3440); Region: DUF3440; pfam11922 667015008743 putative enoyl-[acyl-carrier-protein] reductase II; Region: enACPred_II; TIGR03151 667015008744 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 667015008745 FMN binding site [chemical binding]; other site 667015008746 substrate binding site [chemical binding]; other site 667015008747 putative catalytic residue [active] 667015008748 B12 binding domain (B12-BD). Most of the members bind different cobalamid derivates, like B12 (adenosylcobamide) or methylcobalamin or methyl-Co(III) 5-hydroxybenzimidazolylcobamide. This domain is found in several enzymes, such as glutamate mutase; Region: B12-binding_like; cl00293 667015008749 B12 binding site [chemical binding]; other site 667015008750 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 667015008751 Elongator protein 3, MiaB family, Radical SAM; Region: Elp3; smart00729 667015008752 FeS/SAM binding site; other site 667015008753 Protein of unknown function (DUF4080); Region: DUF4080; pfam13311 667015008754 ribose-phosphate pyrophosphokinase; Provisional; Region: PRK01259 667015008755 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 667015008756 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 667015008757 active site 667015008758 Thiamine monophosphate synthase (TMP synthase)/TenI. TMP synthase catalyzes an important step in the thiamine biosynthesis pathway, the substitution of the pyrophosphate of 2-methyl-4-amino-5- hydroxymethylpyrimidine pyrophosphate by 4-methyl-5-; Region: TMP_TenI; cd00564 667015008759 thiamine phosphate binding site [chemical binding]; other site 667015008760 active site 667015008761 pyrophosphate binding site [ion binding]; other site 667015008762 molybdopterin biosynthesis protein MoeB; Provisional; Region: PRK05690 667015008763 ThiF_MoeB_HesA. Family of E1-like enzymes involved in molybdopterin and thiamine biosynthesis family. The common reaction mechanism catalyzed by MoeB and ThiF, like other E1 enzymes, begins with a nucleophilic attack of the C-terminal carboxylate of MoaD...; Region: ThiF_MoeB_HesA_family; cd00757 667015008764 ATP binding site [chemical binding]; other site 667015008765 substrate interface [chemical binding]; other site 667015008766 thiamine biosynthesis protein ThiH; Reviewed; Region: thiH; PRK09240 667015008767 Radical SAM superfamily. Enzymes of this family generate radicals by combining a 4Fe-4S cluster and S-adenosylmethionine (SAM) in close proximity. They are characterized by a conserved CxxxCxxC motif, which coordinates the conserved iron-sulfur cluster; Region: Radical_SAM; cl15377 667015008768 FeS/SAM binding site; other site 667015008769 Biotin and Thiamin Synthesis associated domain; Region: BATS; pfam06968 667015008770 hypothetical protein; Reviewed; Region: PRK12275 667015008771 four helix bundle protein; Region: TIGR02436 667015008772 thiamine biosynthesis protein ThiC; Provisional; Region: PRK09284 667015008773 ThiC-associated domain; Region: ThiC-associated; pfam13667 667015008774 ThiC family; Region: ThiC; pfam01964 667015008775 Thiazole synthase (ThiG) is the tetrameric enzyme that is involved in the formation of the thiazole moiety of thiamin pyrophosphate, an essential ubiquitous cofactor that plays an important role in carbohydrate and amino acid metabolism. ThiG catalyzes...; Region: ThiG; cd04728 667015008776 ThiS interaction site; other site 667015008777 putative active site [active] 667015008778 tetramer interface [polypeptide binding]; other site 667015008779 Thiamine monophosphate synthase (TMP synthase)/TenI. TMP synthase catalyzes an important step in the thiamine biosynthesis pathway, the substitution of the pyrophosphate of 2-methyl-4-amino-5- hydroxymethylpyrimidine pyrophosphate by 4-methyl-5-; Region: TMP_TenI; cd00564 667015008780 thiamine phosphate binding site [chemical binding]; other site 667015008781 active site 667015008782 pyrophosphate binding site [ion binding]; other site 667015008783 ThiaminS ubiquitin-like sulfur carrier protein; Region: ThiS; cd00565 667015008784 thiS-thiF/thiG interaction site; other site 667015008785 C-terminal domain found in Bacteroides fragilisNctc 9343 BF2867 and related proteins; Region: BF2867_like_C; cd13121 667015008786 Protein of unknown function (DUF3988); Region: DUF3988; pfam13149 667015008787 C-terminal domain found in Bacteroides fragilisNctc 9343 BF2867 and related proteins; Region: BF2867_like_C; cd13121 667015008788 Fimbrillin-A associated anchor proteins Mfa1 and Mfa2; Region: Mfa2; pfam08842 667015008789 Major fimbrial subunit protein (FimA); Region: P_gingi_FimA; pfam06321 667015008790 Domain of unknown function, B. Theta Gene description (DUF3868); Region: DUF3868; pfam12984 667015008791 OmpA family; Region: OmpA; pfam00691 667015008792 ligand binding site [chemical binding]; other site 667015008793 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 667015008794 TPR motif; other site 667015008795 binding surface 667015008796 Protein of unknown function (DUF3575); Region: DUF3575; pfam12099 667015008797 CoB--CoM heterodisulfide reductase, subunit B; Region: CoB_CoM_SS_B; TIGR03288 667015008798 Cysteine-rich domain; Region: CCG; pfam02754 667015008799 Cysteine-rich domain; Region: CCG; pfam02754 667015008800 Uncharacterized conserved protein containing a ferredoxin-like domain [Energy production and conversion]; Region: COG1139 667015008801 Uncharacterized ACR, YkgG family COG1556; Region: DUF162; pfam02589 667015008802 Uncharacterized ACR, YkgG family COG1556; Region: DUF162; pfam02589 667015008803 phosphate transport system regulatory protein PhoU; Region: phoU_full; TIGR02135 667015008804 PhoU domain; Region: PhoU; pfam01895 667015008805 PhoU domain; Region: PhoU; pfam01895 667015008806 ABC-type phosphate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: PstB; COG1117 667015008807 ATP-binding cassette domain of the phosphate transport system; Region: ABC_PstB_phosphate_transporter; cd03260 667015008808 Walker A/P-loop; other site 667015008809 ATP binding site [chemical binding]; other site 667015008810 Q-loop/lid; other site 667015008811 ABC transporter signature motif; other site 667015008812 Walker B; other site 667015008813 D-loop; other site 667015008814 H-loop/switch region; other site 667015008815 ABC-type phosphate transport system, permease component [Inorganic ion transport and metabolism]; Region: PstA; COG0581 667015008816 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 667015008817 dimer interface [polypeptide binding]; other site 667015008818 conserved gate region; other site 667015008819 putative PBP binding loops; other site 667015008820 ABC-ATPase subunit interface; other site 667015008821 PBP superfamily domain; Region: PBP_like_2; cl17296 667015008822 ABC-type phosphate transport system, permease component [Inorganic ion transport and metabolism]; Region: PstC; COG0573 667015008823 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 667015008824 dimer interface [polypeptide binding]; other site 667015008825 conserved gate region; other site 667015008826 putative PBP binding loops; other site 667015008827 ABC-ATPase subunit interface; other site 667015008828 PBP superfamily domain; Region: PBP_like_2; cl17296 667015008829 galactose mutarotase_like; Region: galactose_mutarotase_like; cd09019 667015008830 active site 667015008831 catalytic residues [active] 667015008832 flavodoxin FldA; Validated; Region: PRK09267 667015008833 Protein of unknown function (DUF2023); Region: DUF2023; pfam09633 667015008834 Trk-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: TrkG; COG0168 667015008835 potassium uptake protein, TrkH family; Region: 2a38; TIGR00933 667015008836 Pectic acid lyase; Region: Pec_lyase; pfam09492 667015008837 Uncharacterized conserved protein, contains double-stranded beta-helix domain [Function unknown]; Region: COG1917 667015008838 starch binding outer membrane protein SusD; Region: SusD; cl17845 667015008839 SusD family; Region: SusD; pfam07980 667015008840 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 667015008841 Cna protein B-type domain; Region: Cna_B_2; pfam13715 667015008842 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 667015008843 TonB dependent receptor; Region: TonB_dep_Rec; pfam00593 667015008844 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 667015008845 Glycogen synthase; Region: Glycogen_syn; pfam05693 667015008846 This family is most closely related to the oligosaccharide phosphorylase domain family and other unidentified sequences. Oligosaccharide phosphorylase catalyzes the breakdown of oligosaccharides into glucose-1-phosphate units. They are important...; Region: GT1_Glycogen_Phosphorylase_like; cd04299 667015008847 putative homodimer interface [polypeptide binding]; other site 667015008848 putative active site pocket [active] 667015008849 alpha-glucan phosphorylases; Region: more_P_ylases; TIGR02094 667015008850 putative transposase OrfB; Reviewed; Region: PHA02517 667015008851 Integrase core domain; Region: rve; pfam00665 667015008852 Integrase core domain; Region: rve_3; pfam13683 667015008853 IclR helix-turn-helix domain; Region: HTH_IclR; cl17605 667015008854 Peptidase C1-like family; Region: Peptidase_C1_2; cl17447 667015008855 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 667015008856 Domain of unknown function DUF20; Region: UPF0118; pfam01594 667015008857 bile acid transporter; Region: bass; TIGR00841 667015008858 N-acetylmuramoyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: AmiC; COG0860 667015008859 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 667015008860 active site 667015008861 metal binding site [ion binding]; metal-binding site 667015008862 ABC-type transport system involved in resistance to organic solvents, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2C; COG1463 667015008863 mce related protein; Region: MCE; pfam02470 667015008864 Domain of unknown function (DUF4134); Region: DUF4134; pfam13572 667015008865 Bacteroides conjugation system ATPase, TraG family; Region: Bac_Flav_CT_G; TIGR03783 667015008866 Bacteroides conjugative transposon TraJ protein; Region: Bac_Flav_CT_J; TIGR03782 667015008867 Bacteroides conjugative transposon TraK protein; Region: Bac_Flav_CT_K; TIGR03781 667015008868 Bacteroides conjugative transposon TraM protein; Region: Bac_Flav_CT_M; TIGR03779 667015008869 Protein of unknown function (DUF3714); Region: DUF3714; pfam12508 667015008870 Bacteroides conjugative transposon TraN protein; Region: Bac_Flav_CT_N; TIGR03780 667015008871 Domain of unknown function (DUF4138); Region: DUF4138; pfam13595 667015008872 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 667015008873 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 667015008874 ligand binding site [chemical binding]; other site 667015008875 Ribosomal protein L3; Region: Ribosomal_L3; cl00324 667015008876 Uncharacterized virulence-associated protein D [Function unknown]; Region: VapD; COG3309 667015008877 Zeta toxin; Region: Zeta_toxin; pfam06414 667015008878 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 667015008879 Peptidase family M23; Region: Peptidase_M23; pfam01551 667015008880 Protein of unknown function (DUF4099); Region: DUF4099; pfam13351 667015008881 Protein of unknown function (DUF3945); Region: DUF3945; pfam13101 667015008882 Protein of unknown function (DUF4099); Region: DUF4099; pfam13351 667015008883 Protein of unknown function (DUF3945); Region: DUF3945; pfam13101 667015008884 Protein of unknown function (DUF3991); Region: DUF3991; pfam13154 667015008885 Toprim-like; Region: Toprim_2; pfam13155 667015008886 Bacterial PH domain; Region: DUF304; cl01348 667015008887 C-terminal repeat of topoisomerase; Region: Toprim_Crpt; pfam13342 667015008888 C-terminal repeat of topoisomerase; Region: Toprim_Crpt; pfam13342 667015008889 C-terminal repeat of topoisomerase; Region: Toprim_Crpt; pfam13342 667015008890 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 667015008891 IHF - DNA interface [nucleotide binding]; other site 667015008892 IHF dimer interface [polypeptide binding]; other site 667015008893 Type IV secretion-system coupling protein DNA-binding domain; Region: TrwB_AAD_bind; pfam10412 667015008894 TraM recognition site of TraD and TraG; Region: TraG-D_C; cl17375 667015008895 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 667015008896 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 667015008897 non-specific DNA binding site [nucleotide binding]; other site 667015008898 salt bridge; other site 667015008899 sequence-specific DNA binding site [nucleotide binding]; other site 667015008900 DNA repair proteins [DNA replication, recombination, and repair]; Region: RadC; COG2003 667015008901 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 667015008902 MPN+ (JAMM) motif; other site 667015008903 Zinc-binding site [ion binding]; other site 667015008904 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK06816 667015008905 "initiating" condensing enzymes are a subclass of decarboxylating condensing enzymes, including beta-ketoacyl [ACP] synthase, type III and polyketide synthases, type III, which include chalcone synthase and related enzymes. They are...; Region: init_cond_enzymes; cd00827 667015008906 dimer interface [polypeptide binding]; other site 667015008907 active site 667015008908 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 667015008909 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 667015008910 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 667015008911 CobQ/CobB/MinD/ParA nucleotide binding domain; Region: CbiA; pfam01656 667015008912 P-loop; other site 667015008913 Magnesium ion binding site [ion binding]; other site 667015008914 Relaxase/Mobilisation nuclease domain; Region: Relaxase; pfam03432 667015008915 Initiator Replication protein; Region: Rep_3; pfam01051 667015008916 Protein involved in initiation of plasmid replication [DNA replication, recombination, and repair]; Region: COG5527 667015008917 Domain of unknown function (DUF1738); Region: DUF1738; pfam08401 667015008918 Antirestriction protein [DNA replication, recombination, and repair]; Region: COG4227 667015008919 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 667015008920 IHF dimer interface [polypeptide binding]; other site 667015008921 IHF - DNA interface [nucleotide binding]; other site 667015008922 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3041; cl17396 667015008923 multiple promoter invertase; Provisional; Region: mpi; PRK13413 667015008924 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 667015008925 catalytic residues [active] 667015008926 catalytic nucleophile [active] 667015008927 Presynaptic Site I dimer interface [polypeptide binding]; other site 667015008928 Synaptic Antiparallel dimer interface [polypeptide binding]; other site 667015008929 Synaptic Flat tetramer interface [polypeptide binding]; other site 667015008930 Synaptic Site I dimer interface [polypeptide binding]; other site 667015008931 DNA binding site [nucleotide binding] 667015008932 Helix-turn-helix domain of Hin and related proteins, a family of DNA-binding domains unique to bacteria and represented by the Hin protein of Salmonella. The basic HTH domain is a simple fold comprised of three core helices that form a right-handed...; Region: HTH_Hin_like; cd00569 667015008933 DNA-binding interface [nucleotide binding]; DNA binding site 667015008934 Plasmid encoded toxin Txe; Region: Plasmid_Txe; cl17389 667015008935 Initiator Replication protein; Region: Rep_3; pfam01051 667015008936 SprT-like family; Region: SprT-like; pfam10263 667015008937 SprT homologues; Region: SprT; cl01182 667015008938 Abi-like protein; Region: Abi_2; pfam07751 667015008939 Initiator Replication protein; Region: Rep_3; pfam01051 667015008940 Plasmid recombination enzyme; Region: Mob_Pre; pfam01076 667015008941 lipoxygenase; Region: PLN02337 667015008942 multiple promoter invertase; Provisional; Region: mpi; PRK13413 667015008943 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 667015008944 catalytic residues [active] 667015008945 catalytic nucleophile [active] 667015008946 Presynaptic Site I dimer interface [polypeptide binding]; other site 667015008947 Synaptic Antiparallel dimer interface [polypeptide binding]; other site 667015008948 Synaptic Flat tetramer interface [polypeptide binding]; other site 667015008949 Synaptic Site I dimer interface [polypeptide binding]; other site 667015008950 DNA binding site [nucleotide binding] 667015008951 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 667015008952 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 667015008953 active site 667015008954 phosphorylation site [posttranslational modification] 667015008955 intermolecular recognition site; other site 667015008956 dimerization interface [polypeptide binding]; other site 667015008957 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 667015008958 DNA binding site [nucleotide binding] 667015008959 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 667015008960 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 667015008961 dimer interface [polypeptide binding]; other site 667015008962 phosphorylation site [posttranslational modification] 667015008963 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 667015008964 ATP binding site [chemical binding]; other site 667015008965 Mg2+ binding site [ion binding]; other site 667015008966 G-X-G motif; other site 667015008967 CAAX protease self-immunity; Region: Abi; pfam02517 667015008968 type I secretion membrane fusion protein, HlyD family; Region: type_I_hlyD; TIGR01843 667015008969 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 667015008970 HlyD family secretion protein; Region: HlyD_3; pfam13437 667015008971 ABC-type bacteriocin/lantibiotic exporters, contain an N-terminal double-glycine peptidase domain [Defense mechanisms]; Region: SunT; COG2274 667015008972 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_C39B; cd02418 667015008973 putative active site [active] 667015008974 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 667015008975 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 667015008976 Walker A/P-loop; other site 667015008977 ATP binding site [chemical binding]; other site 667015008978 Q-loop/lid; other site 667015008979 ABC transporter signature motif; other site 667015008980 Walker B; other site 667015008981 D-loop; other site 667015008982 H-loop/switch region; other site 667015008983 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 667015008984 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 667015008985 salt bridge; other site 667015008986 non-specific DNA binding site [nucleotide binding]; other site 667015008987 sequence-specific DNA binding site [nucleotide binding]; other site 667015008988 Family of unknown function (DUF3836); Region: DUF3836; pfam12930 667015008989 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 667015008990 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 667015008991 P-loop; other site 667015008992 Magnesium ion binding site [ion binding]; other site 667015008993 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 667015008994 Magnesium ion binding site [ion binding]; other site