-- dump date 20140619_010407 -- class Genbank::misc_feature -- table misc_feature_note -- id note 1104321000001 BRO family, N-terminal domain; Region: Bro-N; cl10591 1104321000002 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 1104321000003 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 1104321000004 catalytic residues [active] 1104321000005 catalytic nucleophile [active] 1104321000006 Presynaptic Site I dimer interface [polypeptide binding]; other site 1104321000007 Synaptic Antiparallel dimer interface [polypeptide binding]; other site 1104321000008 Synaptic Flat tetramer interface [polypeptide binding]; other site 1104321000009 Synaptic Site I dimer interface [polypeptide binding]; other site 1104321000010 DNA binding site [nucleotide binding] 1104321000011 Integrase [DNA replication, recombination, and repair]; Region: XerC; COG0582 1104321000012 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 1104321000013 active site 1104321000014 DNA binding site [nucleotide binding] 1104321000015 Int/Topo IB signature motif; other site 1104321000016 hypothetical protein; Provisional; Region: PRK10279 1104321000017 Bacterial patatin-like phospholipase domain containing protein 6; Region: Pat_NTE_like_bacteria; cd07228 1104321000018 nucleophile elbow; other site 1104321000019 phosphoribosyl-AMP cyclohydrolase; Reviewed; Region: hisI; PRK00051 1104321000020 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 1104321000021 homodecamer interface [polypeptide binding]; other site 1104321000022 GTP cyclohydrolase I; Provisional; Region: PLN03044 1104321000023 active site 1104321000024 putative catalytic site residues [active] 1104321000025 zinc binding site [ion binding]; other site 1104321000026 GTP-CH-I/GFRP interaction surface; other site 1104321000027 NifU homolog involved in Fe-S cluster formation [Energy production and conversion]; Region: IscU; COG0822 1104321000028 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cd06664 1104321000029 trimerization site [polypeptide binding]; other site 1104321000030 active site 1104321000031 hypothetical protein; Validated; Region: PRK00041 1104321000032 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 1104321000033 D-alanyl-D-alanine carboxypeptidase; Region: Peptidase_S11; pfam00768 1104321000034 Sporulation related domain; Region: SPOR; pfam05036 1104321000035 threonyl-tRNA synthetase; Reviewed; Region: thrS; PRK00413 1104321000036 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 1104321000037 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 1104321000038 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 1104321000039 active site 1104321000040 dimer interface [polypeptide binding]; other site 1104321000041 motif 1; other site 1104321000042 motif 2; other site 1104321000043 motif 3; other site 1104321000044 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 1104321000045 anticodon binding site; other site 1104321000046 Nitroreductase-like family which includes NADH oxidase and arsenite oxidiase. NADH oxidase catalyses the oxidation of NAD(P)H and accepts a wide broad range of compounds as electron acceptors, such as nitrocompound. Arsenite oxidase in a...; Region: Arsenite_oxidase; cd02135 1104321000047 putative FMN binding site [chemical binding]; other site 1104321000048 Conserved protein/domain typically associated with flavoprotein oxygenases, DIM6/NTAB family [General function prediction only]; Region: COG1853 1104321000049 nucleoside triphosphate pyrophosphohydrolase; Reviewed; Region: mazG; PRK09562 1104321000050 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 1104321000051 homodimer interface [polypeptide binding]; other site 1104321000052 metal binding site [ion binding]; metal-binding site 1104321000053 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 1104321000054 homodimer interface [polypeptide binding]; other site 1104321000055 active site 1104321000056 putative chemical substrate binding site [chemical binding]; other site 1104321000057 metal binding site [ion binding]; metal-binding site 1104321000058 UDP-glucose 4-epimerase; Region: PLN02240 1104321000059 UDP-glucose 4 epimerase, subgroup 1, extended (e) SDRs; Region: UDP_G4E_1_SDR_e; cd05247 1104321000060 NAD binding site [chemical binding]; other site 1104321000061 homodimer interface [polypeptide binding]; other site 1104321000062 active site 1104321000063 substrate binding site [chemical binding]; other site 1104321000064 Predicted Na+-dependent transporter [General function prediction only]; Region: COG0385 1104321000065 SBF-like CPA transporter family (DUF4137); Region: DUF4137; pfam13593 1104321000066 Predicted methyltransferase (contains TPR repeat) [General function prediction only]; Region: COG4976 1104321000067 Tetratricopeptide repeat; Region: TPR_1; pfam00515 1104321000068 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 1104321000069 S-adenosylmethionine binding site [chemical binding]; other site 1104321000070 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 1104321000071 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 1104321000072 A family including aminopeptidase P, aminopeptidase M, and prolidase. Also known as metallopeptidase family M24. This family of enzymes is able to cleave amido-, imido- and amidino-containing bonds. Members exibit relatively narrow substrate specificity...; Region: APP_MetAP; cl00279 1104321000073 active site 1104321000074 Zn-dependent alcohol dehydrogenases [General function prediction only]; Region: AdhP; COG1064 1104321000075 Cinnamyl alcohol dehydrogenases (CAD); Region: CAD2; cd08298 1104321000076 putative NAD(P) binding site [chemical binding]; other site 1104321000077 putative substrate binding site [chemical binding]; other site 1104321000078 catalytic Zn binding site [ion binding]; other site 1104321000079 structural Zn binding site [ion binding]; other site 1104321000080 Multidrug resistance efflux pump [Defense mechanisms]; Region: EmrA; COG1566 1104321000081 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1104321000082 HlyD family secretion protein; Region: HlyD_3; pfam13437 1104321000083 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 1104321000084 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 1104321000085 putative substrate translocation pore; other site 1104321000086 Acetyl-CoA hydrolase/transferase N-terminal domain; Region: AcetylCoA_hydro; pfam02550 1104321000087 succinate CoA transferase; Region: YgfH_subfam; TIGR03458 1104321000088 Acetyl-CoA hydrolase/transferase C-terminal domain; Region: AcetylCoA_hyd_C; pfam13336 1104321000089 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1104321000090 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1104321000091 metal binding site [ion binding]; metal-binding site 1104321000092 active site 1104321000093 I-site; other site 1104321000094 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 1104321000095 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1104321000096 Coenzyme A binding pocket [chemical binding]; other site 1104321000097 Rhodanese-related sulfurtransferase [Inorganic ion transport and metabolism]; Region: SseA; COG2897 1104321000098 Thiosulfate sulfurtransferase (TST), N-terminal, inactive domain. TST contains 2 copies of the Rhodanese Homology Domain; this is the 1st repeat, which does not contain the catalytically active Cys residue. The role of the 1st repeat is uncertain, but it...; Region: TST_Repeat_1; cd01448 1104321000099 active site residue [active] 1104321000100 Thiosulfate sulfurtransferase (TST), C-terminal, catalytic domain. TST contains 2 copies of the Rhodanese Homology Domain; this is the second repeat. Only the second repeat contains the catalytically active Cys residue; Region: TST_Repeat_2; cd01449 1104321000101 active site residue [active] 1104321000102 Predicted metal-dependent hydrolases related to alanyl-tRNA synthetase HxxxH domain [General function prediction only]; Region: COG2872 1104321000103 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; pfam07973 1104321000104 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 1104321000105 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 1104321000106 dimer interface [polypeptide binding]; other site 1104321000107 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1104321000108 catalytic residue [active] 1104321000109 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 1104321000110 DEAD-like helicases superfamily; Region: DEXDc; smart00487 1104321000111 ATP binding site [chemical binding]; other site 1104321000112 Mg++ binding site [ion binding]; other site 1104321000113 motif III; other site 1104321000114 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 1104321000115 nucleotide binding region [chemical binding]; other site 1104321000116 ATP-binding site [chemical binding]; other site 1104321000117 threonine dehydratase; Validated; Region: PRK08639 1104321000118 Threonine dehydratase: The first step in amino acid degradation is the removal of nitrogen. Although the nitrogen atoms of most amino acids are transferred to alpha-ketoglutarate before removal, the alpha-amino group of threonine can be directly...; Region: Thr-dehyd; cd01562 1104321000119 tetramer interface [polypeptide binding]; other site 1104321000120 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1104321000121 catalytic residue [active] 1104321000122 Second of two tandem C-terminal ACT domains of threonine dehydratase I (ThrD-I; L-threonine hydrolyase); Region: ACT_ThrD-I_2; cd04907 1104321000123 putative Ile/Val binding site [chemical binding]; other site 1104321000124 NAD(P)H:quinone oxidoreductase; Provisional; Region: PRK03767 1104321000125 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 1104321000126 Predicted nucleotide-utilizing enzyme related to molybdopterin-biosynthesis enzyme MoeA [General function prediction only]; Region: CinA; COG1058 1104321000127 Competence-damaged protein. CinA is the first gene in the competence- inducible (cin) operon and is thought to be specifically required at some stage in the process of transformation. This domain is closely related to a domain, found in a variety of...; Region: cinA; cd00885 1104321000128 putative MPT binding site; other site 1104321000129 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 1104321000130 Ligand Binding Site [chemical binding]; other site 1104321000131 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1104321000132 active site 1104321000133 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_9; cd04666 1104321000134 nudix motif; other site 1104321000135 ribonucleotide-diphosphate reductase subunit alpha; Validated; Region: PRK07562 1104321000136 Class II vitamin B12-dependent ribonucleotide reductase; Region: Ribonuc_red_2_N; pfam08471 1104321000137 Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL; cl09939 1104321000138 Class II ribonucleotide reductase, dimeric form; Region: RNR_II_dimer; cd02888 1104321000139 active site 1104321000140 Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL; cl09939 1104321000141 TSCPD domain; Region: TSCPD; pfam12637 1104321000142 potential frameshift: common BLAST hit: gi|340790661|ref|YP_004756126.1| mechanosensitive ion channel family protein 1104321000143 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 1104321000144 Mechanosensitive ion channel; Region: MS_channel; pfam00924 1104321000145 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 1104321000146 Mechanosensitive ion channel; Region: MS_channel; pfam00924 1104321000147 Beta-lactamase; Region: Beta-lactamase; pfam00144 1104321000148 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 1104321000149 uncharacterized flavoprotein, PP_4765 family; Region: flavo_PP4765; TIGR03862 1104321000150 Sulphate Transporter and Anti-Sigma factor antagonist domain found in the C-terminal region of sulphate transporters as well as in bacterial and archaeal proteins involved in the regulation of sigma factors; Region: STAS; cl00604 1104321000151 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 1104321000152 PAS domain; Region: PAS_9; pfam13426 1104321000153 putative active site [active] 1104321000154 heme pocket [chemical binding]; other site 1104321000155 PAS fold; Region: PAS_4; pfam08448 1104321000156 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1104321000157 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 1104321000158 dimer interface [polypeptide binding]; other site 1104321000159 phosphorylation site [posttranslational modification] 1104321000160 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 1104321000161 ATP binding site [chemical binding]; other site 1104321000162 Mg2+ binding site [ion binding]; other site 1104321000163 G-X-G motif; other site 1104321000164 Response regulator receiver domain; Region: Response_reg; pfam00072 1104321000165 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1104321000166 active site 1104321000167 phosphorylation site [posttranslational modification] 1104321000168 intermolecular recognition site; other site 1104321000169 dimerization interface [polypeptide binding]; other site 1104321000170 Flagellar biosynthesis protein, FliO; Region: FliO; pfam04347 1104321000171 RNA polymerase-binding protein DksA; Region: dksA; TIGR02420 1104321000172 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 1104321000173 catalytic core [active] 1104321000174 Predicted ATPase [General function prediction only]; Region: COG3106 1104321000175 Predicted membrane protein [Function unknown]; Region: COG3768 1104321000176 Domain of unknown function (DUF697); Region: DUF697; cl12064 1104321000177 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 1104321000178 catalytic center binding site [active] 1104321000179 ATP binding site [chemical binding]; other site 1104321000180 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 1104321000181 homooctamer interface [polypeptide binding]; other site 1104321000182 active site 1104321000183 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 1104321000184 dihydropteroate synthase; Region: DHPS; TIGR01496 1104321000185 substrate binding pocket [chemical binding]; other site 1104321000186 dimer interface [polypeptide binding]; other site 1104321000187 inhibitor binding site; inhibition site 1104321000188 Predicted secreted Zn-dependent protease [Posttranslational modification, protein turnover, chaperones]; Region: COG5661 1104321000189 Thioredoxin reductase [Posttranslational modification, protein turnover, chaperones]; Region: TrxB; COG0492 1104321000190 Ferredoxin [Energy production and conversion]; Region: Fdx; COG0633 1104321000191 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 1104321000192 catalytic loop [active] 1104321000193 iron binding site [ion binding]; other site 1104321000194 ABC-type transport system involved in resistance to organic solvents, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2C; COG1463 1104321000195 ABC-type uncharacterized transport system, auxiliary component [General function prediction only]; Region: COG3218 1104321000196 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3009 1104321000197 virulence factor Mce family protein; Region: Mtu_fam_mce; TIGR00996 1104321000198 mce related protein; Region: MCE; pfam02470 1104321000199 ABC-type transport system involved in resistance to organic solvents, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2A; COG1127 1104321000200 ATP-binding cassette transport system involved in resistant to organic solvents; Region: ABC_Org_Solvent_Resistant; cd03261 1104321000201 Walker A/P-loop; other site 1104321000202 ATP binding site [chemical binding]; other site 1104321000203 Q-loop/lid; other site 1104321000204 ABC transporter signature motif; other site 1104321000205 Walker B; other site 1104321000206 D-loop; other site 1104321000207 H-loop/switch region; other site 1104321000208 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 1104321000209 ABC-type transport system involved in resistance to organic solvents, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2B; COG0767 1104321000210 Permease; Region: Permease; pfam02405 1104321000211 L-Ala-D/L-Glu epimerase; Provisional; Region: PRK15129 1104321000212 L-Ala-D/L-Glu epimerase catalyzes the epimerization of L-Ala-D/L-Glu and other dipeptides. The genomic context and the substrate specificity of characterized members of this family from E.coli and B.subtilis indicates a possible role in the metabolism of...; Region: L-Ala-DL-Glu_epimerase; cd03319 1104321000213 active site 1104321000214 malic enzyme; Reviewed; Region: PRK12862 1104321000215 Malic enzyme, N-terminal domain; Region: malic; pfam00390 1104321000216 NAD(P) binding domain of malic enzyme (ME), subgroup 2; Region: NAD_bind_2_malic_enz; cd05311 1104321000217 putative NAD(P) binding site [chemical binding]; other site 1104321000218 Phosphotransacetylase [Energy production and conversion]; Region: Pta; COG0280 1104321000219 glutamyl-tRNA synthetase; Provisional; Region: PRK12558 1104321000220 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 1104321000221 active site 1104321000222 HIGH motif; other site 1104321000223 nucleotide binding site [chemical binding]; other site 1104321000224 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 1104321000225 active site 1104321000226 KMSKS motif; other site 1104321000227 NAD synthetase; Provisional; Region: PRK13981 1104321000228 Glutamine aminotransferase (GAT, glutaminase) domain of glutamine-dependent NAD synthetases (class 7 and 8 nitrilases); Region: GAT_Gln-NAD-synth; cd07570 1104321000229 multimer interface [polypeptide binding]; other site 1104321000230 active site 1104321000231 catalytic triad [active] 1104321000232 protein interface 1 [polypeptide binding]; other site 1104321000233 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 1104321000234 homodimer interface [polypeptide binding]; other site 1104321000235 NAD binding pocket [chemical binding]; other site 1104321000236 ATP binding pocket [chemical binding]; other site 1104321000237 Mg binding site [ion binding]; other site 1104321000238 active-site loop [active] 1104321000239 Diacylglycerol kinase [Cell envelope biogenesis, outer membrane]; Region: DgkA; COG0818 1104321000240 Class-II DAHP synthetase family; Region: DAHP_synth_2; pfam01474 1104321000241 glutathione reductase; Validated; Region: PRK06116 1104321000242 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 1104321000243 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1104321000244 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 1104321000245 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3184 1104321000246 RPI_A: Ribose 5-phosphate isomerase type A (RPI_A) subfamily; RPI catalyzes the reversible conversion of ribose-5-phosphate to ribulose 5-phosphate, the first step of the non-oxidative branch of the pentose phosphate pathway. This reaction leads to the...; Region: RPI_A; cd01398 1104321000247 tetramer (dimer of dimers) interface [polypeptide binding]; other site 1104321000248 active site 1104321000249 dimer interface [polypeptide binding]; other site 1104321000250 phosphoglycolate phosphatase; Provisional; Region: PRK13222 1104321000251 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 1104321000252 motif II; other site 1104321000253 Uncharacterized conserved protein [Function unknown]; Region: COG0062 1104321000254 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 1104321000255 putative substrate binding site [chemical binding]; other site 1104321000256 putative ATP binding site [chemical binding]; other site 1104321000257 Nitrogen regulatory protein PII [Amino acid transport and metabolism]; Region: GlnK; COG0347 1104321000258 Nitrogen regulatory protein P-II; Region: P-II; smart00938 1104321000259 glutamine synthetase; Provisional; Region: glnA; PRK09469 1104321000260 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 1104321000261 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 1104321000262 Chaperone required for the assembly of the mitochondrial F1-ATPase [Posttranslational modification, protein turnover, chaperones]; Region: COG5387 1104321000263 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 1104321000264 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 1104321000265 motif I; other site 1104321000266 active site 1104321000267 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 1104321000268 motif II; other site 1104321000269 EamA-like transporter family; Region: EamA; pfam00892 1104321000270 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 1104321000271 EamA-like transporter family; Region: EamA; pfam00892 1104321000272 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 1104321000273 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 1104321000274 active site 1104321000275 cyclic beta-1,2-glucan ABC transporter; Provisional; Region: PRK13657 1104321000276 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 1104321000277 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1104321000278 Walker A/P-loop; other site 1104321000279 ATP binding site [chemical binding]; other site 1104321000280 Q-loop/lid; other site 1104321000281 ABC transporter signature motif; other site 1104321000282 Walker B; other site 1104321000283 D-loop; other site 1104321000284 H-loop/switch region; other site 1104321000285 Metal-dependent hydrolases of the beta-lactamase superfamily I [General function prediction only]; Region: PhnP; COG1235 1104321000286 putative hydrolase; Provisional; Region: PRK02113 1104321000287 Predicted metal-dependent hydrolases with the TIM-barrel fold [General function prediction only]; Region: COG1099 1104321000288 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 1104321000289 active site 1104321000290 methionyl-tRNA synthetase; Reviewed; Region: PRK11893 1104321000291 catalytic core domain of methioninyl-tRNA synthetases; Region: MetRS_core; cd00814 1104321000292 active site 1104321000293 HIGH motif; other site 1104321000294 KMSKS motif; other site 1104321000295 Anticodon-binding domain of methionyl tRNA synthetases; Region: Anticodon_Ia_Met; cd07957 1104321000296 tRNA binding surface [nucleotide binding]; other site 1104321000297 anticodon binding site; other site 1104321000298 DNA polymerase III subunit delta'; Validated; Region: PRK09112 1104321000299 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 1104321000300 DNA polymerase III subunit delta'; Validated; Region: PRK08485 1104321000301 Thymidylate kinase [Nucleotide transport and metabolism]; Region: Tmk; COG0125 1104321000302 Thymidine monophosphate kinase (TMPK), also known as thymidylate kinase, catalyzes the phosphorylation of thymidine monophosphate (TMP) to thymidine diphosphate (TDP) utilizing ATP as its preferred phophoryl donor. TMPK represents the rate-limiting step...; Region: TMPK; cd01672 1104321000303 TMP-binding site; other site 1104321000304 ATP-binding site [chemical binding]; other site 1104321000305 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 1104321000306 D-alanyl-D-alanine carboxypeptidase [Cell envelope biogenesis, outer membrane]; Region: DacC; COG1686 1104321000307 Penicillin-binding protein 5, C-terminal domain; Region: PBP5_C; pfam07943 1104321000308 Lipoproteins [Cell envelope biogenesis, outer membrane]; Region: RlpA; COG0797 1104321000309 Rare lipoprotein A (RlpA)-like double-psi beta-barrel; Region: DPBB_1; pfam03330 1104321000310 Arsenate Reductase (ArsC) family, ArsC subfamily; arsenic reductases similar to that encoded by arsC on the R733 plasmid of Escherichia coli. E. coli ArsC catalyzes the reduction of arsenate [As(V)] to arsenite [As(III)], the first step in the...; Region: ArsC_ArsC; cd03034 1104321000311 ArsC family; Region: ArsC; pfam03960 1104321000312 catalytic residues [active] 1104321000313 Lysozyme family protein [General function prediction only]; Region: zliS; COG3926 1104321000314 Glycosyl hydrolase 108; Region: Glyco_hydro_108; pfam05838 1104321000315 Predicted Peptidoglycan domain; Region: PG_binding_3; pfam09374 1104321000316 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 1104321000317 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1104321000318 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1104321000319 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 1104321000320 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3293 1104321000321 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 1104321000322 Putative transposase of IS4/5 family (DUF4096); Region: DUF4096; pfam13340 1104321000323 Queuine/archaeosine tRNA-ribosyltransferase [Translation, ribosomal structure and biogenesis]; Region: Tgt; COG0343 1104321000324 queuine tRNA-ribosyltransferase; Provisional; Region: tgt; cl00409 1104321000325 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2929 1104321000326 Domain of unknown function (DUF4415); Region: DUF4415; cl01401 1104321000327 Opacity protein and related surface antigens [Cell envelope biogenesis, outer membrane]; Region: COG3637 1104321000328 Integrase [DNA replication, recombination, and repair]; Region: XerC; COG0582 1104321000329 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 1104321000330 active site 1104321000331 Int/Topo IB signature motif; other site 1104321000332 catalytic residues [active] 1104321000333 DNA binding site [nucleotide binding] 1104321000334 Transglycosylase associated protein; Region: Transgly_assoc; pfam04226 1104321000335 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2989 1104321000336 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 1104321000337 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 1104321000338 fumarate hydratase; Provisional; Region: PRK15389 1104321000339 Fumarate hydratase (Fumerase); Region: Fumerase; pfam05681 1104321000340 Fumarase C-terminus; Region: Fumerase_C; pfam05683 1104321000341 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 1104321000342 hypothetical protein; Provisional; Region: PRK06753 1104321000343 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3536 1104321000344 molybdenum cofactor biosynthesis protein A; Provisional; Region: PRK13361 1104321000345 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 1104321000346 FeS/SAM binding site; other site 1104321000347 Molybdenum Cofactor Synthesis C; Region: Mob_synth_C; pfam06463 1104321000348 molybdopterin-guanine dinucleotide biosynthesis protein MobA; Reviewed; Region: mobA; PRK00317 1104321000349 MobA catalyzes the formation of molybdopterin guanine dinucleotide; Region: MobA; cd02503 1104321000350 GTP binding site; other site 1104321000351 Molybdenum is an essential trace element in the form of molybdenum cofactor (Moco) which is associated with the metabolism of nitrogen, carbon and sulfur by redox active enzymes. In E. coli, the synthesis of Moco involves genes from several loci: moa; Region: MobB; cd03116 1104321000352 Walker A motif; other site 1104321000353 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 1104321000354 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 1104321000355 substrate binding pocket [chemical binding]; other site 1104321000356 membrane-bound complex binding site; other site 1104321000357 hinge residues; other site 1104321000358 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 1104321000359 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 1104321000360 dimer interface [polypeptide binding]; other site 1104321000361 conserved gate region; other site 1104321000362 putative PBP binding loops; other site 1104321000363 ABC-ATPase subunit interface; other site 1104321000364 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 1104321000365 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 1104321000366 dimer interface [polypeptide binding]; other site 1104321000367 conserved gate region; other site 1104321000368 putative PBP binding loops; other site 1104321000369 ABC-ATPase subunit interface; other site 1104321000370 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 1104321000371 GST_N family, unknown subfamily 2; composed of uncharacterized bacterial proteins with similarity to GSTs. GSTs are cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with a wide range of...; Region: GST_N_2; cd03047 1104321000372 putative C-terminal domain interface [polypeptide binding]; other site 1104321000373 putative GSH binding site (G-site) [chemical binding]; other site 1104321000374 putative dimer interface [polypeptide binding]; other site 1104321000375 C-terminal, alpha helical domain of an unknown subfamily 2 of Glutathione S-transferases; Region: GST_C_2; cd03180 1104321000376 putative N-terminal domain interface [polypeptide binding]; other site 1104321000377 putative dimer interface [polypeptide binding]; other site 1104321000378 putative substrate binding pocket (H-site) [chemical binding]; other site 1104321000379 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 1104321000380 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 1104321000381 Long-chain fatty acid transport protein [Lipid metabolism]; Region: FadL; COG2067 1104321000382 valyl-tRNA synthetase; Reviewed; Region: valS; PRK05729 1104321000383 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 1104321000384 HIGH motif; other site 1104321000385 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 1104321000386 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 1104321000387 active site 1104321000388 KMSKS motif; other site 1104321000389 Anticodon-binding domain of valyl tRNA synthetases; Region: Anticodon_Ia_Val; cd07962 1104321000390 tRNA binding surface [nucleotide binding]; other site 1104321000391 anticodon binding site; other site 1104321000392 Valyl tRNA synthetase tRNA binding arm; Region: Val_tRNA-synt_C; pfam10458 1104321000393 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3827 1104321000394 type I secretion outer membrane protein, TolC family; Region: type_I_sec_TolC; TIGR01844 1104321000395 Protein-L-isoaspartate carboxylmethyltransferase [Posttranslational modification, protein turnover, chaperones]; Region: Pcm; COG2518 1104321000396 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 1104321000397 S-adenosylmethionine binding site [chemical binding]; other site 1104321000398 Copper chaperone [Inorganic ion transport and metabolism]; Region: CopZ; COG2608 1104321000399 metal-binding site [ion binding] 1104321000400 FeS assembly scaffold SufA; Region: sufA_proteo; TIGR01997 1104321000401 helicase 45; Provisional; Region: PTZ00424 1104321000402 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 1104321000403 ATP binding site [chemical binding]; other site 1104321000404 Mg++ binding site [ion binding]; other site 1104321000405 motif III; other site 1104321000406 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 1104321000407 nucleotide binding region [chemical binding]; other site 1104321000408 ATP-binding site [chemical binding]; other site 1104321000409 ATP-NAD kinase; Region: NAD_kinase; pfam01513 1104321000410 inorganic polyphosphate/ATP-NAD kinase; Reviewed; Region: ppnK; PRK04761 1104321000411 Predicted glycosyltransferases [General function prediction only]; Region: COG1216 1104321000412 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 1104321000413 active site 1104321000414 Glycosyl transferase family group 2; Region: Glyco_trans_2_3; pfam13632 1104321000415 FeS assembly SUF system protein; Region: SUF_assoc; TIGR02945 1104321000416 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 1104321000417 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 1104321000418 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1104321000419 catalytic residue [active] 1104321000420 Cysteine desulfurase activator SufB [Posttranslational modification, protein turnover, chaperones]; Region: SufB; COG0719 1104321000421 FeS assembly protein SufD; Region: sufD; TIGR01981 1104321000422 Cysteine desulfurase activator ATPase [Posttranslational modification, protein turnover, chaperones]; Region: sufC; COG0396 1104321000423 ABC-type transport system involved in Fe-S cluster assembly, ATPase component; Region: ABC_FeS_Assembly; cd03217 1104321000424 Walker A/P-loop; other site 1104321000425 ATP binding site [chemical binding]; other site 1104321000426 Q-loop/lid; other site 1104321000427 ABC transporter signature motif; other site 1104321000428 Walker B; other site 1104321000429 D-loop; other site 1104321000430 H-loop/switch region; other site 1104321000431 cysteine desulfurase activator complex subunit SufB; Provisional; Region: PRK11814 1104321000432 putative ABC transporter; Region: ycf24; CHL00085 1104321000433 Cysteine sulfinate desulfinase/cysteine desulfurase and related enzymes [Amino acid transport and metabolism]; Region: NifS; COG1104 1104321000434 cysteine desulfurase NifS; Region: FeS_nifS; TIGR03402 1104321000435 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1104321000436 catalytic residue [active] 1104321000437 Predicted hydrolase of the alpha/beta superfamily [General function prediction only]; Region: COG2945 1104321000438 Small Multidrug Resistance protein; Region: Multi_Drug_Res; cl00910 1104321000439 Predicted molecular chaperone distantly related to HSP70-fold metalloproteases [Posttranslational modification, protein turnover, chaperones]; Region: COG2377 1104321000440 tyrosyl-tRNA synthetase; Validated; Region: PRK05912 1104321000441 catalytic core domain of tyrosinyl-tRNA synthetase; Region: TyrRS_core; cd00805 1104321000442 active site 1104321000443 HIGH motif; other site 1104321000444 dimer interface [polypeptide binding]; other site 1104321000445 KMSKS motif; other site 1104321000446 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 1104321000447 RNA binding surface [nucleotide binding]; other site 1104321000448 AsmA family; Region: AsmA; pfam05170 1104321000449 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 1104321000450 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 1104321000451 catalytic triad [active] 1104321000452 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cd00657 1104321000453 dinuclear metal binding motif [ion binding]; other site 1104321000454 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3293 1104321000455 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 1104321000456 Putative transposase of IS4/5 family (DUF4096); Region: DUF4096; pfam13340 1104321000457 peptide chain release factor 2; Provisional; Region: PRK07342 1104321000458 This domain is found in peptide chain release factors; Region: PCRF; smart00937 1104321000459 RF-1 domain; Region: RF-1; pfam00472 1104321000460 Membrane carboxypeptidase/penicillin-binding protein [Cell envelope biogenesis, outer membrane]; Region: MrcA; COG5009 1104321000461 Transglycosylase; Region: Transgly; pfam00912 1104321000462 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 1104321000463 AMIN domain; Region: AMIN; pfam11741 1104321000464 N-acetylmuramoyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: AmiC; COG0860 1104321000465 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 1104321000466 active site 1104321000467 metal binding site [ion binding]; metal-binding site 1104321000468 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 1104321000469 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 1104321000470 Ribonuclease E/G family; Region: RNase_E_G; pfam10150 1104321000471 aspartate aminotransferase; Provisional; Region: PRK05764 1104321000472 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 1104321000473 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1104321000474 homodimer interface [polypeptide binding]; other site 1104321000475 catalytic residue [active] 1104321000476 Putative Zn-dependent protease, contains TPR repeats [General function prediction only]; Region: COG4783 1104321000477 Peptidase family M48; Region: Peptidase_M48; cl12018 1104321000478 Protein-disulfide isomerase [Posttranslational modification, protein turnover, chaperones]; Region: DsbG; COG1651 1104321000479 DsbA family, Com1-like subfamily; composed of proteins similar to Com1, a 27-kDa outer membrane-associated immunoreactive protein originally found in both acute and chronic disease strains of the pathogenic bacteria Coxiella burnetti. It contains a CXXC...; Region: DsbA_Com1_like; cd03023 1104321000480 catalytic residues [active] 1104321000481 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 1104321000482 Dehydroquinase class II; Region: DHquinase_II; pfam01220 1104321000483 trimer interface [polypeptide binding]; other site 1104321000484 active site 1104321000485 dimer interface [polypeptide binding]; other site 1104321000486 acetyl-CoA carboxylase biotin carboxyl carrier protein subunit; Validated; Region: PRK06302 1104321000487 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 1104321000488 carboxyltransferase (CT) interaction site; other site 1104321000489 biotinylation site [posttranslational modification]; other site 1104321000490 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK08591 1104321000491 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 1104321000492 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 1104321000493 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 1104321000494 leucyl/phenylalanyl-tRNA--protein transferase; Reviewed; Region: aat; PRK00301 1104321000495 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4765 1104321000496 NADH dehydrogenase; Validated; Region: PRK08183 1104321000497 ribosomal-protein-alanine acetyltransferase; Region: rimI; TIGR01575 1104321000498 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 1104321000499 aspartyl/glutamyl-tRNA amidotransferase subunit B; Validated; Region: gatB; PRK05477 1104321000500 GatB/GatE catalytic domain; Region: GatB_N; pfam02934 1104321000501 GatB domain; Region: GatB_Yqey; smart00845 1104321000502 trigger factor; Provisional; Region: tig; PRK01490 1104321000503 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 1104321000504 Bacterial trigger factor protein (TF) C-terminus; Region: Trigger_C; pfam05698 1104321000505 Uncharacterized membrane-anchored protein [Function unknown]; Region: COG4929 1104321000506 Predicted membrane protein [Function unknown]; Region: COG4872 1104321000507 Uncharacterized conserved small protein [Function unknown]; Region: COG5457 1104321000508 tRNA (uracil-5-)-methyltransferase Gid; Reviewed; Region: PRK05335 1104321000509 Glucose inhibited division protein A; Region: GIDA; pfam01134 1104321000510 Phytoene/squalene synthetase [Lipid metabolism]; Region: ERG9; COG1562 1104321000511 substrate binding pocket [chemical binding]; other site 1104321000512 substrate-Mg2+ binding site; other site 1104321000513 aspartate-rich region 1; other site 1104321000514 aspartate-rich region 2; other site 1104321000515 Mth938-like domain. The members of this family include: Mth938, 2P1, Xcr35, Rpa2829, and several uncharacterized sequences. Mth938 is a hypothetical protein encoded by the Methanobacterium thermoautotrophicum (Mth) genome. This protein crystallizes as a...; Region: Mth938-like; cd00248 1104321000516 bifunctional preprotein translocase subunit SecD/SecF; Reviewed; Region: PRK13023 1104321000517 protein-export membrane protein, SecD/SecF family; Region: 2A0604s01; TIGR00916 1104321000518 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 1104321000519 Protein export membrane protein; Region: SecD_SecF; pfam02355 1104321000520 Preprotein translocase subunit YajC [Intracellular trafficking and secretion]; Region: YajC; COG1862 1104321000521 Predicted ATPase (AAA+ superfamily) [General function prediction only]; Region: COG2607 1104321000522 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 1104321000523 Walker A motif; other site 1104321000524 ATP binding site [chemical binding]; other site 1104321000525 Walker B motif; other site 1104321000526 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 1104321000527 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 1104321000528 Peptidase family M23; Region: Peptidase_M23; pfam01551 1104321000529 protein-L-isoaspartate O-methyltransferase; Reviewed; Region: pcm; PRK00312 1104321000530 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 1104321000531 S-adenosylmethionine binding site [chemical binding]; other site 1104321000532 5'(3')-nucleotidase/polyphosphatase; Provisional; Region: surE; PRK00346 1104321000533 seryl-tRNA synthetase; Provisional; Region: PRK05431 1104321000534 Seryl-tRNA synthetase N-terminal domain; Region: Seryl_tRNA_N; pfam02403 1104321000535 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 1104321000536 dimer interface [polypeptide binding]; other site 1104321000537 active site 1104321000538 motif 1; other site 1104321000539 motif 2; other site 1104321000540 motif 3; other site 1104321000541 Sec-independent protein secretion pathway component TatC [Intracellular trafficking and secretion]; Region: TatC; COG0805 1104321000542 sec-independent translocase; Provisional; Region: PRK00708 1104321000543 twin arginine-targeting protein translocase TatB; Region: tatB; TIGR01410 1104321000544 twin arginine translocase protein A; Provisional; Region: tatA; PRK00720 1104321000545 Chromosome segregation and condensation protein B [DNA replication, recombination and repair]; Region: scpB; COG1386 1104321000546 Rec8/ScpA/Scc1-like protein (kleisin family) [Replication, recombination, and repair]; Region: scpA; COG1354 1104321000547 Beta-glucosidase-related glycosidases [Carbohydrate transport and metabolism]; Region: BglX; COG1472 1104321000548 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; cl07971 1104321000549 Sporulation related domain; Region: SPOR; pfam05036 1104321000550 Arginyl-tRNA synthetase [Translation, ribosomal structure and biogenesis]; Region: ArgS; COG0018 1104321000551 Arginyl tRNA synthetase N terminal dom; Region: Arg_tRNA_synt_N; smart01016 1104321000552 catalytic core domain of arginyl-tRNA synthetases; Region: ArgRS_core; cd00671 1104321000553 active site 1104321000554 HIGH motif; other site 1104321000555 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 1104321000556 KMSK motif region; other site 1104321000557 tRNA binding surface [nucleotide binding]; other site 1104321000558 DALR anticodon binding domain; Region: DALR_1; smart00836 1104321000559 anticodon binding site; other site 1104321000560 deoxyguanosinetriphosphate triphosphohydrolase-like protein; Provisional; Region: PRK01286 1104321000561 Phosphohydrolase-associated domain; Region: HD_assoc; pfam13286 1104321000562 Fe-S cluster assembly scaffold protein [Posttranslational modification, protein turnover, chaperones]; Region: sufA; COG0316 1104321000563 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2979 1104321000564 tellurium resistance terB-like protein, subgroup 3; Region: terB_like_YebE; cd07178 1104321000565 putative metal binding site [ion binding]; other site 1104321000566 Escherichia coli exonuclease III (ExoIII) and Neisseria meningitides NExo-like subfamily of the ExoIII family purinic/apyrimidinic (AP) endonucleases; Region: ExoIII-like_AP-endo; cd09086 1104321000567 putative catalytic site [active] 1104321000568 putative phosphate binding site [ion binding]; other site 1104321000569 active site 1104321000570 metal binding site A [ion binding]; metal-binding site 1104321000571 DNA binding site [nucleotide binding] 1104321000572 putative AP binding site [nucleotide binding]; other site 1104321000573 putative metal binding site B [ion binding]; other site 1104321000574 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 1104321000575 Sel1-like repeats; Region: SEL1; smart00671 1104321000576 Staphylococcal nuclease homologues; Region: SNc; smart00318 1104321000577 Staphylococcal nuclease homologues. SNase homologues are found in bacteria, archaea, and eukaryotes. They contain no disufide bonds; Region: SNc; cl00140 1104321000578 Catalytic site; other site 1104321000579 Uncharacterized subfamily of Uracil-DNA glycosylases; Region: UDG_like_1; cd10033 1104321000580 putative uracil binding site [chemical binding]; other site 1104321000581 putative active site [active] 1104321000582 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 1104321000583 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cd00090 1104321000584 putative DNA binding site [nucleotide binding]; other site 1104321000585 putative Zn2+ binding site [ion binding]; other site 1104321000586 AsnC family; Region: AsnC_trans_reg; pfam01037 1104321000587 Phosphoribosyltransferase; Region: DBI_PRT; pfam02277 1104321000588 Nicotinate-nucleotide-dimethylbenzimidazole phosphoribosyltransferase (DMB-PRT), also called CobT; Region: DMB-PRT_CobT; cd02439 1104321000589 putative dimer interface [polypeptide binding]; other site 1104321000590 active site pocket [active] 1104321000591 putative cataytic base [active] 1104321000592 cobalamin synthase; Reviewed; Region: cobS; PRK00235 1104321000593 Protein of unknown function (DUF1289); Region: DUF1289; pfam06945 1104321000594 Predicted aspartyl protease [General function prediction only]; Region: COG3577 1104321000595 Bacterial aspartate proteases, retropepsin-like protease family; Region: retropepsin_like_bacteria; cd05483 1104321000596 catalytic motif [active] 1104321000597 Catalytic residue [active] 1104321000598 Cellular and retroviral pepsin-like aspartate proteases; Region: pepsin_retropepsin_like; cl11403 1104321000599 tRNA-dihydrouridine synthase A; Provisional; Region: PRK11815 1104321000600 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 1104321000601 FMN binding site [chemical binding]; other site 1104321000602 active site 1104321000603 catalytic residues [active] 1104321000604 substrate binding site [chemical binding]; other site 1104321000605 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 1104321000606 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 1104321000607 substrate binding pocket [chemical binding]; other site 1104321000608 membrane-bound complex binding site; other site 1104321000609 haloacid dehalogenase-like hydrolase; Region: Hydrolase; pfam00702 1104321000610 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 1104321000611 active site 1104321000612 motif I; other site 1104321000613 motif II; other site 1104321000614 Metal-dependent hydrolase involved in phosphonate metabolism [Inorganic ion transport and metabolism]; Region: COG3454 1104321000615 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 1104321000616 PhnM is believed to be a subunit of the membrane associated C-P lyase complex. C-P lyase is thought to catalyze the direct cleavage of inactivated C-P bonds to yield inorganic phosphate and the corresponding hydrocarbons. It is responsible for cleavage...; Region: PhnM; cd01306 1104321000617 active site 1104321000618 putative phosphonate metabolism protein; Region: Phn_opern_protn; TIGR03223 1104321000619 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 1104321000620 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 1104321000621 substrate binding site [chemical binding]; other site 1104321000622 ATP binding site [chemical binding]; other site 1104321000623 galactose mutarotase_like; Region: galactose_mutarotase_like; cd09019 1104321000624 active site 1104321000625 catalytic residues [active] 1104321000626 Lysozyme family protein [General function prediction only]; Region: zliS; COG3926 1104321000627 Glycosyl hydrolase 108; Region: Glyco_hydro_108; pfam05838 1104321000628 Predicted Peptidoglycan domain; Region: PG_binding_3; pfam09374 1104321000629 acyl carrier protein; Provisional; Region: PRK06508 1104321000630 3-oxoacyl-(acyl carrier protein) synthase II; Reviewed; Region: PRK06519 1104321000631 Condensing enzymes; Family of enzymes that catalyze a (decarboxylating or non-decarboxylating) Claisen-like condensation reaction. Members are share strong structural similarity, and are involved in the synthesis and degradation of fatty acids, and the...; Region: cond_enzymes; cl09938 1104321000632 active site 1104321000633 3-oxoacyl-(acyl carrier protein) synthase II; Reviewed; Region: PRK06501 1104321000634 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 1104321000635 dimer interface [polypeptide binding]; other site 1104321000636 active site 1104321000637 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 1104321000638 Alcohol dehydrogenases of the MDR family; Region: Zn_ADH_like1; cd08266 1104321000639 putative NAD(P) binding site [chemical binding]; other site 1104321000640 structural Zn binding site [ion binding]; other site 1104321000641 Bacterial lipid A biosynthesis acyltransferase; Region: Lip_A_acyltrans; pfam03279 1104321000642 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 1104321000643 putative acyl-acceptor binding pocket; other site 1104321000644 Pentose-5-phosphate-3-epimerase [Carbohydrate transport and metabolism]; Region: Rpe; COG0036 1104321000645 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 1104321000646 substrate binding site [chemical binding]; other site 1104321000647 hexamer interface [polypeptide binding]; other site 1104321000648 metal binding site [ion binding]; metal-binding site 1104321000649 adenylosuccinate lyase; Provisional; Region: PRK07492 1104321000650 Adenylsuccinate lyase (ASL)_subgroup 1; Region: Adenylsuccinate_lyase_1; cd01360 1104321000651 tetramer interface [polypeptide binding]; other site 1104321000652 active site 1104321000653 Predicted ring-cleavage extradiol dioxygenase [General function prediction only]; Region: COG2514 1104321000654 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_12; cd07255 1104321000655 putative metal binding site [ion binding]; other site 1104321000656 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 1104321000657 active site 1104321000658 Predicted esterase of the alpha/beta hydrolase fold [General function prediction only]; Region: COG3545 1104321000659 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 1104321000660 2,4-dihydroxyhept-2-ene-1,7-dioic acid aldolase [Carbohydrate transport and metabolism]; Region: HpcH; COG3836 1104321000661 Uncharacterized conserved protein [Function unknown]; Region: COG5467 1104321000662 phosphoribosylaminoimidazole-succinocarboxamide synthase; Reviewed; Region: PRK09362 1104321000663 bacterial and archaeal 5-aminoimidazole-4-(N-succinylcarboxamide) ribonucleotide (SAICAR) synthase; Region: SAICAR_synt_PurC; cd01415 1104321000664 ATP binding site [chemical binding]; other site 1104321000665 active site 1104321000666 substrate binding site [chemical binding]; other site 1104321000667 phosphoribosylformylglycinamidine synthase subunit PurS; Reviewed; Region: PRK05974 1104321000668 phosphoribosylformylglycinamidine synthase I; Provisional; Region: PRK03619 1104321000669 Type 1 glutamine amidotransferase (GATase1)-like domain found in Formylglycinamide ribonucleotide amidotransferase; Region: GATase1_FGAR_AT; cd01740 1104321000670 putative active site [active] 1104321000671 catalytic triad [active] 1104321000672 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 1104321000673 Glutathione S-transferase (GST) family, N-terminal domain; a large, diverse group of cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with a wide range of endogenous and xenobiotic...; Region: GST_N_family; cd00570 1104321000674 C-terminal domain interface [polypeptide binding]; other site 1104321000675 GSH binding site (G-site) [chemical binding]; other site 1104321000676 dimer interface [polypeptide binding]; other site 1104321000677 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cd00299 1104321000678 N-terminal domain interface [polypeptide binding]; other site 1104321000679 dimer interface [polypeptide binding]; other site 1104321000680 substrate binding pocket (H-site) [chemical binding]; other site 1104321000681 phosphoribosylformylglycinamidine synthase II; Provisional; Region: PRK01213 1104321000682 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 1104321000683 dimerization interface [polypeptide binding]; other site 1104321000684 ATP binding site [chemical binding]; other site 1104321000685 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 1104321000686 dimerization interface [polypeptide binding]; other site 1104321000687 ATP binding site [chemical binding]; other site 1104321000688 Stress-induced morphogen (activity unknown) [Signal transduction mechanisms]; Region: BolA; COG0271 1104321000689 Glutaredoxin (GRX) family, PKC-interacting cousin of TRX (PICOT)-like subfamily; composed of PICOT and GRX-PICOT-like proteins. The non-PICOT members of this family contain only the GRX-like domain, whereas PICOT contains an N-terminal TRX-like domain...; Region: GRX_PICOT_like; cd03028 1104321000690 putative GSH binding site [chemical binding]; other site 1104321000691 catalytic residues [active] 1104321000692 bicyclomycin/multidrug efflux system; Provisional; Region: PRK11102 1104321000693 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 1104321000694 putative substrate translocation pore; other site 1104321000695 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 1104321000696 PAP-phosphatase_like domains. PAP-phosphatase is a member of the inositol monophosphatase family, and catalyses the hydrolysis of 3'-phosphoadenosine-5'-phosphate (PAP) to AMP. In Saccharomyces cerevisiae, HAL2 (MET22) is involved in methionine...; Region: PAP_phosphatase; cd01517 1104321000697 active site 1104321000698 putative lithium-binding site [ion binding]; other site 1104321000699 substrate binding site [chemical binding]; other site 1104321000700 tRNA 2-thiocytidine biosynthesis protein TtcA; Provisional; Region: PRK10696 1104321000701 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 1104321000702 Ligand Binding Site [chemical binding]; other site 1104321000703 30S ribosomal protein S4; Validated; Region: rpsD; PRK05327 1104321000704 Ribosomal protein S4/S9 N-terminal domain; Region: Ribosomal_S4; pfam00163 1104321000705 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 1104321000706 RNA binding surface [nucleotide binding]; other site 1104321000707 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3921 1104321000708 Extensin-like protein C-terminus; Region: Extensin-like_C; pfam06904 1104321000709 Protein of unknwon function (DUF3008); Region: DUF3008; pfam11450 1104321000710 DNA polymerase III subunit alpha; Validated; Region: dnaE; PRK05673 1104321000711 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III DnaE1; Region: PHP_PolIIIA_DnaE1; cd07433 1104321000712 putative active site [active] 1104321000713 putative PHP Thumb interface [polypeptide binding]; other site 1104321000714 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 1104321000715 generic binding surface II; other site 1104321000716 generic binding surface I; other site 1104321000717 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 1104321000718 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 1104321000719 Walker A/P-loop; other site 1104321000720 ATP binding site [chemical binding]; other site 1104321000721 Q-loop/lid; other site 1104321000722 ABC transporter signature motif; other site 1104321000723 Walker B; other site 1104321000724 D-loop; other site 1104321000725 H-loop/switch region; other site 1104321000726 lipoprotein releasing system, transmembrane protein, LolC/E family; Region: lolCE; TIGR02212 1104321000727 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 1104321000728 FtsX-like permease family; Region: FtsX; pfam02687 1104321000729 prolyl-tRNA synthetase; Provisional; Region: PRK12325 1104321000730 Prolyl-tRNA synthetase (ProRS) class II core catalytic domain. ProRS is a homodimer. It is responsible for the attachment of proline to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for ATP-dependent...; Region: ProRS_core_prok; cd00779 1104321000731 dimer interface [polypeptide binding]; other site 1104321000732 motif 1; other site 1104321000733 active site 1104321000734 motif 2; other site 1104321000735 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 1104321000736 active site 1104321000737 motif 3; other site 1104321000738 ProRS Prolyl-anticodon binding domain, short version found predominantly in bacteria. ProRS belongs to class II aminoacyl-tRNA synthetases (aaRS). This alignment contains the anticodon binding domain, which is responsible for specificity in tRNA-binding; Region: ProRS_anticodon_short; cd00861 1104321000739 anticodon binding site; other site 1104321000740 Predicted secreted protein [Function unknown]; Region: COG5454 1104321000741 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 1104321000742 Methylmalonyl-CoA epimerase (MMCE); Region: MMCE; cd07249 1104321000743 dimer interface [polypeptide binding]; other site 1104321000744 substrate binding site [chemical binding]; other site 1104321000745 metal binding site [ion binding]; metal-binding site 1104321000746 mRNA degradation ribonucleases J1/J2 (metallo-beta-lactamase superfamily) [Translation, ribosomal structure and biogenesis; Replication, recombination and repair]; Region: COG0595 1104321000747 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 1104321000748 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 1104321000749 Biotin-(acetyl-CoA carboxylase) ligase [Coenzyme metabolism]; Region: BirA; COG0340 1104321000750 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; cl14057 1104321000751 Biotin protein ligase C terminal domain; Region: BPL_C; pfam02237 1104321000752 NADH:ubiquinone oxidoreductase subunit N; Provisional; Region: PRK05777 1104321000753 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 1104321000754 NADH:ubiquinone oxidoreductase subunit M; Reviewed; Region: PRK05846 1104321000755 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 1104321000756 NADH:ubiquinone oxidoreductase subunit L; Reviewed; Region: PRK06590 1104321000757 NADH-Ubiquinone oxidoreductase (complex I), chain 5 N-terminus; Region: Oxidored_q1_N; pfam00662 1104321000758 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 1104321000759 NADH:ubiquinone oxidoreductase subunit K; Validated; Region: PRK05715 1104321000760 NADH:ubiquinone oxidoreductase subunit J; Provisional; Region: PRK06638 1104321000761 NADH dehydrogenase subunit 6; Provisional; Region: ND6; MTH00213 1104321000762 NADH dehydrogenase subunit I; Provisional; Region: PRK05888 1104321000763 4Fe-4S binding domain; Region: Fer4; pfam00037 1104321000764 4Fe-4S binding domain; Region: Fer4; pfam00037 1104321000765 NADH:ubiquinone oxidoreductase subunit H; Provisional; Region: PRK06076 1104321000766 Formate hydrogenlyase subunit 4 [Energy production and conversion]; Region: HyfC; COG0650 1104321000767 NADH dehydrogenase subunit G; Validated; Region: PRK09130 1104321000768 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 1104321000769 catalytic loop [active] 1104321000770 iron binding site [ion binding]; other site 1104321000771 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; pfam10588 1104321000772 MopB_Res_Cmplx1_Nad11: The second domain of the Nad11/75-kDa subunit of the NADH-quinone oxidoreductase/respiratory complex I/NADH dehydrogenase-1(NDH-1) of eukaryotes and the Nqo3/G subunit of alphaproteobacteria NDH-1. The NADH-quinone oxidoreductase...; Region: MopB_Res-Cmplx1_Nad11; cd02773 1104321000773 Domain of unknown function (DUF1982); Region: DUF1982; pfam09326 1104321000774 NADH dehydrogenase I subunit F; Provisional; Region: PRK13596 1104321000775 SLBB domain; Region: SLBB; pfam10531 1104321000776 NADH-ubiquinone oxidoreductase-F iron-sulfur binding region; Region: NADH_4Fe-4S; smart00928 1104321000777 NADH:ubiquinone oxidoreductase 24 kD subunit [Energy production and conversion]; Region: NuoE; COG1905 1104321000778 TRX-like [2Fe-2S] Ferredoxin (Fd) family, NADH:ubiquinone oxidoreductase (Nuo) subunit E subfamily; Nuo, also called respiratory chain Complex 1, is the entry point for electrons into the respiratory chains of bacteria and the mitochondria of eukaryotes; Region: TRX_Fd_NuoE; cd03064 1104321000779 putative dimer interface [polypeptide binding]; other site 1104321000780 [2Fe-2S] cluster binding site [ion binding]; other site 1104321000781 NADH:ubiquinone oxidoreductase 49 kD subunit 7 [Energy production and conversion]; Region: NuoD; COG0649 1104321000782 NADH dehydrogenase subunit D; Validated; Region: PRK06075 1104321000783 NADH dehydrogenase subunit C; Provisional; Region: PRK06074 1104321000784 NADH (or F420H2) dehydrogenase, subunit C; Region: NuoC_fam; TIGR01961 1104321000785 NADH:ubiquinone oxidoreductase 20 kD subunit and related Fe-S oxidoreductases [Energy production and conversion]; Region: NuoB; COG0377 1104321000786 NADH:ubiquinone oxidoreductase subunit A; Validated; Region: PRK06602 1104321000787 O-acetylhomoserine aminocarboxypropyltransferase; Validated; Region: PRK05994 1104321000788 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 1104321000789 homodimer interface [polypeptide binding]; other site 1104321000790 substrate-cofactor binding pocket; other site 1104321000791 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1104321000792 catalytic residue [active] 1104321000793 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 1104321000794 CoenzymeA binding site [chemical binding]; other site 1104321000795 subunit interaction site [polypeptide binding]; other site 1104321000796 PHB binding site; other site 1104321000797 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 1104321000798 23S rRNA interface [nucleotide binding]; other site 1104321000799 L3 interface [polypeptide binding]; other site 1104321000800 30S ribosomal protein S9; Reviewed; Region: rpsI; PRK00132 1104321000801 Agmatinase-like family includes proclavaminic acid amidinohydrolase; Region: Agmatinase_PAH; cd11592 1104321000802 oligomer interface [polypeptide binding]; other site 1104321000803 putative active site [active] 1104321000804 Mn binding site [ion binding]; other site 1104321000805 N-acetyl-gamma-glutamyl-phosphate reductase; Provisional; Region: PRK11863 1104321000806 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 1104321000807 Uncharacterized protein required for cytochrome oxidase assembly [Posttranslational modification, protein turnover, chaperones]; Region: CtaA; COG1612 1104321000808 Cytochrome oxidase assembly protein; Region: COX15-CtaA; cl15852 1104321000809 Protein of unknown function (DUF2842); Region: DUF2842; pfam11003 1104321000810 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Mrp; COG0489 1104321000811 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 1104321000812 putative polysaccharide export protein, PEP-CTERM sytem-associated; Region: pepcterm_export; TIGR03027 1104321000813 SLBB domain; Region: SLBB; pfam10531 1104321000814 exopolysaccharide biosynthesis polyprenyl glycosylphosphotransferase; Region: EPS_sugtrans; TIGR03025 1104321000815 Undecaprenyl-phosphate glucose phosphotransferase; Region: WcaJ_sugtrans; TIGR03023 1104321000816 Sugar transferases involved in lipopolysaccharide synthesis [Cell envelope biogenesis, outer membrane]; Region: WcaJ; COG2148 1104321000817 Small Multidrug Resistance protein; Region: Multi_Drug_Res; cl00910 1104321000818 Helix-Turn-Helix DNA binding domain of putative MlrA-like transcription regulators; Region: HTH_MlrA-like_sg2; cd04765 1104321000819 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 1104321000820 DNA binding residues [nucleotide binding] 1104321000821 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 1104321000822 IHF dimer interface [polypeptide binding]; other site 1104321000823 IHF - DNA interface [nucleotide binding]; other site 1104321000824 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK09352 1104321000825 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 1104321000826 dimer interface [polypeptide binding]; other site 1104321000827 active site 1104321000828 CoA binding pocket [chemical binding]; other site 1104321000829 putative phosphate acyltransferase; Provisional; Region: PRK05331 1104321000830 Uncharacterized ACR, COG1399; Region: DUF177; pfam02620 1104321000831 Uncharacterized conserved protein [Function unknown]; Region: COG5452 1104321000832 Outer membrane lipoprotein OmlA (small protein A) [Cell envelope biogenesis, outer membrane]; Region: OlmA; COG2913 1104321000833 SmpA / OmlA family; Region: SmpA_OmlA; pfam04355 1104321000834 Inorganic pyrophosphatase [Energy production and conversion]; Region: OVP1; COG3808 1104321000835 H(+) -translocating inorganic pyrophosphatase; Region: PLN02255; cl11452 1104321000836 transcription antitermination protein NusB; Reviewed; Region: nusB; PRK00202 1104321000837 putative RNA binding site [nucleotide binding]; other site 1104321000838 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 1104321000839 homopentamer interface [polypeptide binding]; other site 1104321000840 active site 1104321000841 riboflavin synthase subunit alpha; Provisional; Region: PRK09289 1104321000842 Lumazine binding domain; Region: Lum_binding; pfam00677 1104321000843 Lumazine binding domain; Region: Lum_binding; pfam00677 1104321000844 riboflavin biosynthesis protein RibD; Region: eubact_ribD; TIGR00326 1104321000845 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 1104321000846 catalytic motif [active] 1104321000847 Zn binding site [ion binding]; other site 1104321000848 RibD C-terminal domain; Region: RibD_C; cl17279 1104321000849 transcriptional regulator NrdR; Validated; Region: nrdR; PRK00464 1104321000850 ATP cone domain; Region: ATP-cone; pfam03477 1104321000851 serine hydroxymethyltransferase; Reviewed; Region: glyA; PRK00011 1104321000852 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 1104321000853 dimer interface [polypeptide binding]; other site 1104321000854 active site 1104321000855 glycine-pyridoxal phosphate binding site [chemical binding]; other site 1104321000856 folate binding site [chemical binding]; other site 1104321000857 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2989 1104321000858 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 1104321000859 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 1104321000860 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 1104321000861 Transcriptional regulators [Transcription]; Region: MarR; COG1846 1104321000862 Winged helix DNA-binding domain; Region: HTH_27; pfam13463 1104321000863 3-hydroxyisobutyryl-CoA hydrolase; Provisional; Region: PRK05617 1104321000864 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 1104321000865 substrate binding site [chemical binding]; other site 1104321000866 oxyanion hole (OAH) forming residues; other site 1104321000867 trimer interface [polypeptide binding]; other site 1104321000868 2-enoyl-CoA Hydratase C-terminal region; Region: ECH_C; pfam13766 1104321000869 Porphobilinogen synthase (PBGS), which is also called delta-aminolevulinic acid dehydratase (ALAD), catalyzes the condensation of two 5-aminolevulinic acid (ALA) molecules to form the pyrrole porphobilinogen (PBG), which is the second step in the...; Region: ALAD_PBGS_aspartate_rich; cd04823 1104321000870 dimer interface [polypeptide binding]; other site 1104321000871 allosteric magnesium binding site [ion binding]; other site 1104321000872 active site 1104321000873 aspartate-rich active site metal binding site; other site 1104321000874 Schiff base residues; other site 1104321000875 Predicted membrane protein/domain [Function unknown]; Region: COG1714 1104321000876 Arginine-tRNA-protein transferase, N terminus; Region: ATE_N; pfam04376 1104321000877 Putative arginyl-tRNA:protein arginylyltransferase [Posttranslational modification, protein turnover, chaperones]; Region: COG2935 1104321000878 Arginine-tRNA-protein transferase, C terminus; Region: ATE_C; pfam04377 1104321000879 DNA topoisomerase IV subunit A; Validated; Region: PRK05561 1104321000880 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 1104321000881 CAP-like domain; other site 1104321000882 active site 1104321000883 primary dimer interface [polypeptide binding]; other site 1104321000884 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 1104321000885 aspartyl-tRNA synthetase; Validated; Region: aspS; PRK00476 1104321000886 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 1104321000887 dimer interface [polypeptide binding]; other site 1104321000888 anticodon binding site; other site 1104321000889 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 1104321000890 homodimer interface [polypeptide binding]; other site 1104321000891 motif 1; other site 1104321000892 active site 1104321000893 motif 2; other site 1104321000894 GAD domain; Region: GAD; pfam02938 1104321000895 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 1104321000896 active site 1104321000897 motif 3; other site 1104321000898 Ribonuclease D [Translation, ribosomal structure and biogenesis]; Region: Rnd; COG0349 1104321000899 DEDDy 3'-5' exonuclease domain of Ribonuclease D and similar proteins; Region: RNaseD_exo; cd06142 1104321000900 catalytic site [active] 1104321000901 putative active site [active] 1104321000902 putative substrate binding site [chemical binding]; other site 1104321000903 HRDC domain; Region: HRDC; pfam00570 1104321000904 Exopolyphosphatase [Nucleotide transport and metabolism / Inorganic ion transport and metabolism]; Region: GppA; COG0248 1104321000905 Ppx/GppA phosphatase family; Region: Ppx-GppA; pfam02541 1104321000906 polyphosphate kinase; Provisional; Region: PRK05443 1104321000907 Polyphosphate kinase N-terminal domain; Region: PP_kinase_N; pfam13089 1104321000908 Polyphosphate kinase middle domain; Region: PP_kinase; pfam02503 1104321000909 Catalytic C-terminal domain, first repeat, of Pseudomonas aeruginosa polyphosphate kinase 1 and similar proteins; Region: PLDc_PaPPK1_C1_like; cd09165 1104321000910 putative domain interface [polypeptide binding]; other site 1104321000911 putative active site [active] 1104321000912 catalytic site [active] 1104321000913 Catalytic C-terminal domain, second repeat, of Pseudomonas aeruginosa polyphosphate kinase 1 and similar proteins; Region: PLDc_PaPPK1_C2_like; cd09168 1104321000914 putative domain interface [polypeptide binding]; other site 1104321000915 putative active site [active] 1104321000916 catalytic site [active] 1104321000917 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4391 1104321000918 salicylate hydroxylase; Provisional; Region: PRK06475 1104321000919 salicylate hydroxylase; Provisional; Region: PRK08163 1104321000920 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 1104321000921 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 1104321000922 Walker A/P-loop; other site 1104321000923 ATP binding site [chemical binding]; other site 1104321000924 Q-loop/lid; other site 1104321000925 ABC transporter signature motif; other site 1104321000926 Walker B; other site 1104321000927 D-loop; other site 1104321000928 H-loop/switch region; other site 1104321000929 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 1104321000930 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 1104321000931 dimer interface [polypeptide binding]; other site 1104321000932 conserved gate region; other site 1104321000933 putative PBP binding loops; other site 1104321000934 ABC-ATPase subunit interface; other site 1104321000935 ABC-type amino acid transport system, permease component [Amino acid transport and metabolism]; Region: BatB; COG4597 1104321000936 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 1104321000937 conserved gate region; other site 1104321000938 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 1104321000939 putative PBP binding loops; other site 1104321000940 dimer interface [polypeptide binding]; other site 1104321000941 ABC-ATPase subunit interface; other site 1104321000942 lysine-arginine-ornithine-binding periplasmic protein; Region: 3A0103s03R; TIGR01096 1104321000943 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 1104321000944 substrate binding pocket [chemical binding]; other site 1104321000945 membrane-bound complex binding site; other site 1104321000946 hinge residues; other site 1104321000947 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 1104321000948 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 1104321000949 active site 1104321000950 cystathionine beta-lyase; Provisional; Region: PRK05967 1104321000951 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 1104321000952 homodimer interface [polypeptide binding]; other site 1104321000953 substrate-cofactor binding pocket; other site 1104321000954 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1104321000955 catalytic residue [active] 1104321000956 Uncharacterized protein with a bacterial SH3 domain homologue [Function unknown]; Region: COG4991 1104321000957 Bacterial SH3 domain; Region: SH3_3; pfam08239 1104321000958 Uncharacterized protein containing a TIR (Toll-Interleukin 1-resistance) domain [Function unknown]; Region: COG4916 1104321000959 TIR domain; Region: TIR_2; pfam13676 1104321000960 Domain of unknown function (DUF955); Region: DUF955; pfam06114 1104321000961 TniQ; Region: TniQ; pfam06527 1104321000962 AAA domain; Region: AAA_22; pfam13401 1104321000963 AAA ATPase domain; Region: AAA_16; pfam13191 1104321000964 Integrase core domain; Region: rve; pfam00665 1104321000965 Mu transposase, C-terminal; Region: Mu-transpos_C; pfam09299 1104321000966 DnaQ-like (or DEDD) 3'-5' exonuclease domain superfamily; Region: DnaQ_like_exo; cl10012 1104321000967 active site 1104321000968 substrate binding site [chemical binding]; other site 1104321000969 catalytic site [active] 1104321000970 ETC complex I subunit conserved region; Region: ETC_C1_NDUFA4; pfam04800 1104321000971 L-lactate permease [Energy production and conversion]; Region: LldP; COG1620 1104321000972 L-lactate permease; Region: Lactate_perm; cl00701 1104321000973 putative beta-ketoacyl acyl carrier protein [ACP] reductase (BKR)-like, SDR; Region: BKR_like_SDR_like; cd05344 1104321000974 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK05565 1104321000975 putative NAD(P) binding site [chemical binding]; other site 1104321000976 putative active site [active] 1104321000977 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1104321000978 NAD dependent epimerase/dehydratase family; Region: Epimerase; pfam01370 1104321000979 NAD(P) binding site [chemical binding]; other site 1104321000980 active site 1104321000981 hypothetical protein; Validated; Region: PRK09087 1104321000982 ATPase involved in DNA replication initiation [DNA replication, recombination, and repair]; Region: DnaA; COG0593 1104321000983 Walker A motif; other site 1104321000984 ATP binding site [chemical binding]; other site 1104321000985 Walker B motif; other site 1104321000986 arginine finger; other site 1104321000987 Domain of unknown function DUF20; Region: UPF0118; pfam01594 1104321000988 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 1104321000989 phosphoribosylaminoimidazole synthetase; Provisional; Region: PRK05385 1104321000990 PurM (Aminoimidazole Ribonucleotide [AIR] synthetase), one of eleven enzymes required for purine biosynthesis, catalyzes the conversion of formylglycinamide ribonucleotide (FGAM) and ATP to AIR, ADP, and Pi, the fifth step in de novo purine biosynthesis; Region: PurM; cd02196 1104321000991 dimerization interface [polypeptide binding]; other site 1104321000992 putative ATP binding site [chemical binding]; other site 1104321000993 phosphoribosylglycinamide formyltransferase; Reviewed; Region: purN; PRK05647 1104321000994 Phosphoribosylglycinamide formyltransferase (GAR transformylase, GART); Region: FMT_core_GART; cd08645 1104321000995 active site 1104321000996 substrate binding site [chemical binding]; other site 1104321000997 cosubstrate binding site; other site 1104321000998 catalytic site [active] 1104321000999 Protein of unknown function (DUF992); Region: DUF992; pfam06186 1104321001000 The MopB_3 CD includes a group of related uncharacterized bacterial and archaeal molybdopterin-binding oxidoreductase-like domains with a putative N-terminal iron-sulfur [4Fe-4S] cluster binding site and molybdopterin cofactor binding site. These members...; Region: MopB_3; cd02766 1104321001001 Anaerobic dehydrogenases, typically selenocysteine-containing [Energy production and conversion]; Region: BisC; COG0243 1104321001002 putative molybdopterin cofactor binding site [chemical binding]; other site 1104321001003 The MopB_CT_3 CD includes a group of related uncharacterized bacterial molybdopterin-binding oxidoreductase-like domains with a putative N-terminal iron-sulfur [4Fe-4S] cluster binding site and molybdopterin cofactor binding site. This CD is of the...; Region: MopB_CT_3; cd02786 1104321001004 putative molybdopterin cofactor binding site; other site 1104321001005 phosphonate utilization associated putative membrane protein; Region: phn_DUF6; TIGR03340 1104321001006 Protein involved in catabolism of external DNA [General function prediction only]; Region: ComJ; COG2961 1104321001007 Bacteriophage capsid protein [General function prediction only]; Region: COG5511 1104321001008 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 1104321001009 Ribonuclease T2 (RNase T2) is a widespread family of secreted RNases found in every organism examined thus far. This family includes RNase Rh, RNase MC1, RNase LE, and self-incompatibility RNases (S-RNases). Plant T2 RNases are expressed during leaf...; Region: RNase_T2_prok; cd01062 1104321001010 B1 nucleotide binding pocket [chemical binding]; other site 1104321001011 B2 nucleotide binding pocket [chemical binding]; other site 1104321001012 CAS motifs; other site 1104321001013 active site 1104321001014 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 1104321001015 GST_N family, unknown subfamily 3; composed of uncharacterized bacterial proteins with similarity to GSTs. GSTs are cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with a wide range of...; Region: GST_N_3; cd03049 1104321001016 putative C-terminal domain interface [polypeptide binding]; other site 1104321001017 putative GSH binding site (G-site) [chemical binding]; other site 1104321001018 putative dimer interface [polypeptide binding]; other site 1104321001019 C-terminal, alpha helical domain of an unknown subfamily 6 of Glutathione S-transferases; Region: GST_C_6; cd03205 1104321001020 dimer interface [polypeptide binding]; other site 1104321001021 N-terminal domain interface [polypeptide binding]; other site 1104321001022 putative substrate binding pocket (H-site) [chemical binding]; other site 1104321001023 Opacity protein and related surface antigens [Cell envelope biogenesis, outer membrane]; Region: COG3637 1104321001024 short chain dehydrogenase; Provisional; Region: PRK09134 1104321001025 pteridine reductase (PR), classical (c) SDRs; Region: PR_SDR_c; cd05357 1104321001026 NADP binding site [chemical binding]; other site 1104321001027 substrate binding pocket [chemical binding]; other site 1104321001028 active site 1104321001029 excinuclease ABC subunit C; Validated; Region: uvrC; PRK00558 1104321001030 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 1104321001031 GIY-YIG motif/motif A; other site 1104321001032 active site 1104321001033 catalytic site [active] 1104321001034 putative DNA binding site [nucleotide binding]; other site 1104321001035 metal binding site [ion binding]; metal-binding site 1104321001036 UvrC Helix-hairpin-helix N-terminal; Region: UvrC_HhH_N; pfam08459 1104321001037 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cl14786 1104321001038 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 1104321001039 Ubiquitin domain of MoaD-like proteins; Region: MoaD; cd00754 1104321001040 MoaE interaction surface [polypeptide binding]; other site 1104321001041 MoeB interaction surface [polypeptide binding]; other site 1104321001042 thiocarboxylated glycine; other site 1104321001043 MoaE family. Members of this family are involved in biosynthesis of the molybdenum cofactor (Moco), an essential cofactor for a diverse group of redox enzymes. Moco biosynthesis is an evolutionarily conserved pathway present in eubacteria, archaea and...; Region: MoaE; cd00756 1104321001044 MoaE homodimer interface [polypeptide binding]; other site 1104321001045 MoaD interaction [polypeptide binding]; other site 1104321001046 active site residues [active] 1104321001047 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3126 1104321001048 Heat shock protein [Posttranslational modification, protein turnover, chaperones]; Region: HslJ; COG3187 1104321001049 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 1104321001050 active site 1104321001051 multimer interface [polypeptide binding]; other site 1104321001052 Uncharacterized protein conserved in bacteria [Function unknown]; Region: DinB; COG2318 1104321001053 DinB superfamily; Region: DinB_2; pfam12867 1104321001054 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 1104321001055 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1104321001056 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1104321001057 Walker A/P-loop; other site 1104321001058 ATP binding site [chemical binding]; other site 1104321001059 ABC transporter signature motif; other site 1104321001060 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1104321001061 Walker B; other site 1104321001062 D-loop; other site 1104321001063 ABC transporter; Region: ABC_tran_2; pfam12848 1104321001064 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1104321001065 DNA polymerase III subunit chi; Validated; Region: PRK05728 1104321001066 multifunctional aminopeptidase A; Provisional; Region: PRK00913 1104321001067 Cytosol aminopeptidase family, N-terminal and catalytic domains. Family M17 contains zinc- and manganese-dependent exopeptidases ( EC 3.4.11.1), including leucine aminopeptidase. They catalyze removal of amino acids from the N-terminus of a protein and...; Region: Peptidase_M17; cd00433 1104321001068 interface (dimer of trimers) [polypeptide binding]; other site 1104321001069 Substrate-binding/catalytic site; other site 1104321001070 Zn-binding sites [ion binding]; other site 1104321001071 Predicted permeases [General function prediction only]; Region: COG0795 1104321001072 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 1104321001073 Predicted permeases [General function prediction only]; Region: COG0795 1104321001074 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 1104321001075 Organic solvent tolerance protein OstA [Cell envelope biogenesis, outer membrane]; Region: Imp; COG1452 1104321001076 OstA-like protein; Region: OstA; cl00844 1104321001077 Organic solvent tolerance protein; Region: OstA_C; pfam04453 1104321001078 Parvulin-like peptidyl-prolyl isomerase [Posttranslational modification, protein turnover, chaperones]; Region: SurA; COG0760 1104321001079 SurA N-terminal domain; Region: SurA_N; pfam09312 1104321001080 4-hydroxythreonine-4-phosphate dehydrogenase; Provisional; Region: pdxA; PRK05312 1104321001081 4-hydroxythreonine-4-phosphate dehydrogenase; Validated; Region: pdxA; PRK03743 1104321001082 16S ribosomal RNA methyltransferase KsgA/Dim1 family protein; Reviewed; Region: ksgA; PRK00274 1104321001083 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 1104321001084 S-adenosylmethionine binding site [chemical binding]; other site 1104321001085 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 1104321001086 Peptidase family M23; Region: Peptidase_M23; pfam01551 1104321001087 Predicted permeases [General function prediction only]; Region: RarD; COG2962 1104321001088 putative alpha-isopropylmalate/homocitrate synthase family transferase; Provisional; Region: PRK12344 1104321001089 Desulfobacterium autotrophicum LeuA3 and related proteins, N-terminal catalytic TIM barrel domain; Region: DRE_TIM_LeuA3; cd07941 1104321001090 active site 1104321001091 catalytic residues [active] 1104321001092 metal binding site [ion binding]; metal-binding site 1104321001093 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; smart00917 1104321001094 cysteinyl-tRNA synthetase; Validated; Region: cysS; PRK00260 1104321001095 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 1104321001096 active site 1104321001097 HIGH motif; other site 1104321001098 nucleotide binding site [chemical binding]; other site 1104321001099 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 1104321001100 KMSKS motif; other site 1104321001101 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 1104321001102 Lysine efflux permease [General function prediction only]; Region: COG1279 1104321001103 Uncharacterized conserved protein [Function unknown]; Region: COG2135 1104321001104 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 1104321001105 nudix motif; other site 1104321001106 TIGR02301 family protein; Region: TIGR02301 1104321001107 dihydroorotase; Validated; Region: PRK09060 1104321001108 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 1104321001109 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 1104321001110 active site 1104321001111 Predicted aminomethyltransferase related to GcvT [General function prediction only]; Region: COG0354 1104321001112 folate-binding protein YgfZ; Region: ygfZ_signature; TIGR03317 1104321001113 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 1104321001114 Predicted hydrolases of HD superfamily [General function prediction only]; Region: COG1896 1104321001115 Predicted protein tyrosine phosphatase [General function prediction only]; Region: COG5350 1104321001116 Recombination protein O N terminal; Region: RecO_N; pfam11967 1104321001117 DNA repair protein RecO; Region: reco; TIGR00613 1104321001118 Recombination protein O C terminal; Region: RecO_C; pfam02565 1104321001119 GTPase Era; Reviewed; Region: era; PRK00089 1104321001120 E. coli Ras-like protein (Era) is a multifunctional GTPase; Region: Era; cd04163 1104321001121 G1 box; other site 1104321001122 GTP/Mg2+ binding site [chemical binding]; other site 1104321001123 Switch I region; other site 1104321001124 G2 box; other site 1104321001125 Switch II region; other site 1104321001126 G3 box; other site 1104321001127 G4 box; other site 1104321001128 G5 box; other site 1104321001129 KH domain; Region: KH_2; pfam07650 1104321001130 ribonuclease III; Reviewed; Region: PRK12371 1104321001131 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 1104321001132 dimerization interface [polypeptide binding]; other site 1104321001133 active site 1104321001134 metal binding site [ion binding]; metal-binding site 1104321001135 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 1104321001136 dsRNA binding site [nucleotide binding]; other site 1104321001137 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 1104321001138 Catalytic site [active] 1104321001139 Signal peptidase, peptidase S26; Region: Peptidase_S26; pfam10502 1104321001140 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 1104321001141 4'-phosphopantetheinyl transferase; Provisional; Region: acpS; PRK00070 1104321001142 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3216 1104321001143 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 1104321001144 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1104321001145 Helix-turn-helix domain; Region: HTH_18; pfam12833 1104321001146 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1104321001147 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 1104321001148 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1104321001149 putative substrate translocation pore; other site 1104321001150 potential frameshift: common BLAST hit: gi|17987576|ref|NP_540210.1| coproporphyrinogen III oxidase 1104321001151 HemN C-terminal domain; Region: HemN_C; pfam06969 1104321001152 Elongator protein 3, MiaB family, Radical SAM; Region: Elp3; smart00729 1104321001153 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 1104321001154 FeS/SAM binding site; other site 1104321001155 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 1104321001156 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 1104321001157 ligand binding site [chemical binding]; other site 1104321001158 flexible hinge region; other site 1104321001159 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 1104321001160 putative switch regulator; other site 1104321001161 non-specific DNA interactions [nucleotide binding]; other site 1104321001162 DNA binding site [nucleotide binding] 1104321001163 sequence specific DNA binding site [nucleotide binding]; other site 1104321001164 putative cAMP binding site [chemical binding]; other site 1104321001165 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1104321001166 active site 1104321001167 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 1104321001168 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 1104321001169 Zn2+ binding site [ion binding]; other site 1104321001170 Mg2+ binding site [ion binding]; other site 1104321001171 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 1104321001172 synthetase active site [active] 1104321001173 NTP binding site [chemical binding]; other site 1104321001174 metal binding site [ion binding]; metal-binding site 1104321001175 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 1104321001176 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 1104321001177 DNA-directed RNA polymerase subunit omega; Reviewed; Region: rpoZ; PRK00392 1104321001178 Uncharacterized conserved protein [Function unknown]; Region: COG1432 1104321001179 LabA_like proteins; Region: LabA; cd10911 1104321001180 putative metal binding site [ion binding]; other site 1104321001181 Family-5 Uracil-DNA glycosylases (UDG), found in thermophilic organisms; Region: UDG_F5_TTUDGB_like; cd10031 1104321001182 Fe-S cluster binding site [ion binding]; other site 1104321001183 DNA binding site [nucleotide binding] 1104321001184 active site 1104321001185 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 1104321001186 SmpB-tmRNA interface; other site 1104321001187 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 1104321001188 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 1104321001189 dimer interface [polypeptide binding]; other site 1104321001190 active site 1104321001191 catalytic residue [active] 1104321001192 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 1104321001193 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 1104321001194 N-acetyl-D-glucosamine binding site [chemical binding]; other site 1104321001195 catalytic residue [active] 1104321001196 Uncharacterized conserved protein [Function unknown]; Region: COG3743 1104321001197 Porin subfamily; Region: Porin_2; pfam02530 1104321001198 Porin subfamily; Region: Porin_2; pfam02530 1104321001199 tyrosine recombinase XerD; Region: recomb_XerD; TIGR02225 1104321001200 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 1104321001201 active site 1104321001202 DNA binding site [nucleotide binding] 1104321001203 Int/Topo IB signature motif; other site 1104321001204 histidinol-phosphate aminotransferase; Provisional; Region: PRK08153 1104321001205 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 1104321001206 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1104321001207 homodimer interface [polypeptide binding]; other site 1104321001208 catalytic residue [active] 1104321001209 Uncharacterized small membrane protein [Function unknown]; Region: COG2363 1104321001210 Uncharacterized conserved protein [Function unknown]; Region: COG1284 1104321001211 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 1104321001212 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 1104321001213 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 1104321001214 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4731 1104321001215 GST_N family, Ure2p-like subfamily; composed of the Saccharomyces cerevisiae Ure2p and related GSTs. Ure2p is a regulator for nitrogen catabolism in yeast. It represses the expression of several gene products involved in the use of poor nitrogen sources...; Region: GST_N_Ure2p_like; cd03048 1104321001216 GSH-dependent disulfide bond oxidoreductase; Provisional; Region: PRK13972 1104321001217 C-terminal domain interface [polypeptide binding]; other site 1104321001218 GSH binding site (G-site) [chemical binding]; other site 1104321001219 dimer interface [polypeptide binding]; other site 1104321001220 C-terminal, alpha helical domain of Escherichia coli YfcG Glutathione S-transferases and related uncharacterized proteins; Region: GST_C_YfcG_like; cd10291 1104321001221 N-terminal domain interface [polypeptide binding]; other site 1104321001222 putative dimer interface [polypeptide binding]; other site 1104321001223 active site 1104321001224 AMP nucleosidase; Provisional; Region: PRK08292 1104321001225 Bacterial AMP nucleoside phosphorylase N-terminus; Region: AMNp_N; pfam10423 1104321001226 Nucleoside phosphorylase [Nucleotide transport and metabolism]; Region: Pfs; COG0775 1104321001227 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3021 1104321001228 putative catalytic site [active] 1104321001229 putative metal binding site [ion binding]; other site 1104321001230 putative phosphate binding site [ion binding]; other site 1104321001231 Dehydrogenases (flavoproteins) [Energy production and conversion]; Region: FixC; COG0644 1104321001232 hydroxyglutarate oxidase; Provisional; Region: PRK11728 1104321001233 Electron transfer flavoprotein-ubiquinone oxidoreductase; Region: ETF_QO; pfam05187 1104321001234 Family 4 Uracil-DNA glycosylase (UDG), found exclusively in thermophilic organisms; Region: UDG_F4_TTUDGA_like; cd10030 1104321001235 Fe-S cluster binding site [ion binding]; other site 1104321001236 active site 1104321001237 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 1104321001238 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1104321001239 putative substrate translocation pore; other site 1104321001240 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 1104321001241 EamA-like transporter family; Region: EamA; pfam00892 1104321001242 aminopeptidase N; Provisional; Region: pepN; PRK14015 1104321001243 Peptidase M1 family containing Aminopeptidase N; Region: M1_APN_1; cd09600 1104321001244 active site 1104321001245 Zn binding site [ion binding]; other site 1104321001246 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 1104321001247 PAS fold; Region: PAS_3; pfam08447 1104321001248 putative active site [active] 1104321001249 heme pocket [chemical binding]; other site 1104321001250 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 1104321001251 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 1104321001252 dimer interface [polypeptide binding]; other site 1104321001253 phosphorylation site [posttranslational modification] 1104321001254 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 1104321001255 ATP binding site [chemical binding]; other site 1104321001256 Mg2+ binding site [ion binding]; other site 1104321001257 G-X-G motif; other site 1104321001258 Glycosyltransferase family 25 [lipooligosaccharide (LOS) biosynthesis protein] is a family of glycosyltransferases involved in LOS biosynthesis. The members include the beta(1,4) galactosyltransferases: Lgt2 of Moraxella catarrhalis, LgtB and LgtE of...; Region: Glyco_transf_25; cd06532 1104321001259 Glycosyltransferase family 25 [lipooligosaccharide (LOS) biosynthesis protein] is a family of glycosyltransferases involved in LOS biosynthesis. The members include the beta(1,4) galactosyltransferases: Lgt2 of Moraxella catarrhalis, LgtB and LgtE of...; Region: Glyco_transf_25; cl01298 1104321001260 O-Antigen ligase; Region: Wzy_C; pfam04932 1104321001261 bifunctional glutamine-synthetase adenylyltransferase/deadenyltransferase; Provisional; Region: PRK14108 1104321001262 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 1104321001263 metal binding triad; other site 1104321001264 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 1104321001265 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 1104321001266 metal binding triad; other site 1104321001267 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 1104321001268 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1104321001269 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 1104321001270 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 1104321001271 dimerization interface [polypeptide binding]; other site 1104321001272 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 1104321001273 dimer interface [polypeptide binding]; other site 1104321001274 phosphorylation site [posttranslational modification] 1104321001275 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 1104321001276 ATP binding site [chemical binding]; other site 1104321001277 Mg2+ binding site [ion binding]; other site 1104321001278 G-X-G motif; other site 1104321001279 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1104321001280 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1104321001281 active site 1104321001282 phosphorylation site [posttranslational modification] 1104321001283 intermolecular recognition site; other site 1104321001284 dimerization interface [polypeptide binding]; other site 1104321001285 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 1104321001286 DNA binding site [nucleotide binding] 1104321001287 periplasmic serine protease, Do/DeqQ family; Region: degP_htrA_DO; TIGR02037 1104321001288 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 1104321001289 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 1104321001290 protein binding site [polypeptide binding]; other site 1104321001291 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 1104321001292 protein binding site [polypeptide binding]; other site 1104321001293 Uncharacterized protein involved in biosynthesis of c-type cytochromes [Posttranslational modification, protein turnover, chaperones]; Region: CcmH; COG3088 1104321001294 Cytochrome c biogenesis factor [Posttranslational modification, protein turnover, chaperones]; Region: CcmF; COG1138 1104321001295 cytochrome c-type biogenesis protein CcmE; Reviewed; Region: PRK13254 1104321001296 Cytochrome c biogenesis factor [Posttranslational modification, protein turnover, chaperones]; Region: COG4235 1104321001297 cytochrome c-type biogenesis protein CcmI; Region: cytochro_ccmI; TIGR03142 1104321001298 Surface antigen [Cell envelope biogenesis, outer membrane]; Region: LipA; COG4520 1104321001299 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1104321001300 HAMP domain; Region: HAMP; pfam00672 1104321001301 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 1104321001302 ATP binding site [chemical binding]; other site 1104321001303 Mg2+ binding site [ion binding]; other site 1104321001304 G-X-G motif; other site 1104321001305 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1104321001306 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1104321001307 active site 1104321001308 phosphorylation site [posttranslational modification] 1104321001309 intermolecular recognition site; other site 1104321001310 dimerization interface [polypeptide binding]; other site 1104321001311 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 1104321001312 DNA binding site [nucleotide binding] 1104321001313 potential frameshift: common BLAST hit: gi|256369040|ref|YP_003106548.1| phage host specificity protein 1104321001314 GTA TIM-barrel-like domain; Region: GTA_TIM; pfam13547 1104321001315 Putative phage tail protein; Region: Phage-tail_3; pfam13550 1104321001316 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 1104321001317 putative phage cell wall peptidase, NlpC/P60 family; Region: phage_NlpC_fam; TIGR02219 1104321001318 Uncharacterized conserved protein (DUF2163); Region: DUF2163; pfam09931 1104321001319 phage conserved hypothetical protein BR0599; Region: phg_TIGR02218 1104321001320 Phage conserved hypothetical protein BR0599; Region: Phage_BR0599; pfam09356 1104321001321 TIGR02217 family protein; Region: chp_TIGR02217 1104321001322 Phage-related minor tail protein [Function unknown]; Region: COG5281 1104321001323 Conserved hypothetical phage protein (DUF2376); Region: DUF2376; pfam09550 1104321001324 Protein of unknown function (DUF3356); Region: DUF3356; pfam11836 1104321001325 Predicted secreted protein [Function unknown]; Region: COG5437 1104321001326 Protein of unknown function (DUF3168); Region: DUF3168; pfam11367 1104321001327 Phage head-tail joining protein; Region: Phage_H_T_join; pfam05521 1104321001328 phage conserved hypothetical protein, phiE125 gp8 family; Region: phage_chp_gp8; TIGR02215 1104321001329 Head-Tail Connector Protein gp6 of Bacteriophage HK97 and similar proteins; Region: gp6; cd08054 1104321001330 Head-Tail Connector Protein gp6 of Bacteriophage HK97 and similar proteins; Region: gp6; cd08054 1104321001331 oligomerization interface [polypeptide binding]; other site 1104321001332 Predicted phage phi-C31 gp36 major capsid-like protein [General function prediction only]; Region: COG4653 1104321001333 Phage capsid family; Region: Phage_capsid; pfam05065 1104321001334 Caudovirus prohead protease; Region: Peptidase_U35; pfam04586 1104321001335 Phage-related protein [Function unknown]; Region: COG4695 1104321001336 phage portal protein, HK97 family; Region: portal_HK97; TIGR01537 1104321001337 Uncharacterized conserved protein [Function unknown]; Region: COG5323 1104321001338 Terminase-like family; Region: Terminase_6; pfam03237 1104321001339 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 1104321001340 Transglycosylase; Region: Transgly; pfam00912 1104321001341 penicillin-binding protein, 1A family; Region: PBP_1a_fam; TIGR02074 1104321001342 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 1104321001343 Uncharacterized conserved protein [Function unknown]; Region: COG5402 1104321001344 Predicted integral membrane protein [Function unknown]; Region: COG5436 1104321001345 Uncharacterized protein conserved in bacteria (DUF2336); Region: DUF2336; pfam10098 1104321001346 Uncharacterized conserved protein [Function unknown]; Region: COG5447 1104321001347 Putative peptidoglycan-binding domain-containing protein [Cell envelope biogenesis, outer membrane]; Region: COG3409 1104321001348 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 1104321001349 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 1104321001350 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cl02459 1104321001351 putative active site [active] 1104321001352 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1104321001353 heme pocket [chemical binding]; other site 1104321001354 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 1104321001355 dimer interface [polypeptide binding]; other site 1104321001356 phosphorylation site [posttranslational modification] 1104321001357 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 1104321001358 ATP binding site [chemical binding]; other site 1104321001359 Mg2+ binding site [ion binding]; other site 1104321001360 G-X-G motif; other site 1104321001361 Flavin Reductases; Region: FlaRed; cl00801 1104321001362 Cysteine desulfurase SufE subunit [Posttranslational modification, protein turnover, chaperones]; Region: sufE; COG2166 1104321001363 amidase; Validated; Region: PRK05962 1104321001364 ATPase involved in DNA replication initiation [DNA replication, recombination, and repair]; Region: DnaA; COG0593 1104321001365 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 1104321001366 DnaA box-binding interface [nucleotide binding]; other site 1104321001367 Predicted transcriptional regulator [Transcription]; Region: COG4957 1104321001368 Protease II [Amino acid transport and metabolism]; Region: PtrB; COG1770 1104321001369 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 1104321001370 Superoxide dismutase [Inorganic ion transport and metabolism]; Region: SodA; COG0605 1104321001371 Iron/manganese superoxide dismutases, alpha-hairpin domain; Region: Sod_Fe_N; pfam00081 1104321001372 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 1104321001373 2-haloalkanoic acid dehalogenase, type II; Region: HAD_type_II; TIGR01428 1104321001374 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 1104321001375 motif II; other site 1104321001376 Uncharacterized protein conserved in bacteria [Function unknown]; Region: ErfK; COG1376 1104321001377 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 1104321001378 Bacterial protein of unknown function (DUF853); Region: DUF853; pfam05872 1104321001379 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 1104321001380 Cyanate permease [Inorganic ion transport and metabolism]; Region: CynX; COG2807 1104321001381 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 1104321001382 putative substrate translocation pore; other site 1104321001383 Transcriptional regulators [Transcription]; Region: FadR; COG2186 1104321001384 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1104321001385 DNA-binding site [nucleotide binding]; DNA binding site 1104321001386 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 1104321001387 Mg2+ and Co2+ transporters [Inorganic ion transport and metabolism]; Region: CorA; COG0598 1104321001388 uncharacterized subgroup of the Escherichia coli Mg2+ transporter CorA_like subfamily; Region: EcCorA-like_u1; cd12837 1104321001389 Cl binding site [ion binding]; other site 1104321001390 oligomer interface [polypeptide binding]; other site 1104321001391 putative addiction module antidote; Region: doc_partner; TIGR02609 1104321001392 Prophage maintenance system killer protein [General function prediction only]; Region: Doc; COG3654 1104321001393 transcription elongation factor regulatory protein; Validated; Region: PRK06342 1104321001394 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 1104321001395 L-asparaginase II [Amino acid transport and metabolism]; Region: AnsA; COG4448 1104321001396 transcriptional regulator BetI; Validated; Region: PRK00767 1104321001397 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1104321001398 Bacterial transcriptional repressor; Region: TetR_C_6; pfam13977 1104321001399 choline dehydrogenase; Validated; Region: PRK02106 1104321001400 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 1104321001401 betaine aldehyde dehydrogenase; Provisional; Region: PRK13252 1104321001402 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 1104321001403 NAD(P) binding site [chemical binding]; other site 1104321001404 catalytic residues [active] 1104321001405 Helix-turn-helix domain; Region: HTH_18; pfam12833 1104321001406 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1104321001407 Periplasmic sugar-binding domain of uncharacterized transport systems; Region: PBP1_uncharacterized_sugar_binding; cd06307 1104321001408 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 1104321001409 putative ligand binding site [chemical binding]; other site 1104321001410 Escherichia coli xylulokinase-like D-xylulose kinases; a subgroup of the FGGY family of carbohydrate kinases; Region: FGGY_D-XK_EcXK-like; cd07808 1104321001411 N- and C-terminal domain interface [polypeptide binding]; other site 1104321001412 D-xylulose kinase; Region: XylB; TIGR01312 1104321001413 active site 1104321001414 MgATP binding site [chemical binding]; other site 1104321001415 catalytic site [active] 1104321001416 metal binding site [ion binding]; metal-binding site 1104321001417 xylulose binding site [chemical binding]; other site 1104321001418 homodimer interface [polypeptide binding]; other site 1104321001419 xylose isomerase; Provisional; Region: PRK05474 1104321001420 xylose isomerase; Region: xylose_isom_A; TIGR02630 1104321001421 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 1104321001422 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 1104321001423 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 1104321001424 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 1104321001425 AP endonuclease family 2; These endonucleases play a role in DNA repair. Cleave phosphodiester bonds at apurinic or apyrimidinic sites; the alignment also contains hexulose-6-phosphate isomerases, enzymes that catalyze the epimerization of...; Region: AP2Ec; cl12060 1104321001426 Metal-binding active site; metal-binding site 1104321001427 AP endonuclease family 2 C terminus; Region: AP_endonuc_2_N; pfam07582 1104321001428 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: RbsB; COG1879 1104321001429 Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems; Region: PBP1_ABC_sugar_binding_like_3; cd06311 1104321001430 putative ligand binding site [chemical binding]; other site 1104321001431 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1104321001432 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 1104321001433 TM-ABC transporter signature motif; other site 1104321001434 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 1104321001435 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 1104321001436 Walker A/P-loop; other site 1104321001437 ATP binding site [chemical binding]; other site 1104321001438 Q-loop/lid; other site 1104321001439 ABC transporter signature motif; other site 1104321001440 Walker B; other site 1104321001441 D-loop; other site 1104321001442 H-loop/switch region; other site 1104321001443 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 1104321001444 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1104321001445 This family is most closely related to the GT1 family of glycosyltransferases. Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to specific acceptor molecules, forming glycosidic bonds. The acceptor molecule can...; Region: GT1_like_4; cd03795 1104321001446 putative ADP-binding pocket [chemical binding]; other site 1104321001447 AGE domain; N-acyl-D-glucosamine 2-epimerase domain; Responsible for intermediate epimerization during biosynthesis of N-acetylneuraminic acid. Catalytic mechanism is believed to be via nucleotide elimination and readdition and is ATP modulated. AGE is...; Region: AGE; cd00249 1104321001448 dimerization interface [polypeptide binding]; other site 1104321001449 putative active cleft [active] 1104321001450 mannose-1-phosphate guanylyltransferase/mannose-6-phosphate isomerase; Region: GMP_PMI; TIGR01479 1104321001451 GDP-M1P_Guanylyltransferase catalyzes the formation of GDP-Mannose; Region: GDP-M1P_Guanylyltransferase; cd02509 1104321001452 Mannose-6-phosphate isomerase; Region: MannoseP_isomer; pfam01050 1104321001453 Phosphomannomutase [Carbohydrate transport and metabolism]; Region: {ManB}; COG1109 1104321001454 ManB is a bacterial phosphomannomutase (PMM) that catalyzes the conversion of mannose 6-phosphate to mannose-1-phosphate in the second of three steps in the GDP-mannose pathway, in which GDP-D-mannose is synthesized from fructose-6-phosphate. In...; Region: ManB; cd03088 1104321001455 active site 1104321001456 substrate binding site [chemical binding]; other site 1104321001457 metal binding site [ion binding]; metal-binding site 1104321001458 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 1104321001459 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3293 1104321001460 Putative transposase of IS4/5 family (DUF4096); Region: DUF4096; pfam13340 1104321001461 Integrase core domain; Region: rve; pfam00665 1104321001462 Integrase core domain; Region: rve; pfam00665 1104321001463 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1104321001464 This family is most closely related to the GT1 family of glycosyltransferases. mtfB (mannosyltransferase B) in E. coli has been shown to direct the growth of the O9-specific polysaccharide chain. It transfers two mannoses into the position 3 of the...; Region: GT1_mtfB_like; cd03809 1104321001465 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 1104321001466 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3293 1104321001467 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 1104321001468 Putative transposase of IS4/5 family (DUF4096); Region: DUF4096; pfam13340 1104321001469 Integrase core domain; Region: rve; pfam00665 1104321001470 DDE domain; Region: DDE_Tnp_IS240; pfam13610 1104321001471 Integrase core domain; Region: rve_3; pfam13683 1104321001472 GDP-D-mannose dehydratase [Cell envelope biogenesis, outer membrane]; Region: Gmd; COG1089 1104321001473 GDP-mannose 4,6 dehydratase, extended (e) SDRs; Region: GDP_MD_SDR_e; cd05260 1104321001474 NADP-binding site; other site 1104321001475 homotetramer interface [polypeptide binding]; other site 1104321001476 substrate binding site [chemical binding]; other site 1104321001477 homodimer interface [polypeptide binding]; other site 1104321001478 active site 1104321001479 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 1104321001480 3-amino-5-hydroxybenzoic acid synthase family (AHBA_syn). AHBA_syn family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The members of this CD are involved in various biosynthetic pathways for secondary...; Region: AHBA_syn; cd00616 1104321001481 inhibitor-cofactor binding pocket; inhibition site 1104321001482 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1104321001483 catalytic residue [active] 1104321001484 Formyltransferase, catalytic core domain; Region: FMT_core; cl00395 1104321001485 Carboxy-terminal domain of Formyltransferase and similar domains; Region: FMT_C_like; cl14785 1104321001486 Integrase core domain; Region: rve_3; pfam13683 1104321001487 Integrase core domain; Region: rve_3; pfam13683 1104321001488 Homeodomain-like domain; Region: HTH_23; cl17451 1104321001489 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; cl17393 1104321001490 UDP-Glcnac (UDP-linked N-acetylglucosamine) inverting 4,6-dehydratase, extended (e) SDRs; Region: UDP_invert_4-6DH_SDR_e; cd05237 1104321001491 NAD dependent epimerase/dehydratase family; Region: Epimerase; pfam01370 1104321001492 NAD(P) binding site [chemical binding]; other site 1104321001493 homodimer interface [polypeptide binding]; other site 1104321001494 substrate binding site [chemical binding]; other site 1104321001495 active site 1104321001496 Protein of unknown function (DUF2793); Region: DUF2793; pfam10983 1104321001497 HIUase (5-hydroxyisourate hydrolase) catalyzes the second step in a three-step ureide pathway in which 5-hydroxyisourate (HIU), a product of the uricase (urate oxidase) reaction, is hydrolyzed to 2-oxo-4-hydroxy-4-carboxy-5-ureidoimidazoline (OHCU); Region: TLP_HIUase; cd05822 1104321001498 active site 1104321001499 homotetramer interface [polypeptide binding]; other site 1104321001500 Ureidoglycolate hydrolase [Nucleotide transport and metabolism]; Region: DAL3; COG3194 1104321001501 ureidoglycolate hydrolase; Provisional; Region: PRK03606 1104321001502 Uncharacterized conserved protein [General function prediction only]; Region: BioY; COG1268 1104321001503 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 1104321001504 Protein of unknown function (DUF1499); Region: DUF1499; pfam07386 1104321001505 potential frameshift: common BLAST hit: gi|148560708|ref|YP_001258514.1| putative lipoprotein 1104321001506 Catalytic NodB homology domain of the carbohydrate esterase 4 superfamily; Region: CE4_SF; cl15692 1104321001507 Predicted xylanase/chitin deacetylase [Carbohydrate transport and metabolism]; Region: CDA1; COG0726 1104321001508 Catalytic NodB homology domain of the carbohydrate esterase 4 superfamily; Region: CE4_SF; cl15692 1104321001509 pyruvate phosphate dikinase; Provisional; Region: PRK09279 1104321001510 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 1104321001511 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 1104321001512 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 1104321001513 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 1104321001514 N-terminal domain of Streptomyces griseus SgaA (suppression of growth disturbance caused by A-factor at a high concentration under high osmolality during early growth phase), and similar domains; Region: SgaA_N_like; cd07247 1104321001515 Co/Zn/Cd efflux system component [Inorganic ion transport and metabolism]; Region: CzcD; COG1230 1104321001516 Chromosome segregation ATPases [Cell division and chromosome partitioning]; Region: Smc; COG1196 1104321001517 ATP-binding cassette domain of barmotin, a member of the SMC protein family; Region: ABC_SMC_barmotin; cd03278 1104321001518 Walker A/P-loop; other site 1104321001519 ATP binding site [chemical binding]; other site 1104321001520 ATP-binding cassette domain of barmotin, a member of the SMC protein family; Region: ABC_SMC_barmotin; cd03278 1104321001521 ABC transporter signature motif; other site 1104321001522 Walker B; other site 1104321001523 D-loop; other site 1104321001524 H-loop/switch region; other site 1104321001525 DSBA-like thioredoxin domain; Region: DSBA; pfam01323 1104321001526 DsbA family; consists of DsbA and DsbA-like proteins, including DsbC, DsbG, glutathione (GSH) S-transferase kappa (GSTK), 2-hydroxychromene-2-carboxylate (HCCA) isomerase, an oxidoreductase (FrnE) presumed to be involved in frenolicin biosynthesis, a...; Region: DsbA_family; cd02972 1104321001527 catalytic residues [active] 1104321001528 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5389 1104321001529 A/G-specific DNA glycosylase [DNA replication, recombination, and repair]; Region: MutY; COG1194 1104321001530 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 1104321001531 minor groove reading motif; other site 1104321001532 helix-hairpin-helix signature motif; other site 1104321001533 substrate binding pocket [chemical binding]; other site 1104321001534 active site 1104321001535 iron-sulpphur binding domain in DNA-(apurinic or apyrimidinic site) lyase (subfamily of ENDO3); Region: FES; smart00525 1104321001536 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 1104321001537 DNA binding and oxoG recognition site [nucleotide binding] 1104321001538 Haloacid dehalogenase-like hydrolase; Region: HAD_2; pfam13419 1104321001539 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 1104321001540 motif II; other site 1104321001541 DNA modification methylase [DNA replication, recombination, and repair]; Region: COG0863 1104321001542 DNA methylase; Region: N6_N4_Mtase; pfam01555 1104321001543 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 1104321001544 Chloride channel protein EriC [Inorganic ion transport and metabolism]; Region: EriC; COG0038 1104321001545 Cl- selectivity filter; other site 1104321001546 Cl- binding residues [ion binding]; other site 1104321001547 pore gating glutamate residue; other site 1104321001548 dimer interface [polypeptide binding]; other site 1104321001549 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-called...; Region: CBS_pair; cl15354 1104321001550 Predicted phosphatase/phosphohexomutase [General function prediction only]; Region: COG0637 1104321001551 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 1104321001552 active site 1104321001553 motif I; other site 1104321001554 motif II; other site 1104321001555 Predicted signal transduction protein containing sensor and EAL domains [Signal transduction mechanisms]; Region: COG4943 1104321001556 CSS motif domain associated with EAL; Region: CSS-motif; pfam12792 1104321001557 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 1104321001558 Threonine synthase [Amino acid transport and metabolism]; Region: ThrC; COG0498 1104321001559 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 1104321001560 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1104321001561 catalytic residue [active] 1104321001562 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 1104321001563 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 1104321001564 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 1104321001565 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 1104321001566 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 1104321001567 7TMR-DISM extracellular 2; Region: 7TMR-DISMED2; pfam07696 1104321001568 PAS fold; Region: PAS_3; pfam08447 1104321001569 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1104321001570 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1104321001571 metal binding site [ion binding]; metal-binding site 1104321001572 active site 1104321001573 I-site; other site 1104321001574 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 1104321001575 hypothetical protein; Validated; Region: PRK00228 1104321001576 Uncharacterized protein predicted to be involved in C-type cytochrome biogenesis [Posttranslational modification, protein turnover, chaperones / Energy production and conversion]; Region: COG4233 1104321001577 Peroxiredoxin (PRX) family, PRX5-like subfamily; members are similar to the human protein, PRX5, a homodimeric TRX peroxidase, widely expressed in tissues and found cellularly in mitochondria, peroxisomes and the cytosol. The cellular location of PRX5...; Region: PRX5_like; cd03013 1104321001578 catalytic triad [active] 1104321001579 dimer interface [polypeptide binding]; other site 1104321001580 RNase HI family found mainly in prokaryotes; Region: RNase_HI_prokaryote_like; cd09278 1104321001581 RNA/DNA hybrid binding site [nucleotide binding]; other site 1104321001582 active site 1104321001583 Putative homoserine kinase type II (protein kinase fold) [General function prediction only]; Region: COG2334 1104321001584 Homoserine Kinase, type II. Homoserine kinase is part of a larger superfamily that includes the catalytic domains of other kinases, such as the typical serine/threonine/tyrosine protein kinases (PKs), RIO kinases, actin-fragmin kinase (AFK), and...; Region: HomoserineK_II; cd05153 1104321001585 putative active site [active] 1104321001586 putative substrate binding site [chemical binding]; other site 1104321001587 ATP binding site [chemical binding]; other site 1104321001588 4-Hydroxy-3-methylbut-2-enyl diphosphate reductase IspH [Lipid metabolism]; Region: lytB; COG0761 1104321001589 4-hydroxy-3-methylbut-2-enyl diphosphate reductase; Reviewed; Region: ispH; PRK01045 1104321001590 SURF1 superfamily. Surf1/Shy1 has been implicated in the posttranslational steps of the biogenesis of the mitochondrially-encoded Cox1 subunit of cytochrome c oxidase (complex IV). Cytochrome c oxidase (complex IV), the terminal electron-transferring...; Region: SURF1; cd06662 1104321001591 SURF1 superfamily. Surf1/Shy1 has been implicated in the posttranslational steps of the biogenesis of the mitochondrially-encoded Cox1 subunit of cytochrome c oxidase (complex IV). Cytochrome c oxidase (complex IV), the terminal electron-transferring...; Region: SURF1; cl01321 1104321001592 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5349 1104321001593 Cytochrome c oxidase subunit III. Cytochrome c oxidase (CcO), the terminal oxidase in the respiratory chains of eukaryotes and most bacteria, is a multi-chain transmembrane protein located in the inner membrane of mitochondria and the cell membrane of...; Region: Cyt_c_Oxidase_III; cd01665 1104321001594 Subunit III/VIIa interface [polypeptide binding]; other site 1104321001595 Phospholipid binding site [chemical binding]; other site 1104321001596 Subunit I/III interface [polypeptide binding]; other site 1104321001597 Subunit III/VIb interface [polypeptide binding]; other site 1104321001598 Subunit III/VIa interface; other site 1104321001599 Subunit III/Vb interface [polypeptide binding]; other site 1104321001600 Cytochrome oxidase assembly factor [Posttranslational modification, protein turnover, chaperones]; Region: COX11; COG3175 1104321001601 protoheme IX farnesyltransferase; Provisional; Region: PRK04375 1104321001602 UbiA prenyltransferase family; Region: UbiA; pfam01040 1104321001603 Heme/copper-type cytochrome/quinol oxidases, subunit 1 [Energy production and conversion]; Region: CyoB; COG0843 1104321001604 Cytochrome C oxidase subunit I. Cytochrome c oxidase (CcO), the terminal oxidase in the respiratory chains of eukaryotes and most bacteria, is a multi-chain transmembrane protein located in the inner membrane of mitochondria and the cell membrane of...; Region: Cyt_c_Oxidase_I; cd01663 1104321001605 Subunit I/III interface [polypeptide binding]; other site 1104321001606 D-pathway; other site 1104321001607 Subunit I/VIIc interface [polypeptide binding]; other site 1104321001608 Subunit I/IV interface [polypeptide binding]; other site 1104321001609 Subunit I/II interface [polypeptide binding]; other site 1104321001610 Low-spin heme (heme a) binding site [chemical binding]; other site 1104321001611 Subunit I/VIIa interface [polypeptide binding]; other site 1104321001612 Subunit I/VIa interface [polypeptide binding]; other site 1104321001613 Dimer interface; other site 1104321001614 Putative water exit pathway; other site 1104321001615 Binuclear center (heme a3/CuB) [ion binding]; other site 1104321001616 K-pathway; other site 1104321001617 Subunit I/Vb interface [polypeptide binding]; other site 1104321001618 Putative proton exit pathway; other site 1104321001619 Subunit I/VIb interface; other site 1104321001620 Subunit I/VIc interface [polypeptide binding]; other site 1104321001621 Electron transfer pathway; other site 1104321001622 Subunit I/VIIIb interface [polypeptide binding]; other site 1104321001623 Subunit I/VIIb interface [polypeptide binding]; other site 1104321001624 Heme/copper-type cytochrome/quinol oxidases, subunit 2 [Energy production and conversion]; Region: CyoA; COG1622 1104321001625 Cytochrome C oxidase subunit II, transmembrane domain; Region: COX2_TM; pfam02790 1104321001626 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; pfam00116 1104321001627 Invasion protein B, involved in pathogenesis [General function prediction only]; Region: COG5342 1104321001628 protease TldD; Provisional; Region: tldD; PRK10735 1104321001629 Guanylate kinase [Nucleotide transport and metabolism]; Region: Gmk; COG0194 1104321001630 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 1104321001631 catalytic site [active] 1104321001632 G-X2-G-X-G-K; other site 1104321001633 Uncharacterized stress-induced protein [Function unknown]; Region: COG1561 1104321001634 YicC-like family, N-terminal region; Region: YicC_N; pfam03755 1104321001635 Domain of unknown function (DUF1732); Region: DUF1732; pfam08340 1104321001636 Aminodeoxychorismate lyase [Coenzyme transport and metabolism]; Region: COG1559 1104321001637 proteins similar to Escherichia coli yceG; Region: yceG_like; cd08010 1104321001638 dimerization interface [polypeptide binding]; other site 1104321001639 3-oxoacyl-(acyl carrier protein) synthase II; Reviewed; Region: PRK07314 1104321001640 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 1104321001641 dimer interface [polypeptide binding]; other site 1104321001642 active site 1104321001643 acyl carrier protein; Provisional; Region: acpP; PRK00982 1104321001644 3-ketoacyl-(acyl-carrier-protein) reductase NodG; Reviewed; Region: PRK12936 1104321001645 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 1104321001646 NAD(P) binding site [chemical binding]; other site 1104321001647 homotetramer interface [polypeptide binding]; other site 1104321001648 homodimer interface [polypeptide binding]; other site 1104321001649 active site 1104321001650 (acyl-carrier-protein) S-malonyltransferase [Lipid metabolism]; Region: FabD; COG0331 1104321001651 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 1104321001652 30S ribosomal protein S6; Reviewed; Region: rpsF; PRK00453 1104321001653 30S ribosomal protein S18; Reviewed; Region: rpsR; PRK00391 1104321001654 50S ribosomal protein L9; Reviewed; Region: rplI; PRK00137 1104321001655 Ribosomal protein L9, N-terminal domain; Region: Ribosomal_L9_N; pfam01281 1104321001656 Ribosomal protein L9, C-terminal domain; Region: Ribosomal_L9_C; pfam03948 1104321001657 Cyclopropane fatty acid synthase and related methyltransferases [Cell envelope biogenesis, outer membrane]; Region: Cfa; COG2230 1104321001658 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 1104321001659 S-adenosylmethionine binding site [chemical binding]; other site 1104321001660 replicative DNA helicase; Provisional; Region: PRK09165 1104321001661 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 1104321001662 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 1104321001663 Walker A motif; other site 1104321001664 ATP binding site [chemical binding]; other site 1104321001665 Walker B motif; other site 1104321001666 DNA binding loops [nucleotide binding] 1104321001667 DNA repair protein RadA; Provisional; Region: PRK11823 1104321001668 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 1104321001669 Walker A motif/ATP binding site; other site 1104321001670 ATP binding site [chemical binding]; other site 1104321001671 Walker B motif; other site 1104321001672 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 1104321001673 Uncharacterized membrane protein, required for colicin V production [General function prediction only]; Region: CvpA; COG1286 1104321001674 Colicin V production protein; Region: Colicin_V; pfam02674 1104321001675 amidophosphoribosyltransferase; Provisional; Region: PRK09123 1104321001676 Glutamine amidotransferases class-II (GN-AT)_GPAT- type. This domain is found at the N-terminus of glutamine phosphoribosylpyrophosphate (Prpp) amidotransferase (GPATase) . The glutaminase domain catalyzes amide nitrogen transfer from glutamine to the...; Region: GPATase_N; cd00715 1104321001677 active site 1104321001678 tetramer interface [polypeptide binding]; other site 1104321001679 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1104321001680 active site 1104321001681 putative oxoacyl-(acyl carrier protein) reductase; Provisional; Region: PRK08945 1104321001682 classical (c) SDRs; Region: SDR_c; cd05233 1104321001683 NAD(P) binding site [chemical binding]; other site 1104321001684 active site 1104321001685 Phosphatidylserine synthase [Lipid metabolism]; Region: PssA; COG1183 1104321001686 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; pfam01066 1104321001687 phosphatidylserine decarboxylase; Provisional; Region: PRK05305 1104321001688 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 1104321001689 ABC-type transport system involved in Fe-S cluster assembly, permease and ATPase components [Posttranslational modification, protein turnover, chaperones]; Region: ATM1; COG5265 1104321001690 ATP-binding cassette domain of iron-sulfur clusters transporter, subfamily C; Region: ABCC_ATM1_transporter; cd03253 1104321001691 Walker A/P-loop; other site 1104321001692 ATP binding site [chemical binding]; other site 1104321001693 Q-loop/lid; other site 1104321001694 ABC transporter signature motif; other site 1104321001695 Walker B; other site 1104321001696 D-loop; other site 1104321001697 H-loop/switch region; other site 1104321001698 Uncharacterized protein containing LysM domain [Function unknown]; Region: XkdP; COG1652 1104321001699 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 1104321001700 Predicted periplasmic protein [General function prediction only]; Region: COG3895 1104321001701 Membrane-bound lysozyme-inhibitor of c-type lysozyme; Region: MliC; pfam09864 1104321001702 Predicted Rossmann fold nucleotide-binding protein [General function prediction only]; Region: COG1611 1104321001703 SAM-dependent methyltransferases related to tRNA (uracil-5-)-methyltransferase [Translation, ribosomal structure and biogenesis]; Region: TrmA; COG2265 1104321001704 Methyltransferase domain; Region: Methyltransf_26; pfam13659 1104321001705 Predicted rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: COG1189 1104321001706 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 1104321001707 RNA binding surface [nucleotide binding]; other site 1104321001708 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 1104321001709 S-adenosylmethionine binding site [chemical binding]; other site 1104321001710 1-deoxy-D-xylulose-5-phosphate synthase; Provisional; Region: PRK05444 1104321001711 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 1104321001712 TPP-binding site; other site 1104321001713 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 1104321001714 PYR/PP interface [polypeptide binding]; other site 1104321001715 dimer interface [polypeptide binding]; other site 1104321001716 TPP binding site [chemical binding]; other site 1104321001717 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 1104321001718 Pirin-related protein [General function prediction only]; Region: COG1741 1104321001719 Pirin; Region: Pirin; pfam02678 1104321001720 Pirin C-terminal cupin domain; Region: Pirin_C; pfam05726 1104321001721 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3753 1104321001722 Predicted membrane protein [Function unknown]; Region: COG2261 1104321001723 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 1104321001724 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 1104321001725 exodeoxyribonuclease VII small subunit; Provisional; Region: PRK00977 1104321001726 Deacetylases, including yeast histone deacetylase and acetoin utilization protein [Chromatin structure and dynamics / Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcuC; COG0123 1104321001727 Histone deacetylases and histone-like deacetylases, classII; Region: HDAC_classII_2; cd11599 1104321001728 putative active site [active] 1104321001729 Zn binding site [ion binding]; other site 1104321001730 bifunctional 3,4-dihydroxy-2-butanone 4-phosphate synthase/GTP cyclohydrolase II protein; Provisional; Region: PRK09314 1104321001731 3,4-dihydroxy-2-butanone 4-phosphate synthase; Region: DHBP_synthase; pfam00926 1104321001732 GTP cyclohydrolase II [Coenzyme metabolism]; Region: RibA; COG0807 1104321001733 dimerization interface [polypeptide binding]; other site 1104321001734 active site 1104321001735 Chorismate synthase [Amino acid transport and metabolism]; Region: AroC; COG0082 1104321001736 Chorismase synthase, the enzyme catalyzing the final step of the shikimate pathway; Region: Chorismate_synthase; cd07304 1104321001737 Tetramer interface [polypeptide binding]; other site 1104321001738 active site 1104321001739 FMN-binding site [chemical binding]; other site 1104321001740 Protein of unknown function (DUF1344); Region: DUF1344; pfam07076 1104321001741 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: DUF374; Region: LPLAT_DUF374-like; cd07983 1104321001742 putative acyl-acceptor binding pocket; other site 1104321001743 Broad specificity phosphatase PhoE and related phosphatases [General function prediction only]; Region: phoE; COG0406 1104321001744 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 1104321001745 catalytic core [active] 1104321001746 enoyl-(acyl carrier protein) reductase; Provisional; Region: PRK08159 1104321001747 Enoyl acyl carrier protein (ACP) reductase (ENR), divergent SDR; Region: ENR_SDR; cd05372 1104321001748 NAD binding site [chemical binding]; other site 1104321001749 homotetramer interface [polypeptide binding]; other site 1104321001750 homodimer interface [polypeptide binding]; other site 1104321001751 substrate binding site [chemical binding]; other site 1104321001752 active site 1104321001753 chaperone protein DnaJ; Provisional; Region: PRK14299 1104321001754 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 1104321001755 HSP70 interaction site [polypeptide binding]; other site 1104321001756 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 1104321001757 dimer interface [polypeptide binding]; other site 1104321001758 pyridoxamine 5'-phosphate oxidase; Provisional; Region: PRK05679 1104321001759 Pyridoxamine 5'-phosphate oxidase; Region: Pyridox_oxidase; pfam01243 1104321001760 Pyridoxine 5'-phosphate oxidase C-terminal dimerisation region; Region: PNPOx_C; pfam10590 1104321001761 4-hydroxybenzoate polyprenyltransferase; Reviewed; Region: ubiA; PRK12878 1104321001762 UbiA prenyltransferase family; Region: UbiA; pfam01040 1104321001763 phosphoribosylamine--glycine ligase; Provisional; Region: PRK00885 1104321001764 Phosphoribosylglycinamide synthetase, N domain; Region: GARS_N; pfam02844 1104321001765 Phosphoribosylglycinamide synthetase, ATP-grasp (A) domain; Region: GARS_A; pfam01071 1104321001766 Phosphoribosylglycinamide synthetase, C domain; Region: GARS_C; pfam02843 1104321001767 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1104321001768 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1104321001769 metal binding site [ion binding]; metal-binding site 1104321001770 active site 1104321001771 I-site; other site 1104321001772 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 1104321001773 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 1104321001774 active site 1104321001775 Acetyl-CoA dehydrogenase C-terminal like; Region: Acyl-CoA_dh_C; pfam12806 1104321001776 enoyl-CoA hydratase; Provisional; Region: PRK06688 1104321001777 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 1104321001778 substrate binding site [chemical binding]; other site 1104321001779 oxyanion hole (OAH) forming residues; other site 1104321001780 trimer interface [polypeptide binding]; other site 1104321001781 Plasmid stabilization system protein [General function prediction only]; Region: ParE; COG3668 1104321001782 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 1104321001783 FAD binding domain; Region: FAD_binding_4; pfam01565 1104321001784 Putative translation factor (SUA5) [Translation, ribosomal structure and biogenesis]; Region: SUA5; COG0009 1104321001785 Putative GTP-binding controlling metal-binding; Region: SUA5; pfam03481 1104321001786 glycyl-tRNA synthetase subunit beta; Validated; Region: glyS; PRK01233 1104321001787 DALR anticodon binding domain; Region: DALR_1; pfam05746 1104321001788 glycyl-tRNA synthetase subunit beta; Validated; Region: glyS; PRK01233 1104321001789 Class II Glycyl-tRNA synthetase (GlyRS) alpha subunit core catalytic domain. GlyRS functions as a homodimer in eukaryotes, archaea and some bacteria and as a heterotetramer in the remainder of prokaryotes and in arabidopsis. It is responsible for the...; Region: GlyRS_alpha_core; cd00733 1104321001790 dimer interface [polypeptide binding]; other site 1104321001791 motif 1; other site 1104321001792 active site 1104321001793 motif 2; other site 1104321001794 motif 3; other site 1104321001795 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 1104321001796 binding surface 1104321001797 TPR motif; other site 1104321001798 TPR repeat; Region: TPR_11; pfam13414 1104321001799 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 1104321001800 binding surface 1104321001801 TPR repeat; Region: TPR_11; pfam13414 1104321001802 TPR motif; other site 1104321001803 TPR repeat; Region: TPR_11; pfam13414 1104321001804 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 1104321001805 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 1104321001806 substrate binding pocket [chemical binding]; other site 1104321001807 chain length determination region; other site 1104321001808 substrate-Mg2+ binding site; other site 1104321001809 catalytic residues [active] 1104321001810 aspartate-rich region 1; other site 1104321001811 active site lid residues [active] 1104321001812 aspartate-rich region 2; other site 1104321001813 Domain of unknown function (DUF2007); Region: DUF2007; pfam09413 1104321001814 Predicted O-methyltransferase [General function prediction only]; Region: COG4123 1104321001815 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 1104321001816 pH-dependent sodium/proton antiporter; Reviewed; Region: nhaA; PRK09560 1104321001817 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 1104321001818 signal peptide peptidase SppA, 36K type; Region: SppA_dom; TIGR00706 1104321001819 tandem repeat interface [polypeptide binding]; other site 1104321001820 oligomer interface [polypeptide binding]; other site 1104321001821 active site residues [active] 1104321001822 4-diphosphocytidyl-2-C-methyl-D-erythritol kinase; Provisional; Region: PRK14608 1104321001823 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 1104321001824 DNA repair photolyase [DNA replication, recombination, and repair]; Region: SplB; COG1533 1104321001825 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 1104321001826 FeS/SAM binding site; other site 1104321001827 bacterial Ribonuclease HII-like; Region: RNase_HII_bacteria_HII_like; cd07182 1104321001828 RNA/DNA hybrid binding site [nucleotide binding]; other site 1104321001829 active site 1104321001830 F0F1 ATP synthase subunit B; Validated; Region: PRK09173 1104321001831 F0F1-type ATP synthase, subunit b [Energy production and conversion]; Region: AtpF; COG0711 1104321001832 F0F1 ATP synthase subunit B'; Validated; Region: PRK09174 1104321001833 F0F1-type ATP synthase, subunit b [Energy production and conversion]; Region: AtpF; COG0711 1104321001834 F0F1 ATP synthase subunit C; Validated; Region: PRK07558 1104321001835 F0F1-type ATP synthase, subunit a [Energy production and conversion]; Region: AtpB; COG0356 1104321001836 F0F1 ATP synthase subunit A; Validated; Region: PRK05815 1104321001837 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5336 1104321001838 Cell wall hydrolyses involved in spore germination [Cell envelope biogenesis, outer membrane]; Region: SleB; COG3773 1104321001839 Cell Wall Hydrolase; Region: Hydrolase_2; pfam07486 1104321001840 Molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: DnaK; COG0443 1104321001841 Escherichia coli YegD, a putative chaperone protein, and related proteins; Region: YegD_like; cd10231 1104321001842 nucleotide binding site [chemical binding]; other site 1104321001843 putative NEF/HSP70 interaction site [polypeptide binding]; other site 1104321001844 SBD interface [polypeptide binding]; other site 1104321001845 GTP-binding protein Der; Reviewed; Region: PRK00093 1104321001846 EngA1 GTPase contains the first domain of EngA; Region: EngA1; cd01894 1104321001847 G1 box; other site 1104321001848 GTP/Mg2+ binding site [chemical binding]; other site 1104321001849 Switch I region; other site 1104321001850 G2 box; other site 1104321001851 Switch II region; other site 1104321001852 G3 box; other site 1104321001853 G4 box; other site 1104321001854 G5 box; other site 1104321001855 EngA2 GTPase contains the second domain of EngA; Region: EngA2; cd01895 1104321001856 G1 box; other site 1104321001857 GTP/Mg2+ binding site [chemical binding]; other site 1104321001858 Switch I region; other site 1104321001859 G2 box; other site 1104321001860 G3 box; other site 1104321001861 Switch II region; other site 1104321001862 G4 box; other site 1104321001863 G5 box; other site 1104321001864 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4649 1104321001865 Putative catalytic domain of uncharacterized bacterial hypothetical proteins similar to insect chitin deacetylase-like proteins; Region: CE4_CDA_like_3; cd10976 1104321001866 NodB motif; other site 1104321001867 putative active site [active] 1104321001868 putative catalytic site [active] 1104321001869 microcin B17 transporter; Reviewed; Region: PRK11098 1104321001870 potential frameshift: common BLAST hit: gi|189023616|ref|YP_001934384.1| Tetracycline resistance protein 1104321001871 Protein of unknown function (DUF1228); Region: DUF1228; pfam06779 1104321001872 Predicted membrane protein [Function unknown]; Region: COG4129 1104321001873 Fusaric acid resistance protein-like; Region: FUSC_2; pfam13515 1104321001874 Arsenate Reductase (ArsC) family, Yffb subfamily; Yffb is an uncharacterized bacterial protein encoded by the yffb gene, related to the thioredoxin-fold arsenic reductases, ArsC. The structure of Yffb and the conservation of the catalytic cysteine...; Region: ArsC_Yffb; cd03035 1104321001875 ArsC family; Region: ArsC; pfam03960 1104321001876 putative catalytic residues [active] 1104321001877 bifunctional DNA-binding transcriptional dual regulator/O6-methylguanine-DNA methyltransferase; Provisional; Region: PRK15435 1104321001878 Metal binding domain of Ada; Region: Ada_Zn_binding; pfam02805 1104321001879 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1104321001880 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1104321001881 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 1104321001882 DNA binding site [nucleotide binding] 1104321001883 active site 1104321001884 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 1104321001885 Salicylaldehyde dehydrogenase, DoxF-like; Region: ALDH_SaliADH; cd07105 1104321001886 NAD(P) binding site [chemical binding]; other site 1104321001887 catalytic residues [active] 1104321001888 DsbA family, Com1-like subfamily; composed of proteins similar to Com1, a 27-kDa outer membrane-associated immunoreactive protein originally found in both acute and chronic disease strains of the pathogenic bacteria Coxiella burnetti. It contains a CXXC...; Region: DsbA_Com1_like; cd03023 1104321001889 DSBA-like thioredoxin domain; Region: DSBA; pfam01323 1104321001890 catalytic residues [active] 1104321001891 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 1104321001892 metal binding site 2 [ion binding]; metal-binding site 1104321001893 putative DNA binding helix; other site 1104321001894 metal binding site 1 [ion binding]; metal-binding site 1104321001895 dimer interface [polypeptide binding]; other site 1104321001896 Cytochrome cbb3 oxidase subunit I. Cytochrome cbb3 oxidase, the terminal oxidase in the respiratory chains of proteobacteria, is a multi-chain transmembrane protein located in the cell membrane. Like other cytochrome oxidases, it catalyzes the reduction...; Region: cbb3_Oxidase_I; cd01661 1104321001897 Low-spin heme binding site [chemical binding]; other site 1104321001898 Cytochrome C and Quinol oxidase polypeptide I; Region: COX1; pfam00115 1104321001899 Putative water exit pathway; other site 1104321001900 Binuclear center (active site) [active] 1104321001901 Putative proton exit pathway; other site 1104321001902 Cbb3-type cytochrome oxidase, cytochrome c subunit [Energy production and conversion]; Region: CcoO; COG2993 1104321001903 Cytochrome C oxidase, mono-heme subunit/FixO; Region: FixO; pfam02433 1104321001904 Cytochrome cbb oxidase CcoQ. Cytochrome cbb3 oxidase, the terminal oxidase in the respiratory chains of proteobacteria, is a multi-chain transmembrane protein located in the cell membrane. Like other cytochrome oxidases, it catalyzes the reduction of O2...; Region: cbb3_Oxidase_CcoQ; cd01324 1104321001905 cytochrome c oxidase, cbb3-type, subunit III; Region: ccoP; TIGR00782 1104321001906 Cytochrome c; Region: Cytochrom_C; pfam00034 1104321001907 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 1104321001908 cytochrome c oxidase accessory protein FixG; Region: ccoG_rdxA_fixG; TIGR02745 1104321001909 4Fe-4S binding domain; Region: Fer4_5; pfam12801 1104321001910 Ubp3 associated protein Bre5; Region: Bre5; pfam11614 1104321001911 Predicted integral membrane protein linked to a cation pump [Inorganic ion transport and metabolism]; Region: COG5456 1104321001912 FixH; Region: FixH; pfam05751 1104321001913 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 1104321001914 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 1104321001915 metal-binding site [ion binding] 1104321001916 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 1104321001917 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 1104321001918 motif II; other site 1104321001919 Cytochrome oxidase maturation protein cbb3-type; Region: CcoS; pfam03597 1104321001920 Putative glycerate kinase [Carbohydrate transport and metabolism]; Region: GckA; COG2379 1104321001921 Domain of unknown function (DUF4147); Region: DUF4147; pfam13660 1104321001922 MOFRL family; Region: MOFRL; pfam05161 1104321001923 guanine deaminase; Provisional; Region: PRK09228 1104321001924 Guanine deaminase (GDEase). Guanine deaminase is an aminohydrolase responsible for the conversion of guanine to xanthine and ammonia, the first step to utilize guanine as a nitrogen source. This reaction also removes the guanine base from the pool and...; Region: GDEase; cd01303 1104321001925 active site 1104321001926 Predicted membrane protein [Function unknown]; Region: COG3748 1104321001927 Protein of unknown function (DUF989); Region: DUF989; pfam06181 1104321001928 Cytochrome c; Region: Cytochrom_C; pfam00034 1104321001929 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 1104321001930 putative effector binding pocket; other site 1104321001931 dimerization interface [polypeptide binding]; other site 1104321001932 XdhC and CoxI family; Region: XdhC_CoxI; pfam02625 1104321001933 xanthine dehydrogenase accessory protein XdhC; Region: xanthine_xdhC; TIGR02964 1104321001934 XdhC Rossmann domain; Region: XdhC_C; pfam13478 1104321001935 Xanthine dehydrogenase, molybdopterin-binding subunit B [Nucleotide transport and metabolism]; Region: XdhB; COG4631 1104321001936 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 1104321001937 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 1104321001938 Xanthine dehydrogenase, iron-sulfur cluster and FAD-binding subunit A [Nucleotide transport and metabolism]; Region: XdhA; COG4630 1104321001939 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 1104321001940 catalytic loop [active] 1104321001941 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_3; pfam13085 1104321001942 iron binding site [ion binding]; other site 1104321001943 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 1104321001944 CO dehydrogenase flavoprotein C-terminal domain; Region: CO_deh_flav_C; pfam03450 1104321001945 Transthyretin_like. This domain is present in the transthyretin-like protein (TLP) family which includes transthyretin (TTR) and a transthyretin-related protein called 5-hydroxyisourate hydrolase (HIUase). TTR and HIUase are homotetrameric proteins...; Region: Transthyretin_like; cl17222 1104321001946 homotetramer interface [polypeptide binding]; other site 1104321001947 active site 1104321001948 putative urate catabolism protein; Region: uraD_N-term-dom; TIGR03212 1104321001949 Catalytic domain of bacterial PuuE allantoinases, Schizosaccharomyces pombe chitin deacetylase 1 (SpCDA1), and similar proteins; Region: CE4_PuuE_SpCDA1; cd10977 1104321001950 active site 1104321001951 catalytic site [active] 1104321001952 tetramer interface [polypeptide binding]; other site 1104321001953 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3195 1104321001954 hypothetical protein; Provisional; Region: PRK11171 1104321001955 Protein of unknown function (DUF861); Region: Cupin_3; pfam05899 1104321001956 Uncharacterized conserved protein, contains double-stranded beta-helix domain [Function unknown]; Region: COG1917 1104321001957 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 1104321001958 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 1104321001959 DctM-like transporters; Region: DctM; pfam06808 1104321001960 TRAP-type mannitol/chloroaromatic compound transport system, large permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FcbT3; COG4664 1104321001961 TRAP-type mannitol/chloroaromatic compound transport system, small permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FcbT2; COG4665 1104321001962 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 1104321001963 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1104321001964 active site 1104321001965 phosphorylation site [posttranslational modification] 1104321001966 intermolecular recognition site; other site 1104321001967 dimerization interface [polypeptide binding]; other site 1104321001968 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 1104321001969 DNA binding residues [nucleotide binding] 1104321001970 dimerization interface [polypeptide binding]; other site 1104321001971 potential frameshift: common BLAST hit: gi|163842629|ref|YP_001627033.1| sensor protein degS 1104321001972 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 1104321001973 ATP binding site [chemical binding]; other site 1104321001974 Mg2+ binding site [ion binding]; other site 1104321001975 G-X-G motif; other site 1104321001976 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4564 1104321001977 Cache domain; Region: Cache_2; pfam08269 1104321001978 Invasion protein B, involved in pathogenesis [General function prediction only]; Region: COG5342 1104321001979 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Vibrio cholerae NorM; Region: MATE_NorM_like; cd13131 1104321001980 multidrug efflux protein; Reviewed; Region: PRK01766 1104321001981 cation binding site [ion binding]; other site 1104321001982 Proline racemase [Amino acid transport and metabolism]; Region: COG3938 1104321001983 hydroxyproline-2-epimerase; Provisional; Region: PRK13971 1104321001984 Saccharopine dehydrogenase and related proteins [Amino acid transport and metabolism]; Region: LYS9; COG1748 1104321001985 NAD(P) binding domain of amino acid dehydrogenase-like proteins; Region: NAD_bind_amino_acid_DH; cl17226 1104321001986 NAD(P) binding pocket [chemical binding]; other site 1104321001987 carboxynorspermidine decarboxylase; Region: nspC; TIGR01047 1104321001988 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Carboxynorspermidine Decarboxylase; Region: PLPDE_III_CANSDC; cd06829 1104321001989 dimer interface [polypeptide binding]; other site 1104321001990 active site 1104321001991 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 1104321001992 catalytic residues [active] 1104321001993 substrate binding site [chemical binding]; other site 1104321001994 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 1104321001995 Ferredoxin-NADP+ (oxido)reductase is an FAD-containing enzyme that catalyzes the reversible electron transfer between NADP(H) and electron carrier proteins such as ferredoxin and flavodoxin. Isoforms of these flavoproteins (i.e. having a non-covalently...; Region: FNR1; cd06195 1104321001996 FAD binding pocket [chemical binding]; other site 1104321001997 FAD binding motif [chemical binding]; other site 1104321001998 phosphate binding motif [ion binding]; other site 1104321001999 beta-alpha-beta structure motif; other site 1104321002000 NAD binding pocket [chemical binding]; other site 1104321002001 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 1104321002002 active site 1104321002003 oligomerization interface [polypeptide binding]; other site 1104321002004 metal binding site [ion binding]; metal-binding site 1104321002005 pantoate--beta-alanine ligase; Region: panC; TIGR00018 1104321002006 Pantoate-beta-alanine ligase; Region: PanC; cd00560 1104321002007 active site 1104321002008 ATP-binding site [chemical binding]; other site 1104321002009 pantoate-binding site; other site 1104321002010 HXXH motif; other site 1104321002011 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4782 1104321002012 Putative effector of murein hydrolase [Cell envelope biogenesis, outer membrane]; Region: LrgB; COG1346 1104321002013 Putative effector of murein hydrolase LrgA [General function prediction only]; Region: COG1380 1104321002014 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1104321002015 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1104321002016 The C-terminal substrate binding domain of LysR-like transcriptional regulator CidR, contains the type 2 periplasmic binding fold; Region: PBP2_CidR; cd08438 1104321002017 putative dimerization interface [polypeptide binding]; other site 1104321002018 Glycosyltransferase family 29 (sialyltransferase); Region: Glyco_transf_29; pfam00777 1104321002019 Glycosyltransferase family 25 [lipooligosaccharide (LOS) biosynthesis protein] is a family of glycosyltransferases involved in LOS biosynthesis. The members include the beta(1,4) galactosyltransferases: Lgt2 of Moraxella catarrhalis, LgtB and LgtE of...; Region: Glyco_transf_25; cd06532 1104321002020 Predicted xylanase/chitin deacetylase [Carbohydrate transport and metabolism]; Region: CDA1; COG0726 1104321002021 Putative catalytic NodB homology domain of PgaB, IcaB, and similar proteins which consist of a deformed (beta/alpha)8 barrel fold with 5- or 6-strands; Region: CE4_NodB_like_5s_6s; cd10918 1104321002022 putative active site [active] 1104321002023 putative metal binding site [ion binding]; other site 1104321002024 pyridoxal phosphate-dependent acyltransferase, putative; Region: gly_Cac_T_rel; TIGR01825 1104321002025 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 1104321002026 substrate-cofactor binding pocket; other site 1104321002027 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1104321002028 catalytic residue [active] 1104321002029 large-conductance mechanosensitive channel; Reviewed; Region: mscL; PRK00567 1104321002030 large-conductance mechanosensitive channel; Provisional; Region: mscL; PRK13952 1104321002031 Na+/proline symporter [Amino acid transport and metabolism / General function prediction only]; Region: PutP; COG0591 1104321002032 Na binding site [ion binding]; other site 1104321002033 PAS fold; Region: PAS_7; pfam12860 1104321002034 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1104321002035 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 1104321002036 dimer interface [polypeptide binding]; other site 1104321002037 phosphorylation site [posttranslational modification] 1104321002038 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 1104321002039 ATP binding site [chemical binding]; other site 1104321002040 Mg2+ binding site [ion binding]; other site 1104321002041 G-X-G motif; other site 1104321002042 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 1104321002043 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1104321002044 active site 1104321002045 phosphorylation site [posttranslational modification] 1104321002046 intermolecular recognition site; other site 1104321002047 dimerization interface [polypeptide binding]; other site 1104321002048 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 1104321002049 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1104321002050 active site 1104321002051 phosphorylation site [posttranslational modification] 1104321002052 intermolecular recognition site; other site 1104321002053 dimerization interface [polypeptide binding]; other site 1104321002054 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 1104321002055 DNA binding residues [nucleotide binding] 1104321002056 dimerization interface [polypeptide binding]; other site 1104321002057 proline iminopeptidase, Neisseria-type subfamily; Region: pro_imino_pep_1; TIGR01249 1104321002058 homoserine O-acetyltransferase; Provisional; Region: metX; cl17114 1104321002059 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3502 1104321002060 dihydroorotate dehydrogenase 2; Reviewed; Region: PRK05286 1104321002061 Dihydroorotate dehydrogenase (DHOD) class 2. DHOD catalyzes the oxidation of (S)-dihydroorotate to orotate. This is the fourth step and the only redox reaction in the de novo biosynthesis of UMP, the precursor of all pyrimidine nucleotides. DHOD requires...; Region: DHOD_2_like; cd04738 1104321002062 quinone interaction residues [chemical binding]; other site 1104321002063 active site 1104321002064 catalytic residues [active] 1104321002065 FMN binding site [chemical binding]; other site 1104321002066 substrate binding site [chemical binding]; other site 1104321002067 DinF and similar proteins, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_DinF_like; cd13136 1104321002068 DNA-damage-inducible SOS response protein; Provisional; Region: PRK10367 1104321002069 Uncharacterized protein with SCP/PR1 domains [Function unknown]; Region: COG2340 1104321002070 SCP_bacterial: SCP-like extracellular protein domain, as found in bacteria and archaea. The wider family of SCP containing proteins includes plant pathogenesis-related protein 1 (PR-1), CRISPs, mammalian cysteine-rich secretory proteins, and allergen 5...; Region: SCP_bacterial; cd05379 1104321002071 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 1104321002072 AraC transcriptional regulators having an N-terminal Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_ArgR_like; cd03136 1104321002073 conserved cys residue [active] 1104321002074 2'-deoxycytidine 5'-triphosphate deaminase; Provisional; Region: PRK07559 1104321002075 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cl00493 1104321002076 trimer interface [polypeptide binding]; other site 1104321002077 active site 1104321002078 Deoxycytidine deaminase [Nucleotide transport and metabolism]; Region: Dcd; COG0717 1104321002079 trimer interface [polypeptide binding]; other site 1104321002080 active site 1104321002081 O-succinylhomoserine sulfhydrylase; Reviewed; Region: PRK07504 1104321002082 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 1104321002083 homodimer interface [polypeptide binding]; other site 1104321002084 substrate-cofactor binding pocket; other site 1104321002085 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1104321002086 catalytic residue [active] 1104321002087 CO2+/MG2+ efflux protein ApaG; Reviewed; Region: apaG; PRK05461 1104321002088 Heat shock protein 33 (Hsp33): Cytosolic protein that acts as a molecular chaperone under oxidative conditions. In normal (reducing) cytosolic conditions, four conserved Cys residues are coordinated by a Zn ion. Under oxidative stress (such as heat...; Region: Hsp33; cd00498 1104321002089 Hsp33-like chaperonin; Reviewed; Region: hslO; PRK00114 1104321002090 dimerization interface [polypeptide binding]; other site 1104321002091 domain crossover interface; other site 1104321002092 redox-dependent activation switch; other site 1104321002093 ornithine carbamoyltransferase; Provisional; Region: PRK00779 1104321002094 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 1104321002095 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 1104321002096 acetylornithine transaminase protein; Provisional; Region: argD; PRK01278 1104321002097 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 1104321002098 inhibitor-cofactor binding pocket; inhibition site 1104321002099 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1104321002100 catalytic residue [active] 1104321002101 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5352 1104321002102 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 1104321002103 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 1104321002104 dimer interface [polypeptide binding]; other site 1104321002105 phosphorylation site [posttranslational modification] 1104321002106 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 1104321002107 ATP binding site [chemical binding]; other site 1104321002108 Mg2+ binding site [ion binding]; other site 1104321002109 G-X-G motif; other site 1104321002110 Glycosyltransferases, probably involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: COG1215 1104321002111 CESA_like_2 is a member of the cellulose synthase superfamily; Region: CESA_like_2; cd06427 1104321002112 DXD motif; other site 1104321002113 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 1104321002114 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 1104321002115 substrate binding pocket [chemical binding]; other site 1104321002116 membrane-bound complex binding site; other site 1104321002117 The (Largely Gram-negative Bacterial) Hydrophobe/Amphiphile Efflux-1 (HAE1) Family; Region: 2A0602; TIGR00915 1104321002118 Protein export membrane protein; Region: SecD_SecF; cl14618 1104321002119 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 1104321002120 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1104321002121 HlyD family secretion protein; Region: HlyD_3; pfam13437 1104321002122 DNA-binding transcriptional repressor AcrR; Provisional; Region: PRK10668 1104321002123 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1104321002124 MAATS-type transcriptional repressor, C-terminal region; Region: TetR_C_2; pfam08361 1104321002125 Long-chain-fatty-acid--CoA ligase; Validated; Region: PRK07059 1104321002126 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 1104321002127 Prokaryotic long-chain fatty acid CoA synthetases similar to Escherichia coli FadD; Region: FC-FACS_FadD_like; cd05936 1104321002128 acyl-activating enzyme (AAE) consensus motif; other site 1104321002129 putative AMP binding site [chemical binding]; other site 1104321002130 putative active site [active] 1104321002131 putative CoA binding site [chemical binding]; other site 1104321002132 Predicted alpha/beta hydrolase [General function prediction only]; Region: COG4757 1104321002133 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 1104321002134 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 1104321002135 motif II; other site 1104321002136 HAD-hyrolase-like; Region: Hydrolase_like; pfam13242 1104321002137 Predicted deacylase [General function prediction only]; Region: COG3608 1104321002138 Peptidase M14 Succinylglutamate desuccinylase (ASTE)/aspartoacylase (ASPA)-like subfamily; subgroup includes Pseudomonas aeruginosa AotO; Region: M14_PaAOTO_like; cd06250 1104321002139 active site 1104321002140 Zn binding site [ion binding]; other site 1104321002141 glucose-6-phosphate isomerase; Reviewed; Region: pgi; PRK00179 1104321002142 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 1104321002143 active site 1104321002144 dimer interface [polypeptide binding]; other site 1104321002145 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 1104321002146 dimer interface [polypeptide binding]; other site 1104321002147 active site 1104321002148 Carbon monoxide dehydrogenase subunit G (CoxG); Region: CoxG; cd05018 1104321002149 putative hydrophobic ligand binding site [chemical binding]; other site 1104321002150 dihydropyrimidine dehydrogenase subunit A; Provisional; Region: PRK11749 1104321002151 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 1104321002152 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1104321002153 dihydropyrimidine dehydrogenase subunit B; Validated; Region: PRK08318 1104321002154 Dihydropyrimidine dehydrogenase (DHPD) FMN-binding domain. DHPD catalyzes the first step in pyrimidine degradation: the NADPH-dependent reduction of uracil and thymine to the corresponding 5,6-dihydropyrimidines. DHPD contains two FAD, two FMN, and...; Region: DHPD_FMN; cd02940 1104321002155 homodimer interface [polypeptide binding]; other site 1104321002156 active site 1104321002157 FMN binding site [chemical binding]; other site 1104321002158 substrate binding site [chemical binding]; other site 1104321002159 4Fe-4S binding domain; Region: Fer4; cl02805 1104321002160 4Fe-4S binding domain; Region: Fer4; pfam00037 1104321002161 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_31; cd04690 1104321002162 nudix motif; other site 1104321002163 pyrimidine utilization regulatory protein R; Region: RutR; TIGR03613 1104321002164 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1104321002165 YcdC-like protein, C-terminal region; Region: TetR_C_3; pfam08362 1104321002166 allantoate amidohydrolase; Reviewed; Region: PRK12893 1104321002167 M20 Peptidase beta-alanine synthase, an amidohydrolase; Region: M20_bAS; cd03884 1104321002168 active site 1104321002169 metal binding site [ion binding]; metal-binding site 1104321002170 dimer interface [polypeptide binding]; other site 1104321002171 phenylhydantoinase; Validated; Region: PRK08323 1104321002172 D-hydantoinases (D-HYD) also called dihydropyrimidases (DHPase) and related proteins; DHPases are a family of enzymes that catalyze the reversible hydrolytic ring opening of the amide bond in five- or six-membered cyclic diamides, like dihydropyrimidine...; Region: D-HYD; cd01314 1104321002173 tetramer interface [polypeptide binding]; other site 1104321002174 active site 1104321002175 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 1104321002176 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 1104321002177 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1104321002178 HlyD family secretion protein; Region: HlyD_3; pfam13437 1104321002179 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1104321002180 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 1104321002181 ATP binding site [chemical binding]; other site 1104321002182 Mg2+ binding site [ion binding]; other site 1104321002183 G-X-G motif; other site 1104321002184 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 1104321002185 Urease accessory protein UreF [Posttranslational modification, protein turnover, chaperones]; Region: UreF; COG0830 1104321002186 UreF; Region: UreF; pfam01730 1104321002187 Urease accessory protein UreE [Posttranslational modification, protein turnover, chaperones]; Region: UreE; COG2371 1104321002188 UreE urease accessory protein. UreE is a metallochaperone assisting the insertion of a Ni2+ ion in the active site of urease, an important step in the in vivo assembly of urease, an enzyme that hydrolyses urea into ammonia and carbamic acid. The...; Region: UreE; cd00571 1104321002189 dimer interface [polypeptide binding]; other site 1104321002190 catalytic residues [active] 1104321002191 urease subunit alpha; Reviewed; Region: ureC; PRK13207 1104321002192 Urease alpha-subunit; Urease is a nickel-dependent metalloenzyme that catalyzes the hydrolysis of urea to form ammonia and carbon dioxide. Nickel-dependent ureases are found in bacteria, fungi and plants. Their primary role is to allow the use of...; Region: Urease_alpha; cd00375 1104321002193 subunit interactions [polypeptide binding]; other site 1104321002194 active site 1104321002195 flap region; other site 1104321002196 Urease beta-subunit; Urease is a nickel-dependent metalloenzyme that catalyzes the hydrolysis of urea to form ammonia and carbon dioxide. Nickel-dependent ureases are found in bacteria, archaea, fungi and plants. Their primary role is to allow the use of...; Region: Urease_beta; cd00407 1104321002197 gamma-beta subunit interface [polypeptide binding]; other site 1104321002198 alpha-beta subunit interface [polypeptide binding]; other site 1104321002199 Urease gamma-subunit; Urease is a nickel-dependent metalloenzyme that catalyzes the hydrolysis of urea to form ammonia and carbon dioxide. Nickel-dependent ureases are found in bacteria, archaea, fungi and plants. Their primary role is to allow the use...; Region: Urease_gamma; cd00390 1104321002200 alpha-gamma subunit interface [polypeptide binding]; other site 1104321002201 beta-gamma subunit interface [polypeptide binding]; other site 1104321002202 Urease accessory protein UreH [Posttranslational modification, protein turnover, chaperones]; Region: UreH; COG0829 1104321002203 Pyridoxine 5'-phosphate (PNP) synthase domain; pyridoxal 5'-phosphate is the active form of vitamin B6 that acts as an essential, ubiquitous coenzyme in amino acid metabolism. In bacteria, formation of pyridoxine 5'-phosphate is a step in...; Region: PNPsynthase; cl00541 1104321002204 dimerization interface [polypeptide binding]; other site 1104321002205 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 1104321002206 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 1104321002207 catalytic residues [active] 1104321002208 catalytic nucleophile [active] 1104321002209 Presynaptic Site I dimer interface [polypeptide binding]; other site 1104321002210 Synaptic Antiparallel dimer interface [polypeptide binding]; other site 1104321002211 Synaptic Flat tetramer interface [polypeptide binding]; other site 1104321002212 Synaptic Site I dimer interface [polypeptide binding]; other site 1104321002213 DNA binding site [nucleotide binding] 1104321002214 BRO family, N-terminal domain; Region: Bro-N; smart01040 1104321002215 Integrase [DNA replication, recombination, and repair]; Region: XerC; COG0582 1104321002216 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 1104321002217 INT_SG2, DNA breaking-rejoining enzymes, integrase/recombinases subgroup 2, C-terminal catalytic domain. The CD contains mainly predicted integrase/recombinases and phage-related integrases. Some have N-terminal domains, which show little sequence...; Region: INT_SG2_C; cd01184 1104321002218 Int/Topo IB signature motif; other site 1104321002219 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Region: murA; TIGR01072 1104321002220 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 1104321002221 hinge; other site 1104321002222 active site 1104321002223 Protein of unknown function (DUF2948); Region: DUF2948; pfam11164 1104321002224 Histidinol dehydrogenase [Amino acid transport and metabolism]; Region: HisD; COG0141 1104321002225 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 1104321002226 NAD binding site [chemical binding]; other site 1104321002227 dimerization interface [polypeptide binding]; other site 1104321002228 product binding site; other site 1104321002229 substrate binding site [chemical binding]; other site 1104321002230 zinc binding site [ion binding]; other site 1104321002231 catalytic residues [active] 1104321002232 hypothetical protein; Provisional; Region: PRK02853 1104321002233 Protein-tyrosine-phosphatase [Signal transduction mechanisms]; Region: Wzb; COG0394 1104321002234 Low molecular weight phosphatase family; Region: LMWPc; cd00115 1104321002235 active site 1104321002236 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 1104321002237 rRNA binding site [nucleotide binding]; other site 1104321002238 predicted 30S ribosome binding site; other site 1104321002239 Maf-like protein; Region: Maf; pfam02545 1104321002240 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 1104321002241 active site 1104321002242 dimer interface [polypeptide binding]; other site 1104321002243 zinc-binding protein; Provisional; Region: PRK01343 1104321002244 L-alanine-DL-glutamate epimerase and related enzymes of enolase superfamily [Cell envelope biogenesis, outer membrane / General function prediction only]; Region: COG4948 1104321002245 Human rTS beta is encoded by the rTS gene which, through alternative RNA splicing, also encodes rTS alpha whose mRNA is complementary to thymidylate synthase mRNA. rTS beta expression is associated with the production of small molecules that appear to...; Region: rTSbeta_L-fuconate_dehydratase; cd03324 1104321002246 putative active site pocket [active] 1104321002247 metal binding site [ion binding]; metal-binding site 1104321002248 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 1104321002249 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 1104321002250 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK05565 1104321002251 human DHRS6-like, classical (c) SDRs; Region: DHRS6_like_SDR_c; cd05368 1104321002252 NAD binding site [chemical binding]; other site 1104321002253 homotetramer interface [polypeptide binding]; other site 1104321002254 homodimer interface [polypeptide binding]; other site 1104321002255 active site 1104321002256 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 1104321002257 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 1104321002258 Uncharacterized conserved protein [Function unknown]; Region: COG3254 1104321002259 L-alanine-DL-glutamate epimerase and related enzymes of enolase superfamily [Cell envelope biogenesis, outer membrane / General function prediction only]; Region: COG4948 1104321002260 Mandelate racemase (MR)-like subfamily of the enolase superfamily. Enzymes of this subgroup share three conserved carboxylate ligands for the essential divalent metal ion (usually Mg2+), two aspartates and a glutamate, and conserved catalytic residues; Region: MR_like; cd03316 1104321002261 active site pocket [active] 1104321002262 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 1104321002263 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 1104321002264 Walker A/P-loop; other site 1104321002265 ATP binding site [chemical binding]; other site 1104321002266 Q-loop/lid; other site 1104321002267 ABC transporter signature motif; other site 1104321002268 Walker B; other site 1104321002269 D-loop; other site 1104321002270 H-loop/switch region; other site 1104321002271 TOBE domain; Region: TOBE_2; pfam08402 1104321002272 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 1104321002273 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 1104321002274 dimer interface [polypeptide binding]; other site 1104321002275 conserved gate region; other site 1104321002276 putative PBP binding loops; other site 1104321002277 ABC-ATPase subunit interface; other site 1104321002278 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 1104321002279 dimer interface [polypeptide binding]; other site 1104321002280 conserved gate region; other site 1104321002281 putative PBP binding loops; other site 1104321002282 ABC-ATPase subunit interface; other site 1104321002283 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 1104321002284 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 1104321002285 Transcriptional regulator [Transcription]; Region: IclR; COG1414 1104321002286 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cd00090 1104321002287 putative DNA binding site [nucleotide binding]; other site 1104321002288 putative Zn2+ binding site [ion binding]; other site 1104321002289 Bacterial transcriptional regulator; Region: IclR; pfam01614 1104321002290 Predicted metal-dependent hydrolase of the TIM-barrel fold [General function prediction only]; Region: COG3618 1104321002291 Amidohydrolase; Region: Amidohydro_2; pfam04909 1104321002292 active site 1104321002293 Sarcosine oxidase gamma subunit [Amino acid transport and metabolism]; Region: COG4583 1104321002294 sarcosine oxidase, alpha subunit family, heterotetrameric form; Region: soxA; TIGR01372 1104321002295 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_4; pfam13510 1104321002296 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 1104321002297 Sarcosine oxidase delta subunit [Amino acid transport and metabolism]; Region: SoxD; COG4311 1104321002298 sarcosine oxidase, beta subunit family, heterotetrameric form; Region: soxB; TIGR01373 1104321002299 hydroxyglutarate oxidase; Provisional; Region: PRK11728 1104321002300 Glutamate dehydrogenase/leucine dehydrogenase [Amino acid transport and metabolism]; Region: GdhA; COG0334 1104321002301 Glu/Leu/Phe/Val dehydrogenase, dimerisation domain; Region: ELFV_dehydrog_N; pfam02812 1104321002302 NAD(P) binding domain of glutamate dehydrogenase, subgroup 1; Region: NAD_bind_1_Glu_DH; cd01076 1104321002303 NAD(P) binding site [chemical binding]; other site 1104321002304 nitrobindin heme-binding domain; Region: nitrobindin; cl10502 1104321002305 Periplasmic glycine betaine/choline-binding (lipo)protein of an ABC-type transport system (osmoprotectant binding protein) [Cell envelope biogenesis, outer membrane]; Region: OpuBC; COG1732 1104321002306 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 1104321002307 dimer interface [polypeptide binding]; other site 1104321002308 conserved gate region; other site 1104321002309 ABC-ATPase subunit interface; other site 1104321002310 ABC-type proline/glycine betaine transport systems, ATPase components [Amino acid transport and metabolism]; Region: OpuBA; COG1125 1104321002311 ATP-binding cassette domain of the osmoprotectant transporter; Region: ABC_OpuCA_Osmoprotection; cd03295 1104321002312 Walker A/P-loop; other site 1104321002313 ATP binding site [chemical binding]; other site 1104321002314 Q-loop/lid; other site 1104321002315 ABC transporter signature motif; other site 1104321002316 Walker B; other site 1104321002317 D-loop; other site 1104321002318 H-loop/switch region; other site 1104321002319 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-called...; Region: CBS_pair; cl15354 1104321002320 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 1104321002321 dimer interface [polypeptide binding]; other site 1104321002322 conserved gate region; other site 1104321002323 putative PBP binding loops; other site 1104321002324 ABC-ATPase subunit interface; other site 1104321002325 Cu(I)-responsive transcriptional regulator; Region: CueR; TIGR02044 1104321002326 Helix-Turn-Helix DNA binding domain of CueR-like transcription regulators; Region: HTH_CueR; cd01108 1104321002327 DNA binding residues [nucleotide binding] 1104321002328 dimer interface [polypeptide binding]; other site 1104321002329 copper binding site [ion binding]; other site 1104321002330 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 1104321002331 metal-binding site [ion binding] 1104321002332 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 1104321002333 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 1104321002334 metal-binding site [ion binding] 1104321002335 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 1104321002336 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 1104321002337 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 1104321002338 putative active site [active] 1104321002339 heme pocket [chemical binding]; other site 1104321002340 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 1104321002341 putative active site [active] 1104321002342 heme pocket [chemical binding]; other site 1104321002343 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1104321002344 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1104321002345 metal binding site [ion binding]; metal-binding site 1104321002346 active site 1104321002347 I-site; other site 1104321002348 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 1104321002349 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 1104321002350 dimer interface [polypeptide binding]; other site 1104321002351 substrate binding site [chemical binding]; other site 1104321002352 ATP binding site [chemical binding]; other site 1104321002353 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 1104321002354 glycine oxidase ThiO; Region: thiamin_ThiO; TIGR02352 1104321002355 ThiaminS ubiquitin-like sulfur carrier protein; Region: ThiS; cd00565 1104321002356 thiS-thiF/thiG interaction site; other site 1104321002357 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 1104321002358 ThiS interaction site; other site 1104321002359 putative active site [active] 1104321002360 tetramer interface [polypeptide binding]; other site 1104321002361 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 1104321002362 active site 1104321002363 thiamine phosphate binding site [chemical binding]; other site 1104321002364 pyrophosphate binding site [ion binding]; other site 1104321002365 NMT1/THI5 like; Region: NMT1; pfam09084 1104321002366 TRAP transporter solute receptor, TAXI family; Region: TRAP_TAXI; TIGR02122 1104321002367 Putative transcription activator [Transcription]; Region: TenA; COG0819 1104321002368 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 1104321002369 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 1104321002370 dimer interface [polypeptide binding]; other site 1104321002371 conserved gate region; other site 1104321002372 putative PBP binding loops; other site 1104321002373 ABC-ATPase subunit interface; other site 1104321002374 Bacillus subtilis NADP+-dependent alpha-ketoglutaric semialdehyde dehydrogenase ycbD-like; Region: ALDH_KGSADH-YcbD; cd07097 1104321002375 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 1104321002376 NAD(P) binding site [chemical binding]; other site 1104321002377 catalytic residues [active] 1104321002378 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 1104321002379 ATP-binding cassette domain of the bacterial lipid flippase and related proteins, subfamily C; Region: ABCC_MsbA; cd03251 1104321002380 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 1104321002381 Walker A/P-loop; other site 1104321002382 ATP binding site [chemical binding]; other site 1104321002383 Q-loop/lid; other site 1104321002384 ABC transporter signature motif; other site 1104321002385 Walker B; other site 1104321002386 D-loop; other site 1104321002387 H-loop/switch region; other site 1104321002388 potential frameshift: common BLAST hit: gi|340789825|ref|YP_004755289.1| LacI family transcriptional regulator 1104321002389 Transcriptional regulators [Transcription]; Region: PurR; COG1609 1104321002390 Ligand-binding domain of DNA transcription repressor SalR, a member of the LacI-GalR family of bacterial transcription regulators; Region: PBP1_SalR; cd01545 1104321002391 putative ligand binding site [chemical binding]; other site 1104321002392 Transcriptional regulators [Transcription]; Region: PurR; COG1609 1104321002393 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 1104321002394 DNA binding site [nucleotide binding] 1104321002395 domain linker motif; other site 1104321002396 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 1104321002397 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3564 1104321002398 Zn-dependent alcohol dehydrogenases [General function prediction only]; Region: AdhP; COG1064 1104321002399 Cinnamyl alcohol dehydrogenases (CAD); Region: CAD3; cd08297 1104321002400 NAD binding site [chemical binding]; other site 1104321002401 substrate binding site [chemical binding]; other site 1104321002402 catalytic Zn binding site [ion binding]; other site 1104321002403 tetramer interface [polypeptide binding]; other site 1104321002404 structural Zn binding site [ion binding]; other site 1104321002405 Ralstonia eutrophus NAD+-dependent acetaldehyde dehydrogenase II-like; Region: ALDH_ACDHII-AcoD; cd07116 1104321002406 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 1104321002407 NAD(P) binding site [chemical binding]; other site 1104321002408 catalytic residues [active] 1104321002409 Transcriptional activator of acetoin/glycerol metabolism [Secondary metabolites biosynthesis, transport, and catabolism / Transcription]; Region: AcoR; COG3284 1104321002410 GAF domain; Region: GAF; pfam01590 1104321002411 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 1104321002412 glycerol-3-phosphate dehydrogenase; Reviewed; Region: glpD; PRK12266 1104321002413 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 1104321002414 DeoR-like helix-turn-helix domain; Region: HTH_DeoR; cl17531 1104321002415 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 1104321002416 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 1104321002417 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 1104321002418 DNA binding residues [nucleotide binding] 1104321002419 dimerization interface [polypeptide binding]; other site 1104321002420 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 1104321002421 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 1104321002422 ligand binding site [chemical binding]; other site 1104321002423 flexible hinge region; other site 1104321002424 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 1104321002425 putative switch regulator; other site 1104321002426 non-specific DNA interactions [nucleotide binding]; other site 1104321002427 DNA binding site [nucleotide binding] 1104321002428 sequence specific DNA binding site [nucleotide binding]; other site 1104321002429 putative cAMP binding site [chemical binding]; other site 1104321002430 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 1104321002431 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 1104321002432 active site 1104321002433 bifunctional sulfate adenylyltransferase subunit 1/adenylylsulfate kinase protein; Provisional; Region: PRK05506 1104321002434 CysN, together with protein CysD, forms the ATP sulfurylase (ATPS) complex; Region: CysN_ATPS; cd04166 1104321002435 CysD dimerization site [polypeptide binding]; other site 1104321002436 G1 box; other site 1104321002437 putative GEF interaction site [polypeptide binding]; other site 1104321002438 GTP/Mg2+ binding site [chemical binding]; other site 1104321002439 Switch I region; other site 1104321002440 G2 box; other site 1104321002441 G3 box; other site 1104321002442 Switch II region; other site 1104321002443 G4 box; other site 1104321002444 G5 box; other site 1104321002445 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 1104321002446 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 1104321002447 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 1104321002448 ligand-binding site [chemical binding]; other site 1104321002449 sulfate adenylyltransferase, small subunit; Region: CysD; TIGR02039 1104321002450 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 1104321002451 Active Sites [active] 1104321002452 aminotransferase; Provisional; Region: PRK06105 1104321002453 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 1104321002454 inhibitor-cofactor binding pocket; inhibition site 1104321002455 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1104321002456 catalytic residue [active] 1104321002457 Autoinducer binding domain; Region: Autoind_bind; pfam03472 1104321002458 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 1104321002459 DNA binding residues [nucleotide binding] 1104321002460 B12-dependent methionine synthase; Provisional; Region: metH; PRK09490 1104321002461 Methionine synthase I (cobalamin-dependent), methyltransferase domain [Amino acid transport and metabolism]; Region: MetH; COG0646 1104321002462 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 1104321002463 substrate binding pocket [chemical binding]; other site 1104321002464 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 1104321002465 B12 binding site [chemical binding]; other site 1104321002466 cobalt ligand [ion binding]; other site 1104321002467 Vitamin B12 dependent methionine synthase, activation domain; Region: Met_synt_B12; pfam02965 1104321002468 BA14K-like protein; Region: BA14K; pfam07886 1104321002469 Methylated DNA-protein cysteine methyltransferase [DNA replication, recombination, and repair]; Region: Ada; COG0350 1104321002470 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 1104321002471 active site 1104321002472 DNA binding site [nucleotide binding] 1104321002473 Stress responsive A/B Barrel Domain; Region: Dabb; pfam07876 1104321002474 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3749 1104321002475 3'-phosphoadenosine 5'-phosphosulfate sulfotransferase (PAPS reductase)/FAD synthetase and related enzymes [Amino acid transport and metabolism / Coenzyme metabolism]; Region: CysH; COG0175 1104321002476 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 1104321002477 Active Sites [active] 1104321002478 Sulfite reductase, beta subunit (hemoprotein) [Inorganic ion transport and metabolism]; Region: CysI; COG0155 1104321002479 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 1104321002480 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 1104321002481 Protein of unknown function (DUF2849); Region: DUF2849; pfam11011 1104321002482 Siroheme synthase (precorrin-2 oxidase/ferrochelatase domain) [Coenzyme metabolism]; Region: CysG; COG1648 1104321002483 Putative NAD(P)-binding; Region: NAD_binding_7; pfam13241 1104321002484 Sirohaem synthase dimerisation region; Region: CysG_dimeriser; pfam10414 1104321002485 Uroporphyrin-III C-methyltransferase (S-Adenosyl-L-methionine:uroporphyrinogen III methyltransferase, SUMT); Region: SUMT; cd11642 1104321002486 active site 1104321002487 SAM binding site [chemical binding]; other site 1104321002488 homodimer interface [polypeptide binding]; other site 1104321002489 hypothetical protein; Reviewed; Region: PRK12497 1104321002490 Predicted methyltransferases [General function prediction only]; Region: COG0313 1104321002491 Ribosomal RNA small subunit methyltransferase I, also known as rRNA (cytidine-2'-O-)-methyltransferase RsmI; Region: RsmI; cd11648 1104321002492 putative SAM binding site [chemical binding]; other site 1104321002493 putative homodimer interface [polypeptide binding]; other site 1104321002494 coproporphyrinogen III oxidase; Provisional; Region: PRK09057 1104321002495 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 1104321002496 FeS/SAM binding site; other site 1104321002497 HemN C-terminal domain; Region: HemN_C; pfam06969 1104321002498 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 1104321002499 active site 1104321002500 dimerization interface [polypeptide binding]; other site 1104321002501 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 1104321002502 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_13; cd08354 1104321002503 putative metal binding site [ion binding]; other site 1104321002504 ribonuclease PH; Reviewed; Region: rph; PRK00173 1104321002505 Ribonuclease PH; Region: RNase_PH_bact; cd11362 1104321002506 hexamer interface [polypeptide binding]; other site 1104321002507 active site 1104321002508 heat-inducible transcription repressor; Provisional; Region: hrcA; PRK00082 1104321002509 heat shock protein GrpE; Provisional; Region: PRK14141 1104321002510 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 1104321002511 dimer interface [polypeptide binding]; other site 1104321002512 hsp70 (ATPase domain) interactions [polypeptide binding]; other site 1104321002513 UPF0126 domain; Region: UPF0126; pfam03458 1104321002514 Predicted membrane protein [Function unknown]; Region: COG2860 1104321002515 UPF0126 domain; Region: UPF0126; pfam03458 1104321002516 Adenosine kinase (AK) catalyzes the phosphorylation of ribofuranosyl-containing nucleoside analogues at the 5'-hydroxyl using ATP or GTP as the phosphate donor.The physiological function of AK is associated with the regulation of extracellular...; Region: adenosine_kinase; cd01168 1104321002517 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 1104321002518 substrate binding site [chemical binding]; other site 1104321002519 ATP binding site [chemical binding]; other site 1104321002520 CysZ-like protein; Reviewed; Region: PRK12768 1104321002521 Predicted EndoIII-related endonuclease [DNA replication, recombination, and repair]; Region: Nth; COG0177 1104321002522 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 1104321002523 minor groove reading motif; other site 1104321002524 helix-hairpin-helix signature motif; other site 1104321002525 substrate binding pocket [chemical binding]; other site 1104321002526 active site 1104321002527 Iron-sulfur binding domain of endonuclease III; Region: EndIII_4Fe-2S; pfam10576 1104321002528 Integral membrane protein [Function unknown]; Region: COG5488 1104321002529 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 1104321002530 Alpha-crystallin domain (ACD) found in Escherichia coli inclusion body-associated proteins IbpA and IbpB, and similar proteins. IbpA and IbpB are 16 kDa small heat shock proteins (sHsps). sHsps are molecular chaperones that suppress protein aggregation...; Region: ACD_IbpA-B_like; cd06470 1104321002531 putative dimer interface [polypeptide binding]; other site 1104321002532 Uncharacterized small protein [Function unknown]; Region: COG5568 1104321002533 PTS_IIA, PTS system, fructose/mannitol specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This...; Region: PTS_IIA_fru; cd00211 1104321002534 active site 1104321002535 phosphorylation site [posttranslational modification] 1104321002536 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 1104321002537 30S subunit binding site; other site 1104321002538 RNA polymerase factor sigma-54; Reviewed; Region: PRK05932 1104321002539 Sigma-54 factor, Activator interacting domain (AID); Region: Sigma54_AID; pfam00309 1104321002540 Sigma-54 factor, core binding domain; Region: Sigma54_CBD; pfam04963 1104321002541 Sigma-54, DNA binding domain; Region: Sigma54_DBD; pfam04552 1104321002542 ABC-type (unclassified) transport system, ATPase component [General function prediction only]; Region: YhbG; COG1137 1104321002543 ATP-binding cassette component of YhbG transport system; Region: ABC_YhbG; cd03218 1104321002544 Walker A/P-loop; other site 1104321002545 ATP binding site [chemical binding]; other site 1104321002546 Q-loop/lid; other site 1104321002547 ABC transporter signature motif; other site 1104321002548 Walker B; other site 1104321002549 D-loop; other site 1104321002550 H-loop/switch region; other site 1104321002551 lipopolysaccharide transport periplasmic protein LptA; Region: outer_YhbN_LptA; TIGR03002 1104321002552 OstA-like protein; Region: OstA; pfam03968 1104321002553 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5375 1104321002554 Lipopolysaccharide-assembly, LptC-related; Region: LptC; pfam06835 1104321002555 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 1104321002556 signal peptide peptidase SppA, 36K type; Region: SppA_dom; TIGR00706 1104321002557 tandem repeat interface [polypeptide binding]; other site 1104321002558 oligomer interface [polypeptide binding]; other site 1104321002559 active site residues [active] 1104321002560 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 1104321002561 IHF dimer interface [polypeptide binding]; other site 1104321002562 IHF - DNA interface [nucleotide binding]; other site 1104321002563 Predicted SAM-dependent methyltransferases [General function prediction only]; Region: COG1092 1104321002564 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 1104321002565 S-adenosylmethionine binding site [chemical binding]; other site 1104321002566 rRNA methylases [Translation, ribosomal structure and biogenesis]; Region: SpoU; COG0566 1104321002567 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; pfam08032 1104321002568 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 1104321002569 lipoprotein signal peptidase; Provisional; Region: PRK14795 1104321002570 lipoprotein signal peptidase; Provisional; Region: PRK14787 1104321002571 Putative hemolysin [General function prediction only]; Region: COG3176 1104321002572 DNA mismatch repair protein MutS; Provisional; Region: PRK05399 1104321002573 MutS domain I; Region: MutS_I; pfam01624 1104321002574 MutS domain II; Region: MutS_II; pfam05188 1104321002575 MutS domain III; Region: MutS_III; pfam05192 1104321002576 ATP-binding cassette domain of MutS1 homolog; Region: ABC_MutS1; cd03284 1104321002577 Walker A/P-loop; other site 1104321002578 ATP binding site [chemical binding]; other site 1104321002579 Q-loop/lid; other site 1104321002580 ABC transporter signature motif; other site 1104321002581 Walker B; other site 1104321002582 D-loop; other site 1104321002583 H-loop/switch region; other site 1104321002584 Malic enzyme, N-terminal domain; Region: malic; pfam00390 1104321002585 NAD(P) binding domain of malic enzyme (ME), subgroup 2; Region: NAD_bind_2_malic_enz; cd05311 1104321002586 putative NAD(P) binding site [chemical binding]; other site 1104321002587 Phosphotransacetylase [Energy production and conversion]; Region: Pta; COG0280 1104321002588 PII uridylyl-transferase; Provisional; Region: PRK05092 1104321002589 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 1104321002590 metal binding triad; other site 1104321002591 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 1104321002592 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 1104321002593 Zn2+ binding site [ion binding]; other site 1104321002594 Mg2+ binding site [ion binding]; other site 1104321002595 ACT domain family, ACT_UUR-like_1, includes the first of two C-terminal ACT domains of the bacterial signal-transducing uridylyltransferase /uridylyl-removing (UUR) enzyme, GlnD and related domains; Region: ACT_UUR-like_1; cd04900 1104321002596 C-terminal ACT domains of the bacterial signal-transducing uridylyltransferase /uridylyl-removing (UUR) enzyme, GlnD and related domains; Region: ACT_ACR-UUR-like_2; cd04899 1104321002597 Uncharacterized membrane protein, putative virulence factor [General function prediction only]; Region: MviN; COG0728 1104321002598 MurJ/MviN, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_MurJ_like; cd13123 1104321002599 tryptophanyl-tRNA synthetase II; Reviewed; Region: PRK12282 1104321002600 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 1104321002601 active site 1104321002602 HIGH motif; other site 1104321002603 dimer interface [polypeptide binding]; other site 1104321002604 KMSKS motif; other site 1104321002605 Universal stress protein family; Region: Usp; pfam00582 1104321002606 Ligand Binding Site [chemical binding]; other site 1104321002607 Scaffold protein Nfu/NifU N terminal; Region: Nfu_N; pfam08712 1104321002608 Thioredoxin-like proteins and domains [Posttranslational modification, protein turnover, chaperones]; Region: COG0694 1104321002609 Uncharacterized protein conserved in bacteria [Function unknown]; Region: ErfK; COG1376 1104321002610 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 1104321002611 Protein of unknown function (DUF1052); Region: DUF1052; pfam06319 1104321002612 Response regulator consisting of a CheY-like receiver domain and a Fis-type HTH domain [Signal transduction mechanisms / Transcription]; Region: COG4567 1104321002613 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1104321002614 active site 1104321002615 phosphorylation site [posttranslational modification] 1104321002616 intermolecular recognition site; other site 1104321002617 dimerization interface [polypeptide binding]; other site 1104321002618 PucR C-terminal helix-turn-helix domain; Region: HTH_30; pfam13556 1104321002619 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3293 1104321002620 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 1104321002621 Putative transposase of IS4/5 family (DUF4096); Region: DUF4096; pfam13340 1104321002622 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1104321002623 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 1104321002624 ATP binding site [chemical binding]; other site 1104321002625 Mg2+ binding site [ion binding]; other site 1104321002626 G-X-G motif; other site 1104321002627 ATP-dependent helicase C-terminal; Region: HrpB_C; pfam08482 1104321002628 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 1104321002629 ATP binding site [chemical binding]; other site 1104321002630 putative Mg++ binding site [ion binding]; other site 1104321002631 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 1104321002632 nucleotide binding region [chemical binding]; other site 1104321002633 ATP-binding site [chemical binding]; other site 1104321002634 Helicase associated domain (HA2) Add an annotation; Region: HA2; smart00847 1104321002635 Transcriptional regulators RcnR and FrmR, and related domains; this domain family was previously known as part of DUF156; Region: RcnR-FrmR-like_DUF156; cd10153 1104321002636 putative metal binding site [ion binding]; other site 1104321002637 putative homodimer interface [polypeptide binding]; other site 1104321002638 putative homotetramer interface [polypeptide binding]; other site 1104321002639 putative homodimer-homodimer interface [polypeptide binding]; other site 1104321002640 putative allosteric switch controlling residues; other site 1104321002641 Zn-dependent alcohol dehydrogenases, class III [Energy production and conversion]; Region: AdhC; COG1062 1104321002642 class III alcohol dehydrogenases; Region: alcohol_DH_class_III; cd08300 1104321002643 substrate binding site [chemical binding]; other site 1104321002644 catalytic Zn binding site [ion binding]; other site 1104321002645 NAD binding site [chemical binding]; other site 1104321002646 structural Zn binding site [ion binding]; other site 1104321002647 dimer interface [polypeptide binding]; other site 1104321002648 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 1104321002649 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1104321002650 Coenzyme A binding pocket [chemical binding]; other site 1104321002651 Predicted membrane protein [Function unknown]; Region: COG4291 1104321002652 S-formylglutathione hydrolase; Region: PLN02442 1104321002653 S-formylglutathione hydrolase; Region: fghA_ester_D; TIGR02821 1104321002654 DNA gyrase subunit B; Provisional; Region: gyrB; PRK14939 1104321002655 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 1104321002656 Mg2+ binding site [ion binding]; other site 1104321002657 G-X-G motif; other site 1104321002658 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 1104321002659 anchoring element; other site 1104321002660 dimer interface [polypeptide binding]; other site 1104321002661 ATP binding site [chemical binding]; other site 1104321002662 Topoisomerase-primase domain. This is a nucleotidyl transferase/hydrolase domain found in type IA, type IIA and type IIB topoisomerases, bacterial DnaG-type primases, small primase-like proteins from bacteria and archaea, OLD family nucleases from...; Region: TOPRIM; cl00718 1104321002663 active site 1104321002664 metal binding site [ion binding]; metal-binding site 1104321002665 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 1104321002666 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 1104321002667 DEAD-like helicases superfamily; Region: DEXDc; smart00487 1104321002668 ATP binding site [chemical binding]; other site 1104321002669 Mg++ binding site [ion binding]; other site 1104321002670 motif III; other site 1104321002671 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 1104321002672 nucleotide binding region [chemical binding]; other site 1104321002673 ATP-binding site [chemical binding]; other site 1104321002674 RNA recognition motif in the DbpA subfamily of prokaryotic DEAD-box rRNA helicases; Region: RRM_DbpA; cd12252 1104321002675 RNA binding site [nucleotide binding]; other site 1104321002676 DNA polymerase I; Region: pola; TIGR00593 1104321002677 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 1104321002678 active site 1104321002679 metal binding site 1 [ion binding]; metal-binding site 1104321002680 putative 5' ssDNA interaction site; other site 1104321002681 metal binding site 3; metal-binding site 1104321002682 metal binding site 2 [ion binding]; metal-binding site 1104321002683 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 1104321002684 putative DNA binding site [nucleotide binding]; other site 1104321002685 putative metal binding site [ion binding]; other site 1104321002686 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 1104321002687 active site 1104321002688 catalytic site [active] 1104321002689 substrate binding site [chemical binding]; other site 1104321002690 Polymerase I functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication; Region: DNA_pol_A_pol_I_C; cd08637 1104321002691 active site 1104321002692 DNA binding site [nucleotide binding] 1104321002693 catalytic site [active] 1104321002694 hypothetical protein; Validated; Region: PRK09104 1104321002695 Uncharacterized M20 Dipeptidases; Region: M20_dipept_like_3; cd05680 1104321002696 metal binding site [ion binding]; metal-binding site 1104321002697 putative dimer interface [polypeptide binding]; other site 1104321002698 Ribonuclease D [Translation, ribosomal structure and biogenesis]; Region: Rnd; COG0349 1104321002699 DEDDy 3'-5' exonuclease domain of Ribonuclease D and similar proteins; Region: RNaseD_exo; cd06142 1104321002700 catalytic site [active] 1104321002701 putative active site [active] 1104321002702 putative substrate binding site [chemical binding]; other site 1104321002703 Opacity protein and related surface antigens [Cell envelope biogenesis, outer membrane]; Region: COG3637 1104321002704 Opacity protein and related surface antigens [Cell envelope biogenesis, outer membrane]; Region: COG3637 1104321002705 Membrane carboxypeptidase (penicillin-binding protein) [Cell envelope biogenesis, outer membrane]; Region: MrcB; COG0744 1104321002706 Transglycosylase; Region: Transgly; pfam00912 1104321002707 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 1104321002708 Dehydrogenases with different specificities (related to short-chain alcohol dehydrogenases) [Secondary metabolites biosynthesis, transport, and catabolism / General function prediction only]; Region: FabG; COG1028 1104321002709 classical (c) SDRs; Region: SDR_c; cd05233 1104321002710 NAD(P) binding site [chemical binding]; other site 1104321002711 active site 1104321002712 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 1104321002713 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 1104321002714 putative substrate binding site [chemical binding]; other site 1104321002715 putative ATP binding site [chemical binding]; other site 1104321002716 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 1104321002717 S-adenosylmethionine binding site [chemical binding]; other site 1104321002718 Predicted epimerase, PhzC/PhzF homolog [General function prediction only]; Region: COG0384 1104321002719 Nicotinic acid phosphoribosyltransferase [Coenzyme metabolism]; Region: PncB; COG1488 1104321002720 nicotinate phosphoribosyltransferase; Provisional; Region: PRK05321 1104321002721 active site 1104321002722 Glycosyltransferases, probably involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: COG1215 1104321002723 Protein of unknown function (DUF3131); Region: DUF3131; pfam11329 1104321002724 Putative glucoamylase; Region: Glycoamylase; pfam10091 1104321002725 Second GH94N domain of cyclic beta 1-2 glucan synthetase and similar domains; Region: GH94N_ChvB_NdvB_2_like; cd11753 1104321002726 Cellobiose phosphorylase [Carbohydrate transport and metabolism]; Region: COG3459 1104321002727 First GH94N domain of cyclic beta 1-2 glucan synthetase and similar domains; Region: GH94N_ChvB_NdvB_1_like; cd11756 1104321002728 Protein of unknown function, DUF608; Region: DUF608; pfam04685 1104321002729 ABC-type sulfate/molybdate transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: CysA; COG1118 1104321002730 ATP-binding cassette domain of the sulfate transporter; Region: ABC_CysA_sulfate_importer; cd03296 1104321002731 Walker A/P-loop; other site 1104321002732 ATP binding site [chemical binding]; other site 1104321002733 Q-loop/lid; other site 1104321002734 ABC transporter signature motif; other site 1104321002735 Walker B; other site 1104321002736 D-loop; other site 1104321002737 H-loop/switch region; other site 1104321002738 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 1104321002739 dimer interface [polypeptide binding]; other site 1104321002740 conserved gate region; other site 1104321002741 putative PBP binding loops; other site 1104321002742 ABC-ATPase subunit interface; other site 1104321002743 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 1104321002744 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 1104321002745 dimer interface [polypeptide binding]; other site 1104321002746 conserved gate region; other site 1104321002747 putative PBP binding loops; other site 1104321002748 ABC-ATPase subunit interface; other site 1104321002749 ABC-type sulfate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: Sbp; COG1613 1104321002750 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 1104321002751 Uncharacterized conserved protein [Function unknown]; Region: COG1434 1104321002752 YdcF-like. YdcF-like is a large family of mainly bacterial proteins, with a few members found in fungi, plants, and archaea. Escherichia coli YdcF has been shown to bind S-adenosyl-L-methionine (AdoMet), but a biochemical function has not been...; Region: YdcF-like; cd06259 1104321002753 putative active site [active] 1104321002754 Membrane-bound lysozyme-inhibitor of c-type lysozyme; Region: MliC; cl01604 1104321002755 Domain of Unknown Function (DUF930); Region: DUF930; pfam06059 1104321002756 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1104321002757 active site 1104321002758 metal binding site [ion binding]; metal-binding site 1104321002759 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 1104321002760 AsnC family; Region: AsnC_trans_reg; pfam01037 1104321002761 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 1104321002762 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1104321002763 active site 1104321002764 phosphorylation site [posttranslational modification] 1104321002765 intermolecular recognition site; other site 1104321002766 DnaJ domain or J-domain. DnaJ/Hsp40 (heat shock protein 40) proteins are highly conserved and play crucial roles in protein translation, folding, unfolding, translocation, and degradation. They act primarily by stimulating the ATPase activity of Hsp70s; Region: DnaJ; cl02542 1104321002767 dihydroxy-acid dehydratase; Provisional; Region: PRK12448 1104321002768 periplasmic protein thiol:disulfide oxidoreductases, DsbE subfamily; Region: dsbE; TIGR00385 1104321002769 TlpA-like family, DsbE (also known as CcmG and CycY) subfamily; DsbE is a membrane-anchored, periplasmic TRX-like reductase containing a CXXC motif that specifically donates reducing equivalents to apocytochrome c via CcmH, another cytochrome c...; Region: TlpA_like_DsbE; cd03010 1104321002770 catalytic residues [active] 1104321002771 central insert; other site 1104321002772 heme exporter protein CcmD; Region: cytochro_ccmD; TIGR03141 1104321002773 heme exporter protein CcmC; Region: ccmC; TIGR01191 1104321002774 ABC-type transport system involved in cytochrome c biogenesis, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CcmB; COG2386 1104321002775 cytochrome c biogenesis protein CcmA; Provisional; Region: PRK13539 1104321002776 Cytochrome c biogenesis ATP-binding export protein; Region: ABC_CcmA_heme_exporter; cd03231 1104321002777 Walker A/P-loop; other site 1104321002778 ATP binding site [chemical binding]; other site 1104321002779 Q-loop/lid; other site 1104321002780 ABC transporter signature motif; other site 1104321002781 Walker B; other site 1104321002782 D-loop; other site 1104321002783 H-loop/switch region; other site 1104321002784 aconitate hydratase; Validated; Region: PRK09277 1104321002785 Aconitase A catalytic domain; Region: AcnA_IRP; cd01586 1104321002786 substrate binding site [chemical binding]; other site 1104321002787 ligand binding site [chemical binding]; other site 1104321002788 Aconitase A swivel domain. This is the major form of the TCA cycle enzyme aconitate hydratase, also known as aconitase and citrate hydro-lyase. It includes bacterial and archaeal aconitase A, and the eukaryotic cytosolic form of aconitase. This group...; Region: AcnA_IRP_Swivel; cd01580 1104321002789 substrate binding site [chemical binding]; other site 1104321002790 Uncharacterized secreted protein [Function unknown]; Region: COG5429 1104321002791 Protein of unknown function (DUF2794); Region: DUF2794; pfam10984 1104321002792 Sortase and related acyltransferases [Cell envelope biogenesis, outer membrane]; Region: COG1247 1104321002793 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1104321002794 Coenzyme A binding pocket [chemical binding]; other site 1104321002795 Integral membrane protein, interacts with FtsH [General function prediction only]; Region: COG0670 1104321002796 Bacterial BAX inhibitor (BI)-1/YccA-like proteins; Region: BI-1-like_bacterial; cd10432 1104321002797 Predicted ABC-type transport system involved in lysophospholipase L1 biosynthesis, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3127 1104321002798 Predicted ABC-type transport system involved in lysophospholipase L1 biosynthesis, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG4181 1104321002799 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 1104321002800 Walker A/P-loop; other site 1104321002801 ATP binding site [chemical binding]; other site 1104321002802 Q-loop/lid; other site 1104321002803 ABC transporter signature motif; other site 1104321002804 Walker B; other site 1104321002805 D-loop; other site 1104321002806 H-loop/switch region; other site 1104321002807 Lysophospholipase L1-like subgroup of SGNH-hydrolases. The best characterized member in this family is TesA, an E. coli periplasmic protein with thioesterase, esterase, arylesterase, protease and lysophospholipase activity; Region: Lysophospholipase_L1_like; cd01822 1104321002808 active site 1104321002809 catalytic triad [active] 1104321002810 oxyanion hole [active] 1104321002811 switch loop; other site 1104321002812 2'-5' RNA ligase; Region: 2_5_ligase; TIGR02258 1104321002813 LigT like Phosphoesterase; Region: LigT_PEase; pfam02834 1104321002814 LigT like Phosphoesterase; Region: LigT_PEase; pfam02834 1104321002815 PCD_DCoH: The bifunctional protein pterin-4alpha-carbinolamine dehydratase (PCD), also known as DCoH (dimerization cofactor of hepatocyte nuclear factor-1), is both a transcription activator and a metabolic enzyme. DCoH stimulates gene expression by...; Region: PCD_DCoH_subfamily_b; cd00914 1104321002816 aromatic arch; other site 1104321002817 DCoH dimer interaction site [polypeptide binding]; other site 1104321002818 DCoH /HNF-1 dimer interaction site [polypeptide binding]; other site 1104321002819 DCoH tetramer interaction site [polypeptide binding]; other site 1104321002820 substrate binding site [chemical binding]; other site 1104321002821 Uncharacterized conserved protein [Function unknown]; Region: COG3339 1104321002822 Invasion associated locus B (IalB) protein; Region: IalB; cl02207 1104321002823 Predicted Fe-S-cluster redox enzyme [General function prediction only]; Region: COG0820 1104321002824 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 1104321002825 FeS/SAM binding site; other site 1104321002826 potential frameshift: common BLAST hit: gi|148559131|ref|YP_001258117.1| LysE family amino acid efflux protein 1104321002827 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 1104321002828 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 1104321002829 argininosuccinate synthase; Provisional; Region: PRK13820 1104321002830 Argininosuccinate synthase. The Argininosuccinate synthase is a urea cycle enzyme that catalyzes the penultimate step in arginine biosynthesis: the ATP-dependent ligation of citrulline to aspartate to form argininosuccinate, AMP and pyrophosphate . In...; Region: Argininosuccinate_Synthase; cd01999 1104321002831 ANP binding site [chemical binding]; other site 1104321002832 Substrate Binding Site II [chemical binding]; other site 1104321002833 Substrate Binding Site I [chemical binding]; other site 1104321002834 Autotransporter adhesin [Intracellular trafficking and secretion / Extracellular structures]; Region: Hia; COG5295 1104321002835 Left-handed beta-roll, including virulence factors and various other proteins; Region: LbR-like; cl17507 1104321002836 trimer interface [polypeptide binding]; other site 1104321002837 Haemagglutinin; Region: HIM; pfam05662 1104321002838 YadA-like C-terminal region; Region: YadA; pfam03895 1104321002839 Uncharacterized conserved protein [Function unknown]; Region: COG4544 1104321002840 DNA Polymerase Y-family; Region: PolY_like; cd03468 1104321002841 active site 1104321002842 Nucleotidyltransferase/DNA polymerase involved in DNA repair [DNA replication, recombination, and repair]; Region: DinP; COG0389 1104321002843 DNA binding site [nucleotide binding] 1104321002844 potential frameshift: common BLAST hit: gi|340789698|ref|YP_004755162.1| DNA polymerase III subunit alpha 1104321002845 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III at DnaE2 gene; Region: PHP_PolIIIA_DnaE2; cd07434 1104321002846 putative active site [active] 1104321002847 DNA polymerase alpha chain like domain; Region: POLIIIAc; smart00481 1104321002848 putative PHP Thumb interface [polypeptide binding]; other site 1104321002849 Bacterial DNA polymerase III alpha subunit; Region: DNA_pol3_alpha; pfam07733 1104321002850 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 1104321002851 generic binding surface II; other site 1104321002852 generic binding surface I; other site 1104321002853 Predicted membrane protein, hemolysin III homolog [General function prediction only]; Region: COG1272 1104321002854 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 1104321002855 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 1104321002856 N-acetyl-D-glucosamine binding site [chemical binding]; other site 1104321002857 catalytic residue [active] 1104321002858 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 1104321002859 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 1104321002860 nucleoside triphosphate hydrolase domain-containing protein; Reviewed; Region: PRK09270 1104321002861 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 1104321002862 active site 1104321002863 Hydrolases of the alpha/beta superfamily [General function prediction only]; Region: COG1073 1104321002864 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 1104321002865 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1104321002866 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1104321002867 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator CrgA-like, contains the type 2 periplasmic binding fold; Region: PBP2_CrgA_like_5; cd08474 1104321002868 putative effector binding pocket; other site 1104321002869 putative dimerization interface [polypeptide binding]; other site 1104321002870 phosphoglucomutase; Region: PLN02307 1104321002871 Phosphoglucomutase 1 (PGM1) catalyzes the bidirectional interconversion of glucose-1-phosphate (G-1-P) and glucose-6-phosphate (G-6-P) via a glucose 1,6-diphosphate intermediate, an important metabolic step in prokaryotes and eukaryotes. In one direction; Region: PGM1; cd03085 1104321002872 substrate binding site [chemical binding]; other site 1104321002873 dimer interface [polypeptide binding]; other site 1104321002874 active site 1104321002875 metal binding site [ion binding]; metal-binding site 1104321002876 Domain of unknown function DUF59; Region: DUF59; pfam01883 1104321002877 cell division ATPase MinD, archaeal; Region: minD_arch; TIGR01969 1104321002878 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 1104321002879 Walker A motif; other site 1104321002880 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 1104321002881 Glyoxalase I catalyzes the isomerization of the hemithioacetal, formed by a 2-oxoaldehyde and glutathione, to S-D-lactoylglutathione; Region: Glyoxalase_I; cd07233 1104321002882 dimer interface [polypeptide binding]; other site 1104321002883 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 1104321002884 active site 1104321002885 metal binding site [ion binding]; metal-binding site 1104321002886 glutathione binding site [chemical binding]; other site 1104321002887 Reeler-like domain of YcnI and similar proteins; Region: YcnI_like; cd08545 1104321002888 Copper(I)-binding protein [Inorganic ion transport and metabolism]; Region: COG2847 1104321002889 Uncharacterized protein conserved in bacteria [Function unknown]; Region: ErfK; COG1376 1104321002890 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 1104321002891 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2911 1104321002892 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2911 1104321002893 Family of unknown function (DUF490); Region: DUF490; pfam04357 1104321002894 Outer membrane protein [Cell envelope biogenesis, outer membrane]; Region: COG0729 1104321002895 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 1104321002896 Surface antigen; Region: Bac_surface_Ag; pfam01103 1104321002897 Bacterial SH3 domain; Region: SH3_3; pfam08239 1104321002898 Heme/copper-type cytochrome/quinol oxidase, subunit 4 [Energy production and conversion]; Region: CyoD; COG3125 1104321002899 Ubiquinol oxidase subunit III subfamily. Ubiquinol oxidase, the terminal oxidase in the respiratory chains of aerobic bacteria, is a multi-chain transmembrane protein located in the cell membrane. It catalyzes the reduction of O2 and simultaneously...; Region: Ubiquinol_oxidase_III; cd02863 1104321002900 Subunit I/III interface [polypeptide binding]; other site 1104321002901 Subunit III/IV interface [polypeptide binding]; other site 1104321002902 Heme/copper-type cytochrome/quinol oxidases, subunit 1 [Energy production and conversion]; Region: CyoB; COG0843 1104321002903 Ubiquinol oxidase subunit I. Ubiquinol oxidase, the terminal oxidase in the respiratory chains of aerobic bacteria, is a multi-chain transmembrane protein located in the cell membrane. It catalyzes the reduction of O2 and simultaneously pumps protons...; Region: Ubiquinol_Oxidase_I; cd01662 1104321002904 D-pathway; other site 1104321002905 Putative ubiquinol binding site [chemical binding]; other site 1104321002906 Low-spin heme (heme b) binding site [chemical binding]; other site 1104321002907 Putative water exit pathway; other site 1104321002908 Binuclear center (heme o3/CuB) [ion binding]; other site 1104321002909 K-pathway; other site 1104321002910 Putative proton exit pathway; other site 1104321002911 cytochrome o ubiquinol oxidase subunit II; Region: CyoA; TIGR01433 1104321002912 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; pfam00116 1104321002913 COX Aromatic Rich Motif; Region: COX_ARM; pfam06481 1104321002914 Molybdopterin biosynthesis enzyme [Coenzyme metabolism]; Region: MoeA; COG0303 1104321002915 MoeA_like. This domain is similar to a domain found in a variety of proteins involved in biosynthesis of molybdopterin cofactor, like MoaB, MogA, and MoeA. There this domain is presumed to bind molybdopterin. The exact function of this subgroup is...; Region: MoeA_like; cd03522 1104321002916 putative MPT binding site; other site 1104321002917 Cytochrome c2 [Energy production and conversion]; Region: COG3474 1104321002918 3-deoxy-manno-octulosonate cytidylyltransferase; Provisional; Region: PRK05450 1104321002919 CMP-KDO synthetase catalyzes the activation of KDO which is an essential component of the lipopolysaccharide; Region: CMP-KDO-Synthetase; cd02517 1104321002920 Ligand binding site; other site 1104321002921 oligomer interface; other site 1104321002922 prephenate dehydratase; Provisional; Region: PRK11899 1104321002923 Prephenate dehydratase; Region: PDT; pfam00800 1104321002924 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 1104321002925 putative L-Phe binding site [chemical binding]; other site 1104321002926 NTP pyrophosphohydrolases containing a Zn-finger, probably nucleic-acid-binding [DNA replication, recombination, and repair]; Region: NPY1; COG2816 1104321002927 NADH pyrophosphatase-like rudimentary NUDIX domain; Region: NUDIX-like; pfam09296 1104321002928 NADH pyrophosphatase zinc ribbon domain; Region: zf-NADH-PPase; pfam09297 1104321002929 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 1104321002930 putative NADH binding site [chemical binding]; other site 1104321002931 putative active site [active] 1104321002932 nudix motif; other site 1104321002933 putative metal binding site [ion binding]; other site 1104321002934 Diadenosine tetraphosphate (Ap4A) hydrolase and other HIT family hydrolases [Nucleotide transport and metabolism / Carbohydrate transport and metabolism / General function prediction only]; Region: Hit; COG0537 1104321002935 DNA polymerase III subunits gamma and tau; Validated; Region: PRK09111 1104321002936 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 1104321002937 Walker A motif; other site 1104321002938 ATP binding site [chemical binding]; other site 1104321002939 Walker B motif; other site 1104321002940 arginine finger; other site 1104321002941 DNA polymerase III subunits gamma and tau domain III; Region: DNA_pol3_gamma3; pfam12169 1104321002942 DNA polymerase III gamma and tau subunits C terminal; Region: DUF3646; pfam12362 1104321002943 hypothetical protein; Validated; Region: PRK00153 1104321002944 recombination protein RecR; Reviewed; Region: recR; PRK00076 1104321002945 RecR protein; Region: RecR; pfam02132 1104321002946 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 1104321002947 putative active site [active] 1104321002948 putative metal-binding site [ion binding]; other site 1104321002949 tetramer interface [polypeptide binding]; other site 1104321002950 lytic murein transglycosylase; Region: MltB_2; TIGR02283 1104321002951 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 1104321002952 N-acetyl-D-glucosamine binding site [chemical binding]; other site 1104321002953 putative DNA-binding transcriptional regulator; Provisional; Region: PRK10837 1104321002954 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1104321002955 C-terminal substrate binding domain of LysR-type transcriptional regulator CysL, which activates the transcription of the cysJI operon encoding sulfite reductase, contains the type 2 periplasmic binding fold; Region: PBP2_CysL_like; cd08420 1104321002956 putative dimerization interface [polypeptide binding]; other site 1104321002957 Predicted membrane protein [Function unknown]; Region: COG2855 1104321002958 30S ribosomal protein S1; Reviewed; Region: rpsA; PRK06299 1104321002959 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 1104321002960 RNA binding site [nucleotide binding]; other site 1104321002961 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 1104321002962 RNA binding site [nucleotide binding]; other site 1104321002963 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 1104321002964 RNA binding site [nucleotide binding]; other site 1104321002965 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 1104321002966 RNA binding site [nucleotide binding]; other site 1104321002967 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 1104321002968 RNA binding site [nucleotide binding]; other site 1104321002969 S1_RPS1_repeat_ec6: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture consists...; Region: S1_RPS1_repeat_ec6; cd05691 1104321002970 RNA binding site [nucleotide binding]; other site 1104321002971 cytidylate kinase; Provisional; Region: cmk; PRK00023 1104321002972 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 1104321002973 CMP-binding site; other site 1104321002974 The sites determining sugar specificity; other site 1104321002975 3-phosphoshikimate 1-carboxyvinyltransferase; Provisional; Region: PRK02427 1104321002976 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 1104321002977 hinge; other site 1104321002978 active site 1104321002979 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4530 1104321002980 Protein of unknown function (FYDLN_acid); Region: FYDLN_acid; pfam09538 1104321002981 Predicted acyltransferases [Lipid metabolism]; Region: COG1835 1104321002982 CHRD domain; Region: CHRD; pfam07452 1104321002983 acetoacetyl-CoA synthetase; Provisional; Region: PRK03584 1104321002984 Acetoacetyl-CoA synthetase (acetoacetate-CoA ligase, AACS); Region: AACS; cd05943 1104321002985 acyl-activating enzyme (AAE) consensus motif; other site 1104321002986 putative AMP binding site [chemical binding]; other site 1104321002987 putative active site [active] 1104321002988 putative CoA binding site [chemical binding]; other site 1104321002989 Isovaleryl-CoA dehydrogenase; Region: IVD; cd01156 1104321002990 isovaleryl-CoA dehydrogenase; Region: PLN02519 1104321002991 substrate binding site [chemical binding]; other site 1104321002992 FAD binding site [chemical binding]; other site 1104321002993 catalytic base [active] 1104321002994 3-methylcrotonyl-CoA carboxylase, beta chain; Region: PLN02820 1104321002995 Acetyl/propionyl-CoA carboxylase, alpha subunit [Lipid metabolism]; Region: COG4770 1104321002996 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 1104321002997 ATP-grasp domain; Region: ATP-grasp_4; cl17255 1104321002998 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 1104321002999 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 1104321003000 carboxyltransferase (CT) interaction site; other site 1104321003001 biotinylation site [posttranslational modification]; other site 1104321003002 3-hydroxy-3-methylglutaryl-CoA lyase, catalytic TIM barrel domain; Region: DRE_TIM_HMGL; cd07938 1104321003003 active site 1104321003004 catalytic residues [active] 1104321003005 metal binding site [ion binding]; metal-binding site 1104321003006 enoyl-CoA hydratase; Provisional; Region: PRK07468 1104321003007 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 1104321003008 substrate binding site [chemical binding]; other site 1104321003009 oxyanion hole (OAH) forming residues; other site 1104321003010 trimer interface [polypeptide binding]; other site 1104321003011 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 1104321003012 Type I periplasmic ligand-binding domain of ABC (Atpase Binding Cassette)-type active transport systems that are involved in the transport of all three branched chain aliphatic amino acids (leucine, isoleucine and valine); Region: PBP1_ABC_LIVBP_like; cd06342 1104321003013 dimerization interface [polypeptide binding]; other site 1104321003014 ligand binding site [chemical binding]; other site 1104321003015 ABC-type oligopeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: OppA; COG4166 1104321003016 The substrate-binding component of an uncharacterized ABC-type nickel/dipeptide/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like_14; cd08497 1104321003017 ABC-type oligopeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: OppA; COG4166 1104321003018 The substrate-binding component of an uncharacterized ABC-type nickel/dipeptide/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like_14; cd08497 1104321003019 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4174 1104321003020 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 1104321003021 dimer interface [polypeptide binding]; other site 1104321003022 conserved gate region; other site 1104321003023 putative PBP binding loops; other site 1104321003024 ABC-ATPase subunit interface; other site 1104321003025 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4239 1104321003026 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 1104321003027 dimer interface [polypeptide binding]; other site 1104321003028 conserved gate region; other site 1104321003029 putative PBP binding loops; other site 1104321003030 ABC-ATPase subunit interface; other site 1104321003031 ABC-type uncharacterized transport system, duplicated ATPase component [General function prediction only]; Region: COG4172 1104321003032 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1104321003033 Walker A/P-loop; other site 1104321003034 ATP binding site [chemical binding]; other site 1104321003035 Q-loop/lid; other site 1104321003036 ABC transporter signature motif; other site 1104321003037 Walker B; other site 1104321003038 D-loop; other site 1104321003039 H-loop/switch region; other site 1104321003040 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; pfam08352 1104321003041 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1104321003042 Walker A/P-loop; other site 1104321003043 ATP binding site [chemical binding]; other site 1104321003044 Q-loop/lid; other site 1104321003045 ABC transporter signature motif; other site 1104321003046 Walker B; other site 1104321003047 D-loop; other site 1104321003048 H-loop/switch region; other site 1104321003049 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 1104321003050 Phosphoglycerate dehydrogenase and related dehydrogenases [Amino acid transport and metabolism]; Region: SerA; COG0111 1104321003051 Putative glycerate dehydrogenase and related proteins of the D-specific 2-hydroxy dehydrogenase family; Region: GDH_like_2; cd12164 1104321003052 putative ligand binding site [chemical binding]; other site 1104321003053 NAD binding site [chemical binding]; other site 1104321003054 dimerization interface [polypeptide binding]; other site 1104321003055 catalytic site [active] 1104321003056 molybdopterin biosynthesis protein MoeB; Provisional; Region: PRK05690 1104321003057 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 1104321003058 ATP binding site [chemical binding]; other site 1104321003059 substrate interface [chemical binding]; other site 1104321003060 recombination protein F; Reviewed; Region: recF; PRK00064 1104321003061 ATP-binding cassette domain of RecF; Region: ABC_RecF; cd03242 1104321003062 Walker A/P-loop; other site 1104321003063 ATP binding site [chemical binding]; other site 1104321003064 Q-loop/lid; other site 1104321003065 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1104321003066 ABC transporter signature motif; other site 1104321003067 Walker B; other site 1104321003068 D-loop; other site 1104321003069 H-loop/switch region; other site 1104321003070 DNA polymerase III subunit beta; Validated; Region: PRK05643 1104321003071 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 1104321003072 putative DNA binding surface [nucleotide binding]; other site 1104321003073 dimer interface [polypeptide binding]; other site 1104321003074 beta-clamp/clamp loader binding surface; other site 1104321003075 beta-clamp/translesion DNA polymerase binding surface; other site 1104321003076 DnaA N-terminal domain; Region: DnaA_N; pfam11638 1104321003077 chromosomal replication initiator protein DnaA; Region: DnaA; TIGR00362 1104321003078 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 1104321003079 Walker A motif; other site 1104321003080 ATP binding site [chemical binding]; other site 1104321003081 Walker B motif; other site 1104321003082 arginine finger; other site 1104321003083 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 1104321003084 DnaA box-binding interface [nucleotide binding]; other site 1104321003085 30S ribosomal protein S20; Reviewed; Region: rpsT; PRK00239 1104321003086 enoyl-CoA hydratase; Provisional; Region: PRK05862 1104321003087 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 1104321003088 substrate binding site [chemical binding]; other site 1104321003089 oxyanion hole (OAH) forming residues; other site 1104321003090 trimer interface [polypeptide binding]; other site 1104321003091 formamidopyrimidine/5-formyluracil/ 5-hydroxymethyluracil DNA glycosylase; Validated; Region: PRK01103 1104321003092 N-terminal domain of Escherichia coli Fpg1/MutM and related bacterial DNA glycosylases; Region: EcFpg-like_N; cd08966 1104321003093 DNA binding site [nucleotide binding] 1104321003094 catalytic residue [active] 1104321003095 H2TH interface [polypeptide binding]; other site 1104321003096 putative catalytic residues [active] 1104321003097 turnover-facilitating residue; other site 1104321003098 intercalation triad [nucleotide binding]; other site 1104321003099 8OG recognition residue [nucleotide binding]; other site 1104321003100 putative reading head residues; other site 1104321003101 Formamidopyrimidine-DNA glycosylase H2TH domain; Region: H2TH; pfam06831 1104321003102 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 1104321003103 Flp/Fap pilin component; Region: Flp_Fap; cl01585 1104321003104 multifunctional aminopeptidase A; Provisional; Region: PRK00913 1104321003105 Cytosol aminopeptidase family, N-terminal and catalytic domains. Family M17 contains zinc- and manganese-dependent exopeptidases ( EC 3.4.11.1), including leucine aminopeptidase. They catalyze removal of amino acids from the N-terminus of a protein and...; Region: Peptidase_M17; cd00433 1104321003106 interface (dimer of trimers) [polypeptide binding]; other site 1104321003107 Substrate-binding/catalytic site; other site 1104321003108 Zn-binding sites [ion binding]; other site 1104321003109 Transcriptional regulators [Transcription]; Region: MarR; COG1846 1104321003110 MarR family; Region: MarR; pfam01047 1104321003111 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 1104321003112 NlpC/P60 family; Region: NLPC_P60; cl17555 1104321003113 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 1104321003114 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 1104321003115 D-glycerate dehydrogenase/hydroxypyruvate reductase (GDH); Region: GDH; cd05301 1104321003116 dimerization interface [polypeptide binding]; other site 1104321003117 ligand binding site [chemical binding]; other site 1104321003118 NADP binding site [chemical binding]; other site 1104321003119 catalytic site [active] 1104321003120 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3807 1104321003121 Bacterial SH3 domain; Region: SH3_4; pfam06347 1104321003122 Bacterial SH3 domain; Region: SH3_4; pfam06347 1104321003123 ABC-type metal ion transport system, periplasmic component/surface antigen [Inorganic ion transport and metabolism]; Region: NlpA; COG1464 1104321003124 NLPA lipoprotein; Region: Lipoprotein_9; pfam03180 1104321003125 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 1104321003126 metal binding site 2 [ion binding]; metal-binding site 1104321003127 putative DNA binding helix; other site 1104321003128 metal binding site 1 [ion binding]; metal-binding site 1104321003129 dimer interface [polypeptide binding]; other site 1104321003130 structural Zn2+ binding site [ion binding]; other site 1104321003131 FabA, beta-hydroxydecanoyl-acyl carrier protein (ACP)-dehydratase: Bacterial protein of the type II, fatty acid synthase system that binds ACP and catalyzes both dehydration and isomerization reactions, apparently in the same active site. The FabA...; Region: FabA; cd01287 1104321003132 active site 1 [active] 1104321003133 dimer interface [polypeptide binding]; other site 1104321003134 active site 2 [active] 1104321003135 3-oxoacyl-(acyl carrier protein) synthase I; Reviewed; Region: PRK07967 1104321003136 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 1104321003137 dimer interface [polypeptide binding]; other site 1104321003138 active site 1104321003139 enoyl-(acyl carrier protein) reductase; Provisional; Region: PRK06505 1104321003140 Enoyl acyl carrier protein (ACP) reductase (ENR), divergent SDR; Region: ENR_SDR; cd05372 1104321003141 NAD binding site [chemical binding]; other site 1104321003142 homotetramer interface [polypeptide binding]; other site 1104321003143 homodimer interface [polypeptide binding]; other site 1104321003144 substrate binding site [chemical binding]; other site 1104321003145 active site 1104321003146 16S RNA G1207 methylase RsmC [Translation, ribosomal structure and biogenesis]; Region: RsmC; COG2813 1104321003147 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 1104321003148 S-adenosylmethionine binding site [chemical binding]; other site 1104321003149 polynucleotide phosphorylase/polyadenylase; Provisional; Region: PRK11824 1104321003150 Polyribonucleotide nucleotidyltransferase, repeat 1; Region: RNase_PH_PNPase_1; cd11363 1104321003151 RNase E interface [polypeptide binding]; other site 1104321003152 trimer interface [polypeptide binding]; other site 1104321003153 Polyribonucleotide nucleotidyltransferase, RNA binding domain; Region: PNPase; pfam03726 1104321003154 Polyribonucleotide nucleotidyltransferase, repeat 2; Region: RNase_PH_PNPase_2; cd11364 1104321003155 RNase E interface [polypeptide binding]; other site 1104321003156 trimer interface [polypeptide binding]; other site 1104321003157 active site 1104321003158 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 1104321003159 putative nucleic acid binding region [nucleotide binding]; other site 1104321003160 G-X-X-G motif; other site 1104321003161 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 1104321003162 RNA binding site [nucleotide binding]; other site 1104321003163 domain interface; other site 1104321003164 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 1104321003165 16S/18S rRNA binding site [nucleotide binding]; other site 1104321003166 S13e-L30e interaction site [polypeptide binding]; other site 1104321003167 25S rRNA binding site [nucleotide binding]; other site 1104321003168 tRNA pseudouridine synthase B; Provisional; Region: truB; PRK05389 1104321003169 Pseudouridine synthase, Escherichia coli TruB like; Region: PseudoU_synth_EcTruB; cd02573 1104321003170 RNA binding site [nucleotide binding]; other site 1104321003171 active site 1104321003172 Pseudouridine synthase II TruB, C-terminal; Region: TruB-C_2; pfam09157 1104321003173 ribosome-binding factor A; Validated; Region: rbfA; PRK00521 1104321003174 Bacterial translation initiation factor IF-2 associated region; Region: IF2_assoc; pfam08364 1104321003175 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 1104321003176 Translation initiation factor 2 (IF-2; GTPase) [Translation, ribosomal structure and biogenesis]; Region: InfB; COG0532 1104321003177 Initiation Factor 2 (IF2)/ eukaryotic Initiation Factor 5B (eIF5B) family; Region: IF2_eIF5B; cd01887 1104321003178 G1 box; other site 1104321003179 putative GEF interaction site [polypeptide binding]; other site 1104321003180 GTP/Mg2+ binding site [chemical binding]; other site 1104321003181 Switch I region; other site 1104321003182 G2 box; other site 1104321003183 G3 box; other site 1104321003184 Switch II region; other site 1104321003185 G4 box; other site 1104321003186 G5 box; other site 1104321003187 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 1104321003188 Translation-initiation factor 2; Region: IF-2; pfam11987 1104321003189 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 1104321003190 hypothetical protein; Provisional; Region: PRK09190 1104321003191 Ylxr homologs; group of conserved hypothetical bacterial proteins of unknown function; structure revealed putative RNA binding cleft; proteins are encoded by an operon that includes other proteins involved in transcription and/or translation; Region: YlxR; cd00279 1104321003192 putative RNA binding cleft [nucleotide binding]; other site 1104321003193 Ribosomal protein L7Ae/L30e/S12e/Gadd45 family; Region: Ribosomal_L7Ae; cl00600 1104321003194 transcription elongation factor NusA; Validated; Region: nusA; PRK09202 1104321003195 NusA N-terminal domain; Region: NusA_N; pfam08529 1104321003196 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 1104321003197 RNA binding site [nucleotide binding]; other site 1104321003198 homodimer interface [polypeptide binding]; other site 1104321003199 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 1104321003200 G-X-X-G motif; other site 1104321003201 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 1104321003202 G-X-X-G motif; other site 1104321003203 transcription termination factor NusA, C-terminal duplication; Region: nusA_Cterm_rpt; TIGR01954 1104321003204 ribosome maturation protein RimP; Reviewed; Region: PRK00092 1104321003205 Sm and related proteins; Region: Sm_like; cl00259 1104321003206 Bacillus subtilis YxlS-like, C-terminal domain; Region: YlxS_C; cd01734 1104321003207 putative oligomer interface [polypeptide binding]; other site 1104321003208 putative RNA binding site [nucleotide binding]; other site 1104321003209 Predicted S-adenosylmethionine-dependent methyltransferase [General function prediction only]; Region: COG0220 1104321003210 S-adenosylmethionine synthetase; Validated; Region: PRK05250 1104321003211 S-adenosylmethionine synthetase, N-terminal domain; Region: S-AdoMet_synt_N; pfam00438 1104321003212 S-adenosylmethionine synthetase, central domain; Region: S-AdoMet_synt_M; pfam02772 1104321003213 S-adenosylmethionine synthetase, C-terminal domain; Region: S-AdoMet_synt_C; pfam02773 1104321003214 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 1104321003215 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 1104321003216 non-specific DNA binding site [nucleotide binding]; other site 1104321003217 salt bridge; other site 1104321003218 sequence-specific DNA binding site [nucleotide binding]; other site 1104321003219 apolipoprotein N-acyltransferase; Reviewed; Region: lnt; PRK00302 1104321003220 Apolipoprotein N-acyl transferase (class 9 nitrilases); Region: ALP_N-acyl_transferase; cd07571 1104321003221 putative active site [active] 1104321003222 catalytic triad [active] 1104321003223 putative dimer interface [polypeptide binding]; other site 1104321003224 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 1104321003225 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 1104321003226 Transporter associated domain; Region: CorC_HlyC; smart01091 1104321003227 Predicted metal-dependent hydrolase [General function prediction only]; Region: COG0319 1104321003228 Phosphate starvation-inducible protein PhoH, predicted ATPase [Signal transduction mechanisms]; Region: PhoH; COG1702 1104321003229 PhoH-like protein; Region: PhoH; pfam02562 1104321003230 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional; Region: PRK14325 1104321003231 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 1104321003232 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 1104321003233 FeS/SAM binding site; other site 1104321003234 TRAM domain; Region: TRAM; cl01282 1104321003235 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 1104321003236 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 1104321003237 putative acyl-acceptor binding pocket; other site 1104321003238 ribosomal-protein-alanine acetyltransferase; Region: rimI; TIGR01575 1104321003239 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1104321003240 Coenzyme A binding pocket [chemical binding]; other site 1104321003241 Inactive homolog of metal-dependent proteases, putative molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: COG1214 1104321003242 Glycoprotease family; Region: Peptidase_M22; pfam00814 1104321003243 DNA-binding ferritin-like protein (oxidative damage protectant) [Inorganic ion transport and metabolism]; Region: Dps; COG0783 1104321003244 DPS protein, ferritin-like diiron-binding domain; Region: DPS; cd01043 1104321003245 dimerization interface [polypeptide binding]; other site 1104321003246 DPS ferroxidase diiron center [ion binding]; other site 1104321003247 ion pore; other site 1104321003248 Leucyl aminopeptidase (aminopeptidase T) [Amino acid transport and metabolism]; Region: AmpS; COG2309 1104321003249 Thermophilic metalloprotease (M29); Region: Peptidase_M29; pfam02073 1104321003250 Cell wall hydrolyses involved in spore germination [Cell envelope biogenesis, outer membrane]; Region: SleB; COG3773 1104321003251 Cell Wall Hydrolase; Region: Hydrolase_2; pfam07486 1104321003252 phosphate regulon transcriptional regulatory protein PhoB; Region: PhoB; TIGR02154 1104321003253 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1104321003254 active site 1104321003255 phosphorylation site [posttranslational modification] 1104321003256 intermolecular recognition site; other site 1104321003257 dimerization interface [polypeptide binding]; other site 1104321003258 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 1104321003259 DNA binding site [nucleotide binding] 1104321003260 phosphate transport system regulatory protein PhoU; Region: phoU_full; TIGR02135 1104321003261 PhoU domain; Region: PhoU; pfam01895 1104321003262 PhoU domain; Region: PhoU; pfam01895 1104321003263 phosphate transporter ATP-binding protein; Provisional; Region: PRK14235 1104321003264 ATP-binding cassette domain of the phosphate transport system; Region: ABC_PstB_phosphate_transporter; cd03260 1104321003265 Walker A/P-loop; other site 1104321003266 ATP binding site [chemical binding]; other site 1104321003267 Q-loop/lid; other site 1104321003268 ABC transporter signature motif; other site 1104321003269 Walker B; other site 1104321003270 D-loop; other site 1104321003271 H-loop/switch region; other site 1104321003272 Domain of unknown function (DUF3333); Region: DUF3333; pfam11812 1104321003273 ABC-type phosphate transport system, permease component [Inorganic ion transport and metabolism]; Region: PstA; COG0581 1104321003274 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 1104321003275 dimer interface [polypeptide binding]; other site 1104321003276 conserved gate region; other site 1104321003277 putative PBP binding loops; other site 1104321003278 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cl00427 1104321003279 ABC-ATPase subunit interface; other site 1104321003280 Phosphate ATP-binding cassette transporter; Region: DUF3708; pfam12501 1104321003281 ABC-type phosphate transport system, permease component [Inorganic ion transport and metabolism]; Region: PstC; COG0573 1104321003282 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 1104321003283 dimer interface [polypeptide binding]; other site 1104321003284 conserved gate region; other site 1104321003285 putative PBP binding loops; other site 1104321003286 ABC-ATPase subunit interface; other site 1104321003287 PBP superfamily domain; Region: PBP_like_2; pfam12849 1104321003288 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2832 1104321003289 Lipoproteins [Cell envelope biogenesis, outer membrane]; Region: RlpA; COG0797 1104321003290 Rare lipoprotein A (RlpA)-like double-psi beta-barrel; Region: DPBB_1; pfam03330 1104321003291 Predicted transglutaminase-like cysteine proteinase [General function prediction only]; Region: COG3672 1104321003292 Bacterial transglutaminase-like cysteine proteinase BTLCP; Region: BTLCP; cl17596 1104321003293 Predicted ATPase with chaperone activity [Posttranslational modification, protein turnover, chaperones]; Region: COG0606 1104321003294 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 1104321003295 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 1104321003296 Walker A motif; other site 1104321003297 ATP binding site [chemical binding]; other site 1104321003298 Walker B motif; other site 1104321003299 arginine finger; other site 1104321003300 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase_2; pfam13335 1104321003301 glutathione synthetase; Provisional; Region: PRK05246 1104321003302 Prokaryotic glutathione synthetase, N-terminal domain; Region: GSH-S_N; pfam02951 1104321003303 Prokaryotic glutathione synthetase, ATP-grasp domain; Region: GSH-S_ATP; pfam02955 1104321003304 Gluconolactonase [Carbohydrate transport and metabolism]; Region: COG3386 1104321003305 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 1104321003306 active site 1104321003307 dimer interface [polypeptide binding]; other site 1104321003308 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 1104321003309 S-adenosylmethionine binding site [chemical binding]; other site 1104321003310 chaperone protein DnaJ; Provisional; Region: PRK10767 1104321003311 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 1104321003312 HSP70 interaction site [polypeptide binding]; other site 1104321003313 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cl03262 1104321003314 substrate binding site [polypeptide binding]; other site 1104321003315 Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cd10719 1104321003316 Zn binding sites [ion binding]; other site 1104321003317 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 1104321003318 dimer interface [polypeptide binding]; other site 1104321003319 molecular chaperone DnaK; Provisional; Region: dnaK; PRK00290 1104321003320 Nucleotide-binding domain of human HSPA9, Escherichia coli DnaK, and similar proteins; Region: HSPA9-like_NBD; cd11733 1104321003321 nucleotide binding site [chemical binding]; other site 1104321003322 NEF interaction site [polypeptide binding]; other site 1104321003323 SBD interface [polypeptide binding]; other site 1104321003324 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 1104321003325 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 1104321003326 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 1104321003327 phenylalanyl-tRNA synthetase subunit beta; Reviewed; Region: pheT; PRK00629 1104321003328 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 1104321003329 putative tRNA-binding site [nucleotide binding]; other site 1104321003330 B3/4 domain; Region: B3_4; pfam03483 1104321003331 tRNA synthetase B5 domain; Region: B5; smart00874 1104321003332 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 1104321003333 dimer interface [polypeptide binding]; other site 1104321003334 motif 1; other site 1104321003335 motif 3; other site 1104321003336 motif 2; other site 1104321003337 Ferredoxin-fold anticodon binding domain; Region: FDX-ACB; smart00896 1104321003338 phenylalanyl-tRNA synthetase subunit alpha; Validated; Region: pheS; PRK00488 1104321003339 Aminoacyl tRNA synthetase class II, N-terminal domain; Region: Phe_tRNA-synt_N; pfam02912 1104321003340 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 1104321003341 dimer interface [polypeptide binding]; other site 1104321003342 motif 1; other site 1104321003343 active site 1104321003344 motif 2; other site 1104321003345 motif 3; other site 1104321003346 Ribosomal protein L20; Region: Ribosomal_L20; cd07026 1104321003347 23S rRNA binding site [nucleotide binding]; other site 1104321003348 L21 binding site [polypeptide binding]; other site 1104321003349 L13 binding site [polypeptide binding]; other site 1104321003350 50S ribosomal protein L35; Reviewed; Region: rpmI; PRK00172 1104321003351 Putative protein-S-isoprenylcysteine methyltransferase [Posttranslational modification, protein turnover, chaperones]; Region: STE14; COG2020 1104321003352 translation initiation factor IF-3; Reviewed; Region: infC; PRK00028 1104321003353 Translation initiation factor IF-3, N-terminal domain; Region: IF3_N; pfam05198 1104321003354 Translation initiation factor IF-3, C-terminal domain; Region: IF3_C; pfam00707 1104321003355 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 1104321003356 Novel bacterial esterase that cleaves esters on halogenated cyclic compounds; Region: Esterase_713_like; cl17303 1104321003357 Uncharacterized protein involved in benzoate metabolism [Secondary metabolites biosynthesis, transport, and catabolism]; Region: BenE; COG3135 1104321003358 benzoate transporter; Region: benE; TIGR00843 1104321003359 Protein of unknown function (DUF2852); Region: DUF2852; pfam11014 1104321003360 Predicted metal-dependent hydrolase [General function prediction only]; Region: COG1451 1104321003361 Uncharacterized conserved protein [Function unknown]; Region: COG1434 1104321003362 YdcF-like. YdcF-like is a large family of mainly bacterial proteins, with a few members found in fungi, plants, and archaea. Escherichia coli YdcF has been shown to bind S-adenosyl-L-methionine (AdoMet), but a biochemical function has not been...; Region: YdcF-like; cd06259 1104321003363 putative active site [active] 1104321003364 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 1104321003365 active site 1104321003366 tryptophan synthase, beta subunit; Region: trpB; TIGR00263 1104321003367 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 1104321003368 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1104321003369 catalytic residue [active] 1104321003370 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 1104321003371 substrate binding site [chemical binding]; other site 1104321003372 active site 1104321003373 catalytic residues [active] 1104321003374 heterodimer interface [polypeptide binding]; other site 1104321003375 acetyl-CoA carboxylase subunit beta; Validated; Region: PRK05654 1104321003376 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189; cl17682 1104321003377 Folylpolyglutamate synthase [Coenzyme metabolism]; Region: FolC; COG0285 1104321003378 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 1104321003379 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 1104321003380 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 1104321003381 catalytic residues [active] 1104321003382 double-strand break repair helicase AddA, alphaproteobacterial type; Region: addA_alphas; TIGR02784 1104321003383 Part of AAA domain; Region: AAA_19; pfam13245 1104321003384 Family description; Region: UvrD_C_2; pfam13538 1104321003385 PD-(D/E)XK nuclease superfamily; Region: PDDEXK_1; pfam12705 1104321003386 double-strand break repair protein AddB, alphaproteobacterial type; Region: addB_alphas; TIGR02786 1104321003387 RecB family exonuclease [DNA replication, recombination, and repair]; Region: COG2887 1104321003388 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 1104321003389 NTP_transferase_like_1 is a member of the nucleotidyl transferase family; Region: NTP_transferase_like_1; cd06422 1104321003390 Substrate binding site; other site 1104321003391 metal-binding site 1104321003392 Predicted ATPase or kinase [General function prediction only]; Region: COG0802 1104321003393 Predicted phosphotransferase related to Ser/Thr protein kinases [General function prediction only]; Region: COG3178 1104321003394 Phosphotransferase enzyme family; Region: APH; pfam01636 1104321003395 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 1104321003396 PAS fold; Region: PAS_7; pfam12860 1104321003397 PAS fold; Region: PAS_7; pfam12860 1104321003398 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1104321003399 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 1104321003400 dimer interface [polypeptide binding]; other site 1104321003401 phosphorylation site [posttranslational modification] 1104321003402 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 1104321003403 ATP binding site [chemical binding]; other site 1104321003404 Mg2+ binding site [ion binding]; other site 1104321003405 G-X-G motif; other site 1104321003406 S-adenosyl-L-homocysteine hydrolase; Provisional; Region: PRK05476 1104321003407 S-Adenosylhomocysteine Hydrolase, NAD-binding and catalytic domains; Region: SAHH; cd00401 1104321003408 homotetramer interface [polypeptide binding]; other site 1104321003409 ligand binding site [chemical binding]; other site 1104321003410 catalytic site [active] 1104321003411 NAD binding site [chemical binding]; other site 1104321003412 Histidine-containing phosphocarrier protein (HPr)-like proteins. HPr is a central component of the bacterial phosphoenolpyruvate sugar phosphotransferase system (PTS). The PTS catalyses the phosphorylation of sugar substrates during their translocation...; Region: PTS-HPr_like; cd00367 1104321003413 dimerization domain swap beta strand [polypeptide binding]; other site 1104321003414 regulatory protein interface [polypeptide binding]; other site 1104321003415 active site 1104321003416 regulatory phosphorylation site [posttranslational modification]; other site 1104321003417 PTS_IIA, PTS system, mannose/sorbose specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIA_man; cd00006 1104321003418 active pocket/dimerization site; other site 1104321003419 active site 1104321003420 phosphorylation site [posttranslational modification] 1104321003421 Serine kinase of the HPr protein, regulates carbohydrate metabolism [Signal transduction mechanisms]; Region: HprK; COG1493 1104321003422 HprK/P, the bifunctional histidine-containing protein kinase/phosphatase, controls the phosphorylation state of the phosphocarrier protein HPr and regulates the utilization of carbon sources by gram-positive bacteria. It catalyzes both the ATP-dependent...; Region: HprK_C; cd01918 1104321003423 Hpr binding site; other site 1104321003424 active site 1104321003425 homohexamer subunit interaction site [polypeptide binding]; other site 1104321003426 Sensor N-terminal transmembrane domain; Region: Sensor_TM1; pfam13755 1104321003427 Stimulus-sensing domain; Region: Stimulus_sens_1; pfam13756 1104321003428 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1104321003429 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 1104321003430 dimerization interface [polypeptide binding]; other site 1104321003431 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 1104321003432 dimer interface [polypeptide binding]; other site 1104321003433 phosphorylation site [posttranslational modification] 1104321003434 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 1104321003435 ATP binding site [chemical binding]; other site 1104321003436 Mg2+ binding site [ion binding]; other site 1104321003437 G-X-G motif; other site 1104321003438 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1104321003439 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1104321003440 active site 1104321003441 phosphorylation site [posttranslational modification] 1104321003442 intermolecular recognition site; other site 1104321003443 dimerization interface [polypeptide binding]; other site 1104321003444 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 1104321003445 DNA binding site [nucleotide binding] 1104321003446 Phosphoenolpyruvate carboxykinase; Region: PEPCK_ATP; pfam01293 1104321003447 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 1104321003448 active site 1104321003449 substrate-binding site [chemical binding]; other site 1104321003450 metal-binding site [ion binding] 1104321003451 ATP binding site [chemical binding]; other site 1104321003452 hypothetical protein; Provisional; Region: PRK09256 1104321003453 Protein chain release factor B [Translation, ribosomal structure and biogenesis]; Region: PrfB; COG1186 1104321003454 pantothenate kinase; Provisional; Region: PRK05439 1104321003455 Pantothenate kinase (PanK) catalyzes the phosphorylation of pantothenic acid to form 4'-phosphopantothenic, which is the first of five steps in coenzyme A (CoA) biosynthetic pathway. The reaction carried out by this enzyme is a key regulatory point...; Region: PanK; cd02025 1104321003456 ATP-binding site [chemical binding]; other site 1104321003457 CoA-binding site [chemical binding]; other site 1104321003458 Mg2+-binding site [ion binding]; other site 1104321003459 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 1104321003460 metal binding site [ion binding]; metal-binding site 1104321003461 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 1104321003462 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 1104321003463 substrate binding site [chemical binding]; other site 1104321003464 glutamase interaction surface [polypeptide binding]; other site 1104321003465 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 1104321003466 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 1104321003467 catalytic residues [active] 1104321003468 imidazole glycerol phosphate synthase subunit HisH; Provisional; Region: hisH; PRK13146 1104321003469 Type 1 glutamine amidotransferase (GATase1) domain found in imidazole glycerol phosphate synthase (IGPS); Region: GATase1_IGP_Synthase; cd01748 1104321003470 putative active site [active] 1104321003471 oxyanion strand; other site 1104321003472 catalytic triad [active] 1104321003473 Protein of unknown function (DUF2628); Region: DUF2628; pfam10947 1104321003474 Imidazoleglycerol-phosphate dehydratase; Region: IGPD; cd07914 1104321003475 putative active site pocket [active] 1104321003476 4-fold oligomerization interface [polypeptide binding]; other site 1104321003477 metal binding residues [ion binding]; metal-binding site 1104321003478 3-fold/trimer interface [polypeptide binding]; other site 1104321003479 Protease HslV and the ATPase/chaperone HslU are part of an ATP-dependent proteolytic system that is the prokaryotic homolog of the proteasome. HslV is a dimer of hexamers (a dodecamer) that forms a central proteolytic chamber with active sites on the...; Region: protease_HslV; cd01913 1104321003480 active site 1104321003481 HslU subunit interaction site [polypeptide binding]; other site 1104321003482 ATP-dependent protease ATP-binding subunit HslU; Provisional; Region: hslU; PRK05201 1104321003483 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 1104321003484 Walker A motif; other site 1104321003485 ATP binding site [chemical binding]; other site 1104321003486 AAA domain (Cdc48 subfamily); Region: AAA_2; pfam07724 1104321003487 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 1104321003488 Protein of unknown function (DUF1402); Region: DUF1402; pfam07182 1104321003489 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 1104321003490 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 1104321003491 sequence-specific DNA binding site [nucleotide binding]; other site 1104321003492 salt bridge; other site 1104321003493 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2840 1104321003494 Smr domain; Region: Smr; pfam01713 1104321003495 Membrane-bound lytic murein transglycosylase [Cell envelope biogenesis, outer membrane]; Region: MltA; COG2821 1104321003496 MltA specific insert domain; Region: MltA; pfam03562 1104321003497 3D domain; Region: 3D; pfam06725 1104321003498 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4395 1104321003499 Protein affecting phage T7 exclusion by the F plasmid [General function prediction only]; Region: FxsA; COG3030 1104321003500 preprotein translocase subunit SecB; Validated; Region: PRK05751 1104321003501 SecA binding site; other site 1104321003502 Preprotein binding site; other site 1104321003503 DNA polymerase III, epsilon subunit, Proteobacterial; Region: dnaQ_proteo; TIGR01406 1104321003504 DEDDh 3'-5' exonuclease domain of the epsilon subunit of Escherichia coli DNA polymerase III and similar proteins; Region: DNA_pol_III_epsilon_Ecoli_like; cd06131 1104321003505 active site 1104321003506 catalytic site [active] 1104321003507 substrate binding site [chemical binding]; other site 1104321003508 Dephospho-CoA kinase [Coenzyme metabolism]; Region: CoaE; COG0237 1104321003509 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 1104321003510 CoA-binding site [chemical binding]; other site 1104321003511 ATP-binding [chemical binding]; other site 1104321003512 shikimate 5-dehydrogenase; Reviewed; Region: aroE; PRK00258 1104321003513 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 1104321003514 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 1104321003515 shikimate binding site; other site 1104321003516 NAD(P) binding site [chemical binding]; other site 1104321003517 Maf-like protein; Reviewed; Region: PRK00078 1104321003518 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 1104321003519 active site 1104321003520 dimer interface [polypeptide binding]; other site 1104321003521 PEP synthetase regulatory protein; Provisional; Region: PRK05339 1104321003522 Uroporphyrinogen decarboxylase (URO-D) is a dimeric cytosolic enzyme that decarboxylates the four acetate side chains of uroporphyrinogen III (uro-III) to create coproporphyrinogen III, without requiring any prosthetic groups or cofactors. This reaction...; Region: URO-D; cd00717 1104321003523 substrate binding site [chemical binding]; other site 1104321003524 active site 1104321003525 Predicted membrane protein [Function unknown]; Region: COG1981 1104321003526 transcription termination factor Rho; Provisional; Region: rho; PRK09376 1104321003527 Rho termination factor, N-terminal domain; Region: Rho_N; smart00959 1104321003528 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 1104321003529 RNA binding site [nucleotide binding]; other site 1104321003530 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 1104321003531 multimer interface [polypeptide binding]; other site 1104321003532 Walker A motif; other site 1104321003533 ATP binding site [chemical binding]; other site 1104321003534 Walker B motif; other site 1104321003535 Highly conserved protein containing a thioredoxin domain [Posttranslational modification, protein turnover, chaperones]; Region: COG1331 1104321003536 TRX domain, SSP411 protein family; members of this family are highly conserved proteins present in eukaryotes, bacteria and archaea, about 600-800 amino acids in length, which contain a TRX domain with a redox active CXXC motif. The human/rat protein; Region: SSP411; cd02955 1104321003537 catalytic residues [active] 1104321003538 This group contains class II terpene cyclases, protein prenyltransferases beta subunit, two broadly specific proteinase inhibitors alpha2-macroglobulin (alpha (2)-M) and pregnancy zone protein (PZP) and, the C3 C4 and C5 components of vertebrate...; Region: ISOPREN_C2_like; cl08267 1104321003539 Predicted GTPase [General function prediction only]; Region: ThdF; COG0486 1104321003540 GTP-binding protein TrmE N-terminus; Region: TrmE_N; pfam10396 1104321003541 Circularly permuted YlqF-related GTPases; Region: YlqF_related_GTPase; cl17249 1104321003542 trmE is a tRNA modification GTPase; Region: trmE; cd04164 1104321003543 G1 box; other site 1104321003544 G1 box; other site 1104321003545 GTP/Mg2+ binding site [chemical binding]; other site 1104321003546 GTP/Mg2+ binding site [chemical binding]; other site 1104321003547 Switch I region; other site 1104321003548 Switch I region; other site 1104321003549 G2 box; other site 1104321003550 G2 box; other site 1104321003551 Switch II region; other site 1104321003552 G3 box; other site 1104321003553 G4 box; other site 1104321003554 G5 box; other site 1104321003555 Catalytic cysteine-containing C-terminus of GTPase, MnmE; Region: GTPase_Cys_C; pfam12631 1104321003556 tRNA uridine 5-carboxymethylaminomethyl modification enzyme GidA; Validated; Region: PRK05192 1104321003557 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 1104321003558 NAD(FAD)-utilizing enzyme possibly involved in translation [Translation, ribosomal structure and biogenesis]; Region: Gid; COG1206 1104321003559 GidA associated domain 3; Region: GIDA_assoc_3; pfam13932 1104321003560 Predicted S-adenosylmethionine-dependent methyltransferase involved in bacterial cell division [Cell envelope biogenesis, outer membrane]; Region: GidB; COG0357 1104321003561 16S rRNA methyltransferase GidB; Reviewed; Region: gidB; PRK00107 1104321003562 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 1104321003563 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 1104321003564 P-loop; other site 1104321003565 Magnesium ion binding site [ion binding]; other site 1104321003566 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 1104321003567 Magnesium ion binding site [ion binding]; other site 1104321003568 Stage 0 sporulation protein J (antagonist of Soj) containing ParB-like nuclease domain [Transcription]; Region: Spo0J; COG1475 1104321003569 ParB-like nuclease domain; Region: ParB; smart00470 1104321003570 DNA polymerase III subunit delta; Reviewed; Region: holA; PRK06585 1104321003571 DNA polymerase III, delta subunit; Region: DNA_pol3_delta; pfam06144 1104321003572 ABC-type uncharacterized transport system, ATPase component [General function prediction only]; Region: PhnK; COG1101 1104321003573 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 1104321003574 Walker A/P-loop; other site 1104321003575 ATP binding site [chemical binding]; other site 1104321003576 Q-loop/lid; other site 1104321003577 ABC transporter signature motif; other site 1104321003578 Walker B; other site 1104321003579 D-loop; other site 1104321003580 H-loop/switch region; other site 1104321003581 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1104321003582 Transmembrane subunit (TM) of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which are involved in the uptake of branched-chain amino acids (AAs), as well as TMs of transporters involved in the uptake of...; Region: TM_PBP1_branched-chain-AA_like; cd06574 1104321003583 TM-ABC transporter signature motif; other site 1104321003584 Type I periplasmic ligand-binding domain of uncharacterized ABC-type transport systems that are predicted to be involved in the uptake of amino acids, peptides, or inorganic ions; Region: PBP1_ABC_uncharacterized_transporter; cd06325 1104321003585 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 1104321003586 zinc binding site [ion binding]; other site 1104321003587 putative ligand binding site [chemical binding]; other site 1104321003588 probable oxidoreductase, LLM family; Region: LLM_2I7G; TIGR03858 1104321003589 Coenzyme F420-dependent N5,N10-methylene tetrahydromethanopterin reductase and related flavin-dependent oxidoreductases [Energy production and conversion]; Region: COG2141 1104321003590 Protein of unknown function (DUF993); Region: DUF993; pfam06187 1104321003591 Transcriptional regulators [Transcription]; Region: PurR; COG1609 1104321003592 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 1104321003593 DNA binding site [nucleotide binding] 1104321003594 domain linker motif; other site 1104321003595 Ligand-binding domain of MalI, a transcription regulator of the maltose system of Escherichia coli and its close homologs from other bacteria; Region: PBP1_MalI_like; cd06289 1104321003596 putative dimerization interface [polypeptide binding]; other site 1104321003597 putative ligand binding site [chemical binding]; other site 1104321003598 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 1104321003599 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 1104321003600 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 1104321003601 potential frameshift: common BLAST hit: gi|23502895|ref|NP_699022.1| acetyl-CoA-transferase subunit 1104321003602 Coenzyme A transferase; Region: CoA_trans; smart00882 1104321003603 Coenzyme A transferase; Region: CoA_trans; cl17247 1104321003604 Acyl CoA:acetate/3-ketoacid CoA transferase [Lipid metabolism]; Region: COG4670 1104321003605 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 1104321003606 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 1104321003607 substrate binding site [chemical binding]; other site 1104321003608 oxyanion hole (OAH) forming residues; other site 1104321003609 trimer interface [polypeptide binding]; other site 1104321003610 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 1104321003611 Gluconobacter oxydans L-sorbosone dehydrogenase-like; Region: ALDH_SNDH; cd07118 1104321003612 NAD(P) binding site [chemical binding]; other site 1104321003613 catalytic residues [active] 1104321003614 Choline dehydrogenase and related flavoproteins [Amino acid transport and metabolism]; Region: BetA; COG2303 1104321003615 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 1104321003616 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: PRK12745 1104321003617 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1104321003618 NAD(P) binding site [chemical binding]; other site 1104321003619 active site 1104321003620 choline dehydrogenase; Validated; Region: PRK02106 1104321003621 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 1104321003622 Domain of unknown function (DUF4354); Region: DUF4354; pfam14263 1104321003623 Uncharacterized conserved protein [Function unknown]; Region: COG3791 1104321003624 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 1104321003625 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1104321003626 NAD(P) binding site [chemical binding]; other site 1104321003627 active site 1104321003628 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 1104321003629 M20 Peptidase Aminoacylase 1 subfamily; Region: M20_Acy1_like1; cd05666 1104321003630 metal binding site [ion binding]; metal-binding site 1104321003631 putative dimer interface [polypeptide binding]; other site 1104321003632 D-alanyl-D-alanine carboxypeptidase; Region: Peptidase_S11; pfam00768 1104321003633 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 1104321003634 Putative GTPases (G3E family) [General function prediction only]; Region: COG0523 1104321003635 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 1104321003636 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; pfam07683 1104321003637 SirA, YedF, and YeeD. Two-layered alpha/beta sandwich domain. SirA (also known as UvrY, and YhhP) belongs to a family of bacterial two-component response regulators that controls secondary metabolism and virulence. The other member of this...; Region: SirA_YedF_YeeD; cd00291 1104321003638 CPxP motif; other site 1104321003639 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3034 1104321003640 acetyl-CoA carboxylase carboxyltransferase subunit alpha; Validated; Region: PRK05724 1104321003641 acetyl-CoA carboxylase carboxyltransferase alpha subunit; Provisional; Region: accA; CHL00198 1104321003642 site-specific tyrosine recombinase XerD; Reviewed; Region: xerD; PRK00283 1104321003643 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 1104321003644 active site 1104321003645 DNA binding site [nucleotide binding] 1104321003646 Int/Topo IB signature motif; other site 1104321003647 Shikimate kinase [Amino acid transport and metabolism]; Region: AroK; COG0703 1104321003648 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 1104321003649 ADP binding site [chemical binding]; other site 1104321003650 magnesium binding site [ion binding]; other site 1104321003651 putative shikimate binding site; other site 1104321003652 Dehydroquinate synthase (DHQS) catalyzes the conversion of DAHP to DHQ in shikimate pathway for aromatic compounds synthesis; Region: DHQS; cd08195 1104321003653 Iron-containing alcohol dehydrogenase; Region: Fe-ADH; pfam00465 1104321003654 active site 1104321003655 dimer interface [polypeptide binding]; other site 1104321003656 metal binding site [ion binding]; metal-binding site 1104321003657 Putative Mg2+ and Co2+ transporter CorB [Inorganic ion transport and metabolism]; Region: CorB; COG4536 1104321003658 Domain of unknown function DUF21; Region: DUF21; pfam01595 1104321003659 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 1104321003660 Transporter associated domain; Region: CorC_HlyC; smart01091 1104321003661 Stress-induced morphogen (activity unknown) [Signal transduction mechanisms]; Region: BolA; COG0271 1104321003662 DnaJ-class molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: CbpA; COG2214 1104321003663 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 1104321003664 HSP70 interaction site [polypeptide binding]; other site 1104321003665 cobaltochelatase, CobS subunit; Region: PD_CobS; TIGR01650 1104321003666 Cobaltochelatase CobS subunit N terminal; Region: CobS_N; pfam12556 1104321003667 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 1104321003668 Cobalamin biosynthesis protein CobT (nicotinate-mononucleotide:5, 6-dimethylbenzimidazole phosphoribosyltransferase) [Coenzyme metabolism]; Region: CobT; COG4547 1104321003669 Cobalamin biosynthesis protein CobT; Region: CobT; pfam06213 1104321003670 norD type: Denitrifying bacteria contain both membrane bound and periplasmic nitrate reductases. Denitrification plays a major role in completing the nitrogen cycle by converting nitrate or nitrite to nitrogen gas. The pathway for microbial...; Region: vWA_norD_type; cd01454 1104321003671 metal ion-dependent adhesion site (MIDAS); other site 1104321003672 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 1104321003673 metal-binding site [ion binding] 1104321003674 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 1104321003675 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 1104321003676 metal-binding site [ion binding] 1104321003677 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 1104321003678 Soluble P-type ATPase [General function prediction only]; Region: COG4087 1104321003679 Helix-Turn-Helix DNA binding domain of the CadR- and PbrR-like transcription regulators; Region: HTH_CadR-PbrR-like; cd04785 1104321003680 DNA binding residues [nucleotide binding] 1104321003681 zinc-responsive transcriptional regulator; Provisional; Region: zntR; PRK09514 1104321003682 dimer interface [polypeptide binding]; other site 1104321003683 putative metal binding site [ion binding]; other site 1104321003684 Protein of unknown function (DUF3108); Region: DUF3108; pfam11306 1104321003685 50S ribosomal protein L28; Reviewed; Region: rpmB; PRK00359 1104321003686 Uncharacterized member of the PurR regulon [General function prediction only]; Region: yhhQ; COG1738 1104321003687 Type V secretory pathway, adhesin AidA [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: AidA; COG3468 1104321003688 Pertactin-like passenger domains (virulence factors), C-terminal, subgroup 2, of autotransporter proteins of the type V secretion system of Gram-negative bacteria. This subgroup includes the passenger domains of the nonprotease autotransporters, Ag43; Region: PL2_Passenger_AT; cd01344 1104321003689 Autotransporter beta-domain; Region: Autotransporter; smart00869 1104321003690 putative lipoprotein/autotransporter domain-containing protein; Provisional; Region: PRK14849 1104321003691 Bacterial Ig-like domain (group 1); Region: Big_1; cl17740 1104321003692 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3786 1104321003693 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1104321003694 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1104321003695 active site 1104321003696 phosphorylation site [posttranslational modification] 1104321003697 intermolecular recognition site; other site 1104321003698 dimerization interface [polypeptide binding]; other site 1104321003699 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 1104321003700 DNA binding site [nucleotide binding] 1104321003701 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 1104321003702 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 1104321003703 ligand binding site [chemical binding]; other site 1104321003704 flexible hinge region; other site 1104321003705 Escherichia coli exonuclease III (ExoIII) and Neisseria meningitides NExo-like subfamily of the ExoIII family purinic/apyrimidinic (AP) endonucleases; Region: ExoIII-like_AP-endo; cd09086 1104321003706 putative catalytic site [active] 1104321003707 putative phosphate binding site [ion binding]; other site 1104321003708 active site 1104321003709 metal binding site A [ion binding]; metal-binding site 1104321003710 DNA binding site [nucleotide binding] 1104321003711 putative AP binding site [nucleotide binding]; other site 1104321003712 putative metal binding site B [ion binding]; other site 1104321003713 Outer membrane lipoprotein-sorting protein [Cell envelope biogenesis, outer membrane]; Region: LolA; COG2834 1104321003714 Outer membrane lipoprotein carrier protein LolA; Region: LolA; pfam03548 1104321003715 Major intrinsic protein (MIP) superfamily. Members of the MIP superfamily function as membrane channels that selectively transport water, small neutral molecules, and ions out of and between cells. The channel proteins share a common fold: the N-terminal...; Region: MIP; cd00333 1104321003716 amphipathic channel; other site 1104321003717 Asn-Pro-Ala signature motifs; other site 1104321003718 Predicted ATPase involved in cell division [Cell division and chromosome partitioning]; Region: FtsE; COG2884 1104321003719 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 1104321003720 Walker A/P-loop; other site 1104321003721 ATP binding site [chemical binding]; other site 1104321003722 Q-loop/lid; other site 1104321003723 ABC transporter signature motif; other site 1104321003724 Walker B; other site 1104321003725 D-loop; other site 1104321003726 H-loop/switch region; other site 1104321003727 Cell division protein [Cell division and chromosome partitioning]; Region: FtsX; COG2177 1104321003728 Uncharacterized conserved protein [Function unknown]; Region: COG1434 1104321003729 YdcF-like. YdcF-like is a large family of mainly bacterial proteins, with a few members found in fungi, plants, and archaea. Escherichia coli YdcF has been shown to bind S-adenosyl-L-methionine (AdoMet), but a biochemical function has not been...; Region: YdcF-like; cd06259 1104321003730 putative active site [active] 1104321003731 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 1104321003732 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 1104321003733 putative acyl-acceptor binding pocket; other site 1104321003734 Inorganic pyrophosphatase. These enzymes hydrolyze inorganic pyrophosphate (PPi) to two molecules of orthophosphates (Pi). The reaction requires bivalent cations. The enzymes in general exist as homooligomers; Region: pyrophosphatase; cd00412 1104321003735 dimer interface [polypeptide binding]; other site 1104321003736 substrate binding site [chemical binding]; other site 1104321003737 metal binding sites [ion binding]; metal-binding site 1104321003738 YGGT family; Region: YGGT; pfam02325 1104321003739 Uncharacterized protein involved in cation transport [Inorganic ion transport and metabolism]; Region: ChaC; COG3703 1104321003740 GGCT-like domains, also called AIG2-like family. Gamma-glutamyl cyclotransferase (GGCT) catalyzes the formation of pyroglutamic acid (5-oxoproline) from dipeptides containing gamma-glutamyl, and is a dimeric protein. In Homo sapiens, the protein is...; Region: GGCT_like; cd06661 1104321003741 putative active site pocket [active] 1104321003742 dimerization interface [polypeptide binding]; other site 1104321003743 putative catalytic residue [active] 1104321003744 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4093 1104321003745 Uncharacterized protein conserved in bacteria (DUF2125); Region: DUF2125; pfam09898 1104321003746 cyclohexadienyl dehydrogenase; Validated; Region: PRK07502 1104321003747 prephenate dehydrogenase; Validated; Region: PRK08507 1104321003748 histidinol-phosphate aminotransferase; Validated; Region: PRK02731 1104321003749 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 1104321003750 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1104321003751 homodimer interface [polypeptide binding]; other site 1104321003752 catalytic residue [active] 1104321003753 Methyltransferase domain; Region: Methyltransf_23; pfam13489 1104321003754 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 1104321003755 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1104321003756 active site 1104321003757 TIGR02302 family protein; Region: aProt_lowcomp 1104321003758 Diaminopimelate decarboxylase [Amino acid transport and metabolism]; Region: LysA; COG0019 1104321003759 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Diaminopimelate Decarboxylase; Region: PLPDE_III_DapDC; cd06828 1104321003760 active site 1104321003761 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 1104321003762 substrate binding site [chemical binding]; other site 1104321003763 catalytic residues [active] 1104321003764 dimer interface [polypeptide binding]; other site 1104321003765 Predicted small periplasmic lipoprotein [Cell motility and secretion]; Region: COG5567 1104321003766 argininosuccinate lyase; Provisional; Region: PRK00855 1104321003767 Argininosuccinate lyase (argininosuccinase, ASAL); Region: Argininosuccinate_lyase; cd01359 1104321003768 active sites [active] 1104321003769 tetramer interface [polypeptide binding]; other site 1104321003770 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 1104321003771 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 1104321003772 catalytic residues [active] 1104321003773 hypothetical protein; Validated; Region: PRK00124 1104321003774 Ribonuclease BN family enzyme [Replication, recombination, and repair]; Region: Rbn; COG1295 1104321003775 short chain dehydrogenase; Provisional; Region: PRK05993 1104321003776 17beta hydroxysteroid dehydrogenase-like, classical (c) SDRs; Region: 17beta-HSD-like_SDR_c; cd05374 1104321003777 NADP binding site [chemical binding]; other site 1104321003778 active site 1104321003779 steroid binding site; other site 1104321003780 cob(I)alamin adenosyltransferase [Coenzyme transport and metabolism]; Region: COG2096 1104321003781 7-cyano-7-deazaguanosine (preQ0) biosynthesis protein QueE; Region: Bsubt_queE; TIGR03365 1104321003782 putative 7-cyano-7-deazaguanosine (preQ0) biosynthesis protein QueE; Region: rSAM_QueE_Ecoli; TIGR04322 1104321003783 6-pyruvoyl-tetrahydropterin synthase [Coenzyme metabolism]; Region: COG0720 1104321003784 active site 1104321003785 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 1104321003786 Ligand Binding Site [chemical binding]; other site 1104321003787 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 1104321003788 Ligand binding site [chemical binding]; other site 1104321003789 Electron transfer flavoprotein domain; Region: ETF; pfam01012 1104321003790 Electron transfer flavoprotein, alpha subunit [Energy production and conversion]; Region: FixB; COG2025 1104321003791 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 1104321003792 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 1104321003793 3-hydroxybutyryl-CoA dehydrogenase; Validated; Region: PRK07530 1104321003794 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 1104321003795 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 1104321003796 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 1104321003797 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 1104321003798 dimer interface [polypeptide binding]; other site 1104321003799 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1104321003800 catalytic residue [active] 1104321003801 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 1104321003802 Ligand Binding Site [chemical binding]; other site 1104321003803 methionine gamma-lyase; Validated; Region: PRK07049 1104321003804 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 1104321003805 homodimer interface [polypeptide binding]; other site 1104321003806 substrate-cofactor binding pocket; other site 1104321003807 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1104321003808 catalytic residue [active] 1104321003809 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 1104321003810 D-galactonate transporter; Region: 2A0114; TIGR00893 1104321003811 putative substrate translocation pore; other site 1104321003812 Type II (periplasmic) bacterial L-asparaginase; Region: L-asparaginase_II; cd08964 1104321003813 active site 1104321003814 homodimer interface [polypeptide binding]; other site 1104321003815 homotetramer interface [polypeptide binding]; other site 1104321003816 Transcriptional regulators [Transcription]; Region: GntR; COG1802 1104321003817 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1104321003818 DNA-binding site [nucleotide binding]; DNA binding site 1104321003819 FCD domain; Region: FCD; pfam07729 1104321003820 Type II (periplasmic) bacterial L-asparaginase; Region: L-asparaginase_II; cd08964 1104321003821 active site 1104321003822 homotetramer interface [polypeptide binding]; other site 1104321003823 homodimer interface [polypeptide binding]; other site 1104321003824 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 1104321003825 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 1104321003826 Walker A/P-loop; other site 1104321003827 ATP binding site [chemical binding]; other site 1104321003828 Q-loop/lid; other site 1104321003829 ABC transporter signature motif; other site 1104321003830 Walker B; other site 1104321003831 D-loop; other site 1104321003832 H-loop/switch region; other site 1104321003833 aspartate ammonia-lyase; Provisional; Region: aspA; PRK12273 1104321003834 Aspartase; Region: Aspartase; cd01357 1104321003835 active sites [active] 1104321003836 tetramer interface [polypeptide binding]; other site 1104321003837 agmatinase; Region: agmatinase; TIGR01230 1104321003838 Agmatinase and related proteins; Region: Agmatinase_like_1; cd11589 1104321003839 oligomer interface [polypeptide binding]; other site 1104321003840 active site 1104321003841 Mn binding site [ion binding]; other site 1104321003842 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 1104321003843 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 1104321003844 Walker A/P-loop; other site 1104321003845 ATP binding site [chemical binding]; other site 1104321003846 Q-loop/lid; other site 1104321003847 ABC transporter signature motif; other site 1104321003848 Walker B; other site 1104321003849 D-loop; other site 1104321003850 H-loop/switch region; other site 1104321003851 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 1104321003852 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 1104321003853 dimer interface [polypeptide binding]; other site 1104321003854 conserved gate region; other site 1104321003855 putative PBP binding loops; other site 1104321003856 ABC-ATPase subunit interface; other site 1104321003857 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 1104321003858 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 1104321003859 dimer interface [polypeptide binding]; other site 1104321003860 conserved gate region; other site 1104321003861 putative PBP binding loops; other site 1104321003862 ABC-ATPase subunit interface; other site 1104321003863 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 1104321003864 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 1104321003865 substrate binding pocket [chemical binding]; other site 1104321003866 membrane-bound complex binding site; other site 1104321003867 hinge residues; other site 1104321003868 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1104321003869 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1104321003870 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cd05466 1104321003871 dimerization interface [polypeptide binding]; other site 1104321003872 Predicted membrane-associated, metal-dependent hydrolase [General function prediction only]; Region: COG2194 1104321003873 Domain of unknown function (DUF1705); Region: DUF1705; pfam08019 1104321003874 Sulfatase; Region: Sulfatase; pfam00884 1104321003875 Acetyltransferase (GNAT) domain; Region: Acetyltransf_6; pfam13480 1104321003876 preprotein translocase subunit SecA; Reviewed; Region: PRK12904 1104321003877 DEAD/DEAH box helicase; Region: DEAD; pfam00270 1104321003878 ATP binding site [chemical binding]; other site 1104321003879 putative Mg++ binding site [ion binding]; other site 1104321003880 SecA preprotein cross-linking domain; Region: SecA_PP_bind; smart00958 1104321003881 SEC-C motif; Region: SEC-C; pfam02810 1104321003882 peptidylprolyl isomerase; Reviewed; Region: prsA; PRK03002 1104321003883 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 1104321003884 Ornithine acetyltransferase (OAT) family; also referred to as ArgJ. OAT catalyzes the first and fifth steps in arginine biosynthesis, coupling acetylation of glutamate with deacetylation of N-acetylornithine, which allows recycling of the acetyl group in...; Region: OAT; cd02152 1104321003885 heterotetramer interface [polypeptide binding]; other site 1104321003886 active site pocket [active] 1104321003887 cleavage site 1104321003888 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1104321003889 Coenzyme A binding pocket [chemical binding]; other site 1104321003890 The MutT pyrophosphohydrolase is a prototypical Nudix hydrolase that catalyzes the hydrolysis of nucleoside and deoxynucleoside triphosphates (NTPs and dNTPs) by substitution at a beta-phosphorus to yield a nucleotide monophosphate (NMP) and inorganic...; Region: MutT_pyrophosphohydrolase; cd03425 1104321003891 active site 1104321003892 8-oxo-dGMP binding site [chemical binding]; other site 1104321003893 nudix motif; other site 1104321003894 metal binding site [ion binding]; metal-binding site 1104321003895 hydroxyacylglutathione hydrolase; Region: GSH_gloB; TIGR03413 1104321003896 intracellular septation protein A; Reviewed; Region: PRK00259 1104321003897 signal recognition particle-docking protein FtsY; Provisional; Region: PRK10416 1104321003898 SRP54-type protein, helical bundle domain; Region: SRP54_N; smart00963 1104321003899 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 1104321003900 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 1104321003901 MiaB-like tRNA modifying enzyme; Region: MiaB-like-C; TIGR01579 1104321003902 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 1104321003903 FeS/SAM binding site; other site 1104321003904 diaminopimelate epimerase; Provisional; Region: dapF; PRK00450 1104321003905 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 1104321003906 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 1104321003907 Protease inhibitor Inh; Region: Inh; pfam02974 1104321003908 Predicted ATPase [General function prediction only]; Region: COG1485 1104321003909 malate dehydrogenase; Reviewed; Region: PRK06223 1104321003910 L-lactate dehydrogenase-like malate dehydrogenase proteins; Region: LDH-like_MDH; cd01339 1104321003911 NAD(P) binding site [chemical binding]; other site 1104321003912 dimer interface [polypeptide binding]; other site 1104321003913 tetramer (dimer of dimers) interface [polypeptide binding]; other site 1104321003914 substrate binding site [chemical binding]; other site 1104321003915 succinyl-CoA synthetase subunit beta; Provisional; Region: sucC; PRK00696 1104321003916 ATP-grasp domain; Region: ATP-grasp_2; pfam08442 1104321003917 CoA-ligase; Region: Ligase_CoA; pfam00549 1104321003918 succinyl-CoA synthetase subunit alpha; Validated; Region: PRK05678 1104321003919 CoA binding domain; Region: CoA_binding; smart00881 1104321003920 CoA-ligase; Region: Ligase_CoA; pfam00549 1104321003921 2-oxoglutarate dehydrogenase E1 component; Reviewed; Region: sucA; PRK09404 1104321003922 Thiamine pyrophosphate (TPP) family, E1 of OGDC-like subfamily, TPP-binding module; composed of proteins similar to the E1 component of the 2-oxoglutarate dehydrogenase multienzyme complex (OGDC). OGDC catalyzes the oxidative decarboxylation of...; Region: TPP_E1_OGDC_like; cd02016 1104321003923 TPP-binding site [chemical binding]; other site 1104321003924 Transketolase, pyrimidine binding domain; Region: Transket_pyr; pfam02779 1104321003925 dihydrolipoamide succinyltransferase; Validated; Region: PRK05704 1104321003926 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 1104321003927 E3 interaction surface; other site 1104321003928 lipoyl attachment site [posttranslational modification]; other site 1104321003929 e3 binding domain; Region: E3_binding; pfam02817 1104321003930 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 1104321003931 Predicted membrane protein [Function unknown]; Region: COG3686 1104321003932 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 1104321003933 dihydrolipoamide dehydrogenase; Validated; Region: PRK06327 1104321003934 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 1104321003935 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1104321003936 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 1104321003937 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3735 1104321003938 site-specific tyrosine recombinase XerC; Reviewed; Region: xerC; PRK00236 1104321003939 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 1104321003940 active site 1104321003941 DNA binding site [nucleotide binding] 1104321003942 Int/Topo IB signature motif; other site 1104321003943 16S rRNA-processing protein RimM; Provisional; Region: rimM; PRK00122 1104321003944 RimM N-terminal domain; Region: RimM; pfam01782 1104321003945 PRC-barrel domain; Region: PRC; pfam05239 1104321003946 tRNA (guanine-N(1)-)-methyltransferase; Reviewed; Region: trmD; PRK00026 1104321003947 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cd00090 1104321003948 dimerization interface [polypeptide binding]; other site 1104321003949 putative DNA binding site [nucleotide binding]; other site 1104321003950 putative Zn2+ binding site [ion binding]; other site 1104321003951 NIPSNAP; Region: NIPSNAP; pfam07978 1104321003952 Uncharacterized enzyme involved in biosynthesis of extracellular polysaccharides [General function prediction only]; Region: COG2329 1104321003953 Cytosine/uracil/thiamine/allantoin permeases [Nucleotide transport and metabolism / Coenzyme metabolism]; Region: FUI1; COG1953 1104321003954 Permease for cytosine/purines, uracil, thiamine, allantoin; Region: Transp_cyt_pur; pfam02133 1104321003955 Na binding site [ion binding]; other site 1104321003956 50S ribosomal protein L19; Provisional; Region: rplS; PRK05338 1104321003957 3-isopropylmalate dehydratase large subunit; Reviewed; Region: PRK00402 1104321003958 3-isopropylmalate dehydratase catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate; Region: IPMI; cd01583 1104321003959 substrate binding site [chemical binding]; other site 1104321003960 ligand binding site [chemical binding]; other site 1104321003961 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 1104321003962 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1104321003963 Coenzyme A binding pocket [chemical binding]; other site 1104321003964 Succinate:quinone oxidoreductase (SQR) Type C subfamily, Succinate dehydrogenase C (SdhC) subunit; composed of bacterial SdhC and eukaryotic large cytochrome b binding (CybL) proteins. SQR catalyzes the oxidation of succinate to fumarate coupled to the...; Region: SQR_TypeC_SdhC; cd03499 1104321003965 Iron-sulfur protein interface; other site 1104321003966 proximal quinone binding site [chemical binding]; other site 1104321003967 SdhD (CybS) interface [polypeptide binding]; other site 1104321003968 proximal heme binding site [chemical binding]; other site 1104321003969 Succinate:quinone oxidoreductase (SQR) Type C subfamily, Succinate dehydrogenase D (SdhD) subunit-like; composed of predominantly uncharacterized bacterial proteins with similarity to the E. coli SdhD subunit. One characterized protein is the respiratory...; Region: SQR_TypeC_SdhD_like; cd03495 1104321003970 putative SdhC subunit interface [polypeptide binding]; other site 1104321003971 putative proximal heme binding site [chemical binding]; other site 1104321003972 putative Iron-sulfur protein interface [polypeptide binding]; other site 1104321003973 putative proximal quinone binding site; other site 1104321003974 succinate dehydrogenase flavoprotein subunit; Reviewed; Region: sdhA; PRK09078 1104321003975 L-aspartate oxidase; Provisional; Region: PRK06175 1104321003976 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 1104321003977 succinate dehydrogenase iron-sulfur subunit; Reviewed; Region: sdhB; PRK05950 1104321003978 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_3; pfam13085 1104321003979 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases; Region: Glo_EDI_BRP_like_19; cd07262 1104321003980 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 1104321003981 2-octaprenyl-6-methoxyphenyl hydroxylase; Provisional; Region: PRK07333 1104321003982 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 1104321003983 hypothetical protein; Provisional; Region: PRK05415 1104321003984 Acyl-CoA thioesterase [Lipid metabolism]; Region: TesB; COG1946 1104321003985 Thioesterase II (TEII) is thought to regenerate misprimed nonribosomal peptide synthetases (NRPSs) as well as modular polyketide synthases (PKSs) by hydrolyzing acetyl groups bound to the peptidyl carrier protein (PCP) and acyl carrier protein (ACP)...; Region: Thioesterase_II_repeat2; cd03445 1104321003986 active site 1104321003987 Thioesterase II (TEII) is thought to regenerate misprimed nonribosomal peptide synthetases (NRPSs) as well as modular polyketide synthases (PKSs) by hydrolyzing acetyl groups bound to the peptidyl carrier protein (PCP) and acyl carrier protein (ACP)...; Region: Thioesterase_II_repeat1; cd03444 1104321003988 catalytic triad [active] 1104321003989 dimer interface [polypeptide binding]; other site 1104321003990 Ammonia permease [Inorganic ion transport and metabolism]; Region: AmtB; COG0004 1104321003991 Domain of unknown function (DUF4117); Region: DUF4117; pfam13491 1104321003992 DNA segregation ATPase FtsK/SpoIIIE and related proteins [Cell division and chromosome partitioning]; Region: FtsK; COG1674 1104321003993 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 1104321003994 Ftsk gamma domain; Region: Ftsk_gamma; pfam09397 1104321003995 Transcriptional regulators containing a DNA-binding HTH domain and an aminotransferase domain (MocR family) and their eukaryotic orthologs [Transcription / Amino acid transport and metabolism]; Region: ARO8; COG1167 1104321003996 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1104321003997 DNA-binding site [nucleotide binding]; DNA binding site 1104321003998 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 1104321003999 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1104321004000 homodimer interface [polypeptide binding]; other site 1104321004001 catalytic residue [active] 1104321004002 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 1104321004003 EamA-like transporter family; Region: EamA; pfam00892 1104321004004 Predicted methyltransferase [General function prediction only]; Region: COG3897 1104321004005 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 1104321004006 S-adenosylmethionine binding site [chemical binding]; other site 1104321004007 Uncharacterized conserved protein [Function unknown]; Region: COG2947 1104321004008 YCII-related domain; Region: YCII; cl00999 1104321004009 NAD(P)H-dependent glycerol-3-phosphate dehydrogenase; Validated; Region: gpsA; PRK00094 1104321004010 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 1104321004011 NAD-dependent glycerol-3-phosphate dehydrogenase C-terminus; Region: NAD_Gly3P_dh_C; pfam07479 1104321004012 UGMP family protein; Validated; Region: PRK09604 1104321004013 Inactive homolog of metal-dependent proteases, putative molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: COG1214; cl17884 1104321004014 porphobilinogen deaminase; Region: hemC; TIGR00212 1104321004015 Hydroxymethylbilane synthase (HMBS), also known as porphobilinogen deaminase (PBGD), is an intermediate enzyme in the biosynthetic pathway of tetrapyrrolic ring systems, such as heme, chlorophylls, and vitamin B12. HMBS catalyzes the conversion of...; Region: HMBS; cl17708 1104321004016 active site 1104321004017 domain interfaces; other site 1104321004018 Uroporphyrinogen-III synthase [Coenzyme metabolism]; Region: HemD; COG1587 1104321004019 Uroporphyrinogen-III synthase (HemD) catalyzes the asymmetrical cyclization of tetrapyrrole (linear) to uroporphyrinogen-III, the fourth step in the biosynthesis of heme. This ubiquitous enzyme is present in eukaryotes, bacteria and archaea. Mutations in...; Region: HemD; cd06578 1104321004020 active site 1104321004021 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4223 1104321004022 Uncharacterized membrane-bound protein [Function unknown]; Region: COG3898 1104321004023 HemY protein N-terminus; Region: HemY_N; pfam07219 1104321004024 tellurium resistance terB-like protein, subgroup 2; Region: terB_like_2; cd07313 1104321004025 putative metal binding site [ion binding]; other site 1104321004026 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 1104321004027 putative substrate translocation pore; other site 1104321004028 biotin biosynthesis protein BioC; Region: BioC; TIGR02072 1104321004029 Methyltransferase domain; Region: Methyltransf_11; pfam08241 1104321004030 Predicted amidophosphoribosyltransferases [General function prediction only]; Region: ComFC; COG1040 1104321004031 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1104321004032 active site 1104321004033 Glutaredoxin (GRX) family, GRX bacterial class 1 and 3 (b_1_3)-like subfamily; composed of bacterial GRXs, approximately 10 kDa in size, and proteins containing a GRX or GRX-like domain. GRX is a glutathione (GSH) dependent reductase, catalyzing the...; Region: GRX_GRXb_1_3_like; cd03418 1104321004034 GSH binding site [chemical binding]; other site 1104321004035 catalytic residues [active] 1104321004036 Predicted amidohydrolase [General function prediction only]; Region: COG0388 1104321004037 Nit1, Nit 2, and related proteins, and the Nit1-like domain of NitFhit (class 10 nitrilases); Region: nit; cd07572 1104321004038 putative active site [active] 1104321004039 catalytic triad [active] 1104321004040 dimer interface [polypeptide binding]; other site 1104321004041 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5319 1104321004042 EamA-like transporter family; Region: EamA; pfam00892 1104321004043 bifunctional 3-demethylubiquinone-9 3-methyltransferase/ 2-octaprenyl-6-hydroxy phenol methylase; Provisional; Region: PRK05134 1104321004044 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 1104321004045 S-adenosylmethionine binding site [chemical binding]; other site 1104321004046 aspartate kinase; Reviewed; Region: PRK06635 1104321004047 AAK_AKii-LysC-BS: Amino Acid Kinase Superfamily (AAK), AKii; this CD includes the N-terminal catalytic aspartokinase (AK) domain of the lysine-sensitive aspartokinase isoenzyme AKII of Bacillus subtilis 168, and the lysine plus threonine-sensitive...; Region: AAK_AKii-LysC-BS; cd04261 1104321004048 putative nucleotide binding site [chemical binding]; other site 1104321004049 putative catalytic residues [active] 1104321004050 putative Mg ion binding site [ion binding]; other site 1104321004051 putative aspartate binding site [chemical binding]; other site 1104321004052 ACT domains of the lysine-sensitive aspartokinase isoenzyme AKII of Bacillus subtilis (BS) strain 168 and related proteins; Region: ACT_AKii-LysC-BS-like_1; cd04913 1104321004053 putative allosteric regulatory site; other site 1104321004054 ACT domains of the lysine-sensitive, aspartokinase (AK) isoenzyme AKII of Bacillus subtilis (BS) strain 168 and related domains; Region: ACT_AKii-LysC-BS-like_2; cd04936 1104321004055 putative allosteric regulatory residue; other site 1104321004056 Signal transduction protein containing GAF and PtsI domains [Signal transduction mechanisms]; Region: PtsP; COG3605 1104321004057 GAF domain; Region: GAF; pfam01590 1104321004058 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 1104321004059 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 1104321004060 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 1104321004061 peptide chain release factor 1; Validated; Region: prfA; PRK00591 1104321004062 This domain is found in peptide chain release factors; Region: PCRF; smart00937 1104321004063 RF-1 domain; Region: RF-1; pfam00472 1104321004064 protein-(glutamine-N5) methyltransferase, release factor-specific; Region: RF_mod_PrmC; TIGR03534 1104321004065 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 1104321004066 S-adenosylmethionine binding site [chemical binding]; other site 1104321004067 Domain of unknown function (DUF4167); Region: DUF4167; pfam13763 1104321004068 ATP-dependent chaperone ClpB; Region: chaperone_ClpB; TIGR03346 1104321004069 Clp amino terminal domain; Region: Clp_N; pfam02861 1104321004070 Clp amino terminal domain; Region: Clp_N; pfam02861 1104321004071 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 1104321004072 Walker A motif; other site 1104321004073 ATP binding site [chemical binding]; other site 1104321004074 Walker B motif; other site 1104321004075 arginine finger; other site 1104321004076 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 1104321004077 Walker A motif; other site 1104321004078 ATP binding site [chemical binding]; other site 1104321004079 Walker B motif; other site 1104321004080 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 1104321004081 Uncharacterized protein conserved in bacteria [Function unknown]; Region: ErfK; COG1376 1104321004082 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 1104321004083 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 1104321004084 Peptidase family M23; Region: Peptidase_M23; pfam01551 1104321004085 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3316 1104321004086 Integrase core domain; Region: rve; pfam00665 1104321004087 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3316 1104321004088 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 1104321004089 non-specific DNA binding site [nucleotide binding]; other site 1104321004090 salt bridge; other site 1104321004091 sequence-specific DNA binding site [nucleotide binding]; other site 1104321004092 Cupin domain; Region: Cupin_2; cl17218 1104321004093 Methyltransferase domain; Region: Methyltransf_31; pfam13847 1104321004094 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 1104321004095 S-adenosylmethionine binding site [chemical binding]; other site 1104321004096 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3316 1104321004097 Integrase core domain; Region: rve; pfam00665 1104321004098 50S ribosomal protein L21/unknown domain fusion protein; Provisional; Region: PRK12278 1104321004099 50S ribosomal protein L21; Validated; Region: rplU; PRK05573 1104321004100 50S ribosomal protein L27; Validated; Region: rpmA; PRK05435 1104321004101 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 1104321004102 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 1104321004103 Sortase and related acyltransferases [Cell envelope biogenesis, outer membrane]; Region: COG1247 1104321004104 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 1104321004105 GTPase CgtA; Reviewed; Region: obgE; PRK12299 1104321004106 GTP1/OBG; Region: GTP1_OBG; pfam01018 1104321004107 Obg GTPase; Region: Obg; cd01898 1104321004108 G1 box; other site 1104321004109 GTP/Mg2+ binding site [chemical binding]; other site 1104321004110 Switch I region; other site 1104321004111 G2 box; other site 1104321004112 G3 box; other site 1104321004113 Switch II region; other site 1104321004114 G4 box; other site 1104321004115 G5 box; other site 1104321004116 gamma-glutamyl kinase; Provisional; Region: PRK05429 1104321004117 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 1104321004118 nucleotide binding site [chemical binding]; other site 1104321004119 homotetrameric interface [polypeptide binding]; other site 1104321004120 putative phosphate binding site [ion binding]; other site 1104321004121 putative allosteric binding site; other site 1104321004122 PUA domain; Region: PUA; pfam01472 1104321004123 Gamma-glutamyl phosphate reductase (GPR), aldehyde dehydrogenase families 18 and 19; Region: ALDH_F18-19_ProA-GPR; cd07079 1104321004124 gamma-glutamyl phosphate reductase; Region: proA; TIGR00407 1104321004125 putative catalytic cysteine [active] 1104321004126 Nicotinamide/nicotinate mononucleotide adenylyltransferase; Region: NMNAT; cd02165 1104321004127 Cytidylyltransferase; Region: CTP_transf_2; pfam01467 1104321004128 active site 1104321004129 (T/H)XGH motif; other site 1104321004130 Uncharacterized homolog of plant Iojap protein [Function unknown]; Region: COG0799 1104321004131 rRNA large subunit methyltransferase; Provisional; Region: PRK00103 1104321004132 Membrane-bound metallopeptidase [Cell division and chromosome partitioning]; Region: COG4942 1104321004133 Peptidase family M23; Region: Peptidase_M23; pfam01551 1104321004134 Periplasmic protease [Cell envelope biogenesis, outer membrane]; Region: Prc; COG0793 1104321004135 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 1104321004136 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 1104321004137 protein binding site [polypeptide binding]; other site 1104321004138 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 1104321004139 Catalytic dyad [active] 1104321004140 Diadenosine tetraphosphate (Ap4A) hydrolase is a member of the Nudix hydrolase superfamily. Members of this family are well represented in a variety of prokaryotic and eukaryotic organisms. Phylogenetic analysis reveals two distinct subgroups where plant...; Region: Ap4A_hydrolase_plant_like; cd03671 1104321004141 putative active site [active] 1104321004142 Ap4A binding site [chemical binding]; other site 1104321004143 nudix motif; other site 1104321004144 putative metal binding site [ion binding]; other site 1104321004145 Predicted membrane protein [Function unknown]; Region: COG3619 1104321004146 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1104321004147 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 1104321004148 putative effector binding pocket; other site 1104321004149 dimerization interface [polypeptide binding]; other site 1104321004150 Methylmalonate semialdehyde dehydrogenase and ALDH family members 6A1 and 6B2; Region: ALDH_F6_MMSDH; cd07085 1104321004151 methylmalonic acid semialdehyde dehydrogenase; Region: MMSDH; TIGR01722 1104321004152 tetrameric interface [polypeptide binding]; other site 1104321004153 NAD binding site [chemical binding]; other site 1104321004154 catalytic residues [active] 1104321004155 pyridoxamine kinase; Validated; Region: PRK05756 1104321004156 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 1104321004157 dimer interface [polypeptide binding]; other site 1104321004158 pyridoxal binding site [chemical binding]; other site 1104321004159 ATP binding site [chemical binding]; other site 1104321004160 Carbonic anhydrases (CA) are zinc-containing enzymes that catalyze the reversible hydration of carbon dioxide in a two-step mechanism in which the nucleophilic attack of a zinc-bound hydroxide ion on carbon dioxide is followed by the regeneration of an...; Region: beta_CA_cladeB; cd00884 1104321004161 active site clefts [active] 1104321004162 zinc binding site [ion binding]; other site 1104321004163 dimer interface [polypeptide binding]; other site 1104321004164 lytic murein transglycosylase; Region: MltB_2; TIGR02283 1104321004165 murein hydrolase B; Provisional; Region: PRK10760; cl17906 1104321004166 signal recognition particle protein; Provisional; Region: PRK10867 1104321004167 SRP54-type protein, helical bundle domain; Region: SRP54_N; smart00963 1104321004168 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 1104321004169 P loop; other site 1104321004170 GTP binding site [chemical binding]; other site 1104321004171 Signal peptide binding domain; Region: SRP_SPB; pfam02978 1104321004172 chorismate mutase; Provisional; Region: PRK09239 1104321004173 30S ribosomal protein S16; Reviewed; Region: rpsP; PRK00040 1104321004174 Uncharacterized conserved protein [Function unknown]; Region: LemA; COG1704 1104321004175 Beta-propeller domains of methanol dehydrogenase type [General function prediction only]; Region: COG1512 1104321004176 Repair protein; Region: Repair_PSII; pfam04536 1104321004177 Predicted membrane protein [Function unknown]; Region: COG3762 1104321004178 Bacterial NAD-glutamate dehydrogenase; Region: Bac_GDH; pfam05088 1104321004179 Permeases of the major facilitator superfamily [General function prediction only]; Region: COG2270 1104321004180 bifunctional phosphoribosylaminoimidazolecarboxamide formyltransferase/IMP cyclohydrolase; Provisional; Region: purH; PRK00881 1104321004181 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 1104321004182 purine monophosphate binding site [chemical binding]; other site 1104321004183 dimer interface [polypeptide binding]; other site 1104321004184 putative catalytic residues [active] 1104321004185 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; smart00798 1104321004186 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; cl03362 1104321004187 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5360 1104321004188 NusB family; Region: NusB; pfam01029 1104321004189 tRNA and rRNA cytosine-C5-methylases [Translation, ribosomal structure and biogenesis]; Region: Sun; COG0144 1104321004190 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 1104321004191 S-adenosylmethionine binding site [chemical binding]; other site 1104321004192 heat shock protein HtpX; Provisional; Region: PRK01345 1104321004193 Uncharacterized conserved small protein [Function unknown]; Region: COG5508 1104321004194 Protein of unknown function (DUF1674); Region: DUF1674; pfam07896 1104321004195 acetyl-CoA synthetase; Provisional; Region: PRK00174 1104321004196 Acetyl-CoA synthetase (also known as acetate-CoA ligase and acetyl-activating enzyme); Region: ACS; cd05966 1104321004197 active site 1104321004198 CoA binding site [chemical binding]; other site 1104321004199 acyl-activating enzyme (AAE) consensus motif; other site 1104321004200 AMP binding site [chemical binding]; other site 1104321004201 acetate binding site [chemical binding]; other site 1104321004202 Usg protein, probable subunit of phosphoribosylanthranilate isomerase [Amino acid transport and metabolism]; Region: COG5425 1104321004203 Predicted membrane protein [Function unknown]; Region: COG1289 1104321004204 Fusaric acid resistance protein-like; Region: FUSC_2; pfam13515 1104321004205 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, YBL036c-like proteins; Region: PLPDE_III_YBL036c_like; cd00635 1104321004206 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 1104321004207 catalytic residue [active] 1104321004208 leucyl-tRNA synthetase; Validated; Region: leuS; PRK00390 1104321004209 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 1104321004210 HIGH motif; other site 1104321004211 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 1104321004212 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 1104321004213 active site 1104321004214 KMSKS motif; other site 1104321004215 Anticodon-binding domain of bacterial and eukaryotic mitochondrial leucyl tRNA synthetases; Region: Anticodon_Ia_Leu_BEm; cd07958 1104321004216 tRNA binding surface [nucleotide binding]; other site 1104321004217 Predicted secreted (periplasmic) protein [Function unknown]; Region: COG5468 1104321004218 Transaldolase-like fructose-6-phosphate aldolases (FSA) found in bacteria and archaea; Region: Transaldolase_FSA; cd00956 1104321004219 active site 1104321004220 intersubunit interactions; other site 1104321004221 catalytic residue [active] 1104321004222 primosome assembly protein PriA; Validated; Region: PRK05580 1104321004223 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 1104321004224 ATP binding site [chemical binding]; other site 1104321004225 putative Mg++ binding site [ion binding]; other site 1104321004226 helicase superfamily c-terminal domain; Region: HELICc; smart00490 1104321004227 nucleotide binding region [chemical binding]; other site 1104321004228 ATP-binding site [chemical binding]; other site 1104321004229 F0F1 ATP synthase subunit delta; Validated; Region: PRK05758 1104321004230 ATP synthase delta (OSCP) subunit; Region: OSCP; pfam00213 1104321004231 F0F1 ATP synthase subunit alpha; Validated; Region: PRK09281 1104321004232 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 1104321004233 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 1104321004234 beta subunit interaction interface [polypeptide binding]; other site 1104321004235 Walker A motif; other site 1104321004236 ATP binding site [chemical binding]; other site 1104321004237 Walker B motif; other site 1104321004238 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 1104321004239 mitochondrial ATP synthase gamma subunit; Region: F1-ATPase_gamma; cd12151 1104321004240 core domain interface [polypeptide binding]; other site 1104321004241 delta subunit interface [polypeptide binding]; other site 1104321004242 epsilon subunit interface [polypeptide binding]; other site 1104321004243 F0F1 ATP synthase subunit beta; Validated; Region: PRK09280 1104321004244 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 1104321004245 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 1104321004246 alpha subunit interaction interface [polypeptide binding]; other site 1104321004247 Walker A motif; other site 1104321004248 ATP binding site [chemical binding]; other site 1104321004249 Walker B motif; other site 1104321004250 inhibitor binding site; inhibition site 1104321004251 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 1104321004252 mitochondrial ATP synthase delta subunit; Region: F1-ATPase_delta; cd12152 1104321004253 F0F1-type ATP synthase, epsilon subunit (mitochondrial delta subunit) [Energy production and conversion]; Region: AtpC; COG0355 1104321004254 gamma subunit interface [polypeptide binding]; other site 1104321004255 epsilon subunit interface [polypeptide binding]; other site 1104321004256 LBP interface [polypeptide binding]; other site 1104321004257 MarR family; Region: MarR; pfam01047 1104321004258 transcriptional regulator SlyA; Provisional; Region: PRK03573 1104321004259 potential frameshift: common BLAST hit: gi|340791390|ref|YP_004756855.1| GntR family transcriptional regulator 1104321004260 Transcriptional regulators [Transcription]; Region: GntR; COG1802 1104321004261 FCD domain; Region: FCD; pfam07729 1104321004262 Transcriptional regulators [Transcription]; Region: GntR; COG1802 1104321004263 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1104321004264 DNA-binding site [nucleotide binding]; DNA binding site 1104321004265 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 1104321004266 Proline racemase [Amino acid transport and metabolism]; Region: COG3938 1104321004267 hydroxyproline-2-epimerase; Provisional; Region: PRK13971 1104321004268 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1104321004269 Transmembrane subunit (TM) of Escherichia coli LivH and related proteins. LivH is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivH_like; cd06582 1104321004270 TM-ABC transporter signature motif; other site 1104321004271 leucine/isoleucine/valine transporter permease subunit; Provisional; Region: livM; PRK11301 1104321004272 Domain of unknown function (DUF3382); Region: DUF3382; pfam11862 1104321004273 Transmembrane subunit (TM) of Escherichia coli LivM and related proteins. LivM is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivM_like; cd06581 1104321004274 TM-ABC transporter signature motif; other site 1104321004275 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 1104321004276 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 1104321004277 Walker A/P-loop; other site 1104321004278 ATP binding site [chemical binding]; other site 1104321004279 Q-loop/lid; other site 1104321004280 ABC transporter signature motif; other site 1104321004281 Walker B; other site 1104321004282 D-loop; other site 1104321004283 H-loop/switch region; other site 1104321004284 Uncharacterized conserved protein [Function unknown]; Region: COG3743 1104321004285 potential frameshift: common BLAST hit: gi|148560436|ref|YP_001259628.1| branched-chain amino acid ABC transporter ATP-binding protein 1104321004286 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1104321004287 Walker A/P-loop; other site 1104321004288 ATP binding site [chemical binding]; other site 1104321004289 Q-loop/lid; other site 1104321004290 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1104321004291 ABC transporter signature motif; other site 1104321004292 Walker B; other site 1104321004293 D-loop; other site 1104321004294 H-loop/switch region; other site 1104321004295 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 1104321004296 Type I periplasmic ligand-binding domain of ABC (Atpase Binding Cassette)-type active transport systems that are involved in the transport of all three branched chain aliphatic amino acids (leucine, isoleucine and valine); Region: PBP1_ABC_LIVBP_like; cd06342 1104321004297 dimerization interface [polypeptide binding]; other site 1104321004298 ligand binding site [chemical binding]; other site 1104321004299 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 1104321004300 Type I periplasmic ligand-binding domain of ABC (Atpase Binding Cassette)-type active transport systems that are involved in the transport of all three branched chain aliphatic amino acids (leucine, isoleucine and valine); Region: PBP1_ABC_LIVBP_like; cd06342 1104321004301 dimerization interface [polypeptide binding]; other site 1104321004302 ligand binding site [chemical binding]; other site 1104321004303 pyruvate carboxylase; Reviewed; Region: PRK12999 1104321004304 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 1104321004305 ATP-grasp domain; Region: ATP-grasp_4; cl17255 1104321004306 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 1104321004307 Pyruvate carboxylase and Transcarboxylase 5S, carboxyltransferase domain; Region: DRE_TIM_PC_TC_5S; cd07937 1104321004308 active site 1104321004309 catalytic residues [active] 1104321004310 metal binding site [ion binding]; metal-binding site 1104321004311 homodimer binding site [polypeptide binding]; other site 1104321004312 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 1104321004313 carboxyltransferase (CT) interaction site; other site 1104321004314 biotinylation site [posttranslational modification]; other site 1104321004315 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 1104321004316 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1104321004317 putative substrate translocation pore; other site 1104321004318 3-hydroxybutyrate dehydrogenase; Region: PHB_DH; TIGR01963 1104321004319 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1104321004320 NAD(P) binding site [chemical binding]; other site 1104321004321 active site 1104321004322 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Reviewed; Region: ispG; PRK00366 1104321004323 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 1104321004324 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 1104321004325 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 1104321004326 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 1104321004327 substrate binding pocket [chemical binding]; other site 1104321004328 chain length determination region; other site 1104321004329 substrate-Mg2+ binding site; other site 1104321004330 catalytic residues [active] 1104321004331 aspartate-rich region 1; other site 1104321004332 active site lid residues [active] 1104321004333 aspartate-rich region 2; other site 1104321004334 monofunctional biosynthetic peptidoglycan transglycosylase; Provisional; Region: mtgA; PRK00056 1104321004335 Transglycosylase; Region: Transgly; pfam00912 1104321004336 Ribosomal protein L32 [Translation, ribosomal structure and biogenesis]; Region: RpmF; COG0333 1104321004337 Uncharacterized protein, possibly involved in utilization of glycolate and propanediol [General function prediction only]; Region: GlcG; COG3193 1104321004338 putative acyltransferase; Provisional; Region: PRK05790 1104321004339 Thiolase are ubiquitous enzymes that catalyze the reversible thiolytic cleavage of 3-ketoacyl-CoA into acyl-CoA and acetyl-CoA, a 2-step reaction involving a covalent intermediate formed with a catalytic cysteine. They are found in prokaryotes and...; Region: thiolase; cd00751 1104321004340 dimer interface [polypeptide binding]; other site 1104321004341 active site 1104321004342 DEAD/DEAH box helicase; Region: DEAD; pfam00270 1104321004343 ATP binding site [chemical binding]; other site 1104321004344 Superfamily II DNA and RNA helicases [DNA replication, recombination, and repair / Transcription / Translation, ribosomal structure and biogenesis]; Region: SrmB; COG0513 1104321004345 putative Mg++ binding site [ion binding]; other site 1104321004346 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 1104321004347 nucleotide binding region [chemical binding]; other site 1104321004348 ATP-binding site [chemical binding]; other site 1104321004349 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 1104321004350 RNA binding surface [nucleotide binding]; other site 1104321004351 Ferredoxin [Energy production and conversion]; Region: COG1146 1104321004352 4Fe-4S binding domain; Region: Fer4; pfam00037 1104321004353 Domain of unknown function (DUF3470); Region: DUF3470; pfam11953 1104321004354 Transcriptional regulators, similar to M. xanthus CarD [Transcription]; Region: COG1329 1104321004355 RNA polymerase factor sigma-32; Reviewed; Region: rpoH2; PRK07500 1104321004356 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1104321004357 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 1104321004358 DNA binding residues [nucleotide binding] 1104321004359 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2258 1104321004360 MOSC domain; Region: MOSC; pfam03473 1104321004361 3-alpha domain; Region: 3-alpha; pfam03475 1104321004362 Putative Zn-dependent protease [General function prediction only]; Region: COG4784 1104321004363 Peptidase family M48; Region: Peptidase_M48; pfam01435 1104321004364 ABC-type thiamine transport system, ATPase component [Coenzyme metabolism]; Region: ThiQ; COG3840 1104321004365 ATP-binding cassette domain of the thiamine transport system; Region: ABC_ThiQ_thiamine_transporter; cd03298 1104321004366 Walker A/P-loop; other site 1104321004367 ATP binding site [chemical binding]; other site 1104321004368 Q-loop/lid; other site 1104321004369 ABC transporter signature motif; other site 1104321004370 Walker B; other site 1104321004371 D-loop; other site 1104321004372 H-loop/switch region; other site 1104321004373 thiamine transporter membrane protein; Reviewed; Region: thiP; PRK09433 1104321004374 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 1104321004375 dimer interface [polypeptide binding]; other site 1104321004376 conserved gate region; other site 1104321004377 putative PBP binding loops; other site 1104321004378 ABC-ATPase subunit interface; other site 1104321004379 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 1104321004380 dimer interface [polypeptide binding]; other site 1104321004381 conserved gate region; other site 1104321004382 putative PBP binding loops; other site 1104321004383 ABC-ATPase subunit interface; other site 1104321004384 ABC-type thiamine transport system, periplasmic component [Coenzyme metabolism]; Region: TbpA; COG4143 1104321004385 thiamine transporter substrate binding subunit; Provisional; Region: tbpA; PRK11205 1104321004386 Thiamine pyrophosphokinase [Coenzyme metabolism]; Region: THI80; COG1564 1104321004387 Thiamine pyrophosphokinase; Region: TPK; cd07995 1104321004388 active site 1104321004389 dimerization interface [polypeptide binding]; other site 1104321004390 thiamine binding site [chemical binding]; other site 1104321004391 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 1104321004392 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1104321004393 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1104321004394 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3750 1104321004395 Predicted N-formylglutamate amidohydrolase [Amino acid transport and metabolism]; Region: COG3931 1104321004396 Predicted integral membrane protein [Function unknown]; Region: COG5480 1104321004397 pyruvate kinase; Provisional; Region: PRK06247 1104321004398 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 1104321004399 domain interfaces; other site 1104321004400 active site 1104321004401 TPR repeat; Region: TPR_11; pfam13414 1104321004402 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 1104321004403 TPR motif; other site 1104321004404 binding surface 1104321004405 50S ribosomal protein L36; Validated; Region: rpmJ; PRK00831 1104321004406 phosphoribosylaminoimidazole carboxylase ATPase subunit; Reviewed; Region: PRK06019 1104321004407 Formate/glycerate dehydrogenases, D-specific 2-hydroxy acid dehydrogenases and related dehydrogenases; Region: FDH_GDH_like; cl17240 1104321004408 NAD binding site [chemical binding]; other site 1104321004409 ATP-grasp domain; Region: ATP-grasp; pfam02222 1104321004410 Phosphoribosylcarboxyaminoimidazole (NCAIR) mutase [Nucleotide transport and metabolism]; Region: PurE; COG0041 1104321004411 Uncharacterized conserved small protein containing a coiled-coil domain [Function unknown]; Region: COG5481 1104321004412 Uncharacterized small protein [Function unknown]; Region: COG5570 1104321004413 putative MFS family transporter protein; Provisional; Region: PRK03633 1104321004414 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 1104321004415 putative substrate translocation pore; other site 1104321004416 Uncharacterized small protein containing a coiled-coil domain [Function unknown]; Region: COG5509 1104321004417 putative NAD(P)H quinone oxidoreductase, PIG3 family; Region: quinone_pig3; TIGR02824 1104321004418 PIG3 p53-inducible quinone oxidoreductase; Region: p53_inducible_oxidoreductase; cd05276 1104321004419 NAD(P) binding site [chemical binding]; other site 1104321004420 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3820 1104321004421 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 1104321004422 CoenzymeA binding site [chemical binding]; other site 1104321004423 subunit interaction site [polypeptide binding]; other site 1104321004424 PHB binding site; other site 1104321004425 Thioesterase-like superfamily; Region: 4HBT_3; pfam13622 1104321004426 Predicted transcriptional regulator [Transcription]; Region: COG2378 1104321004427 HTH domain; Region: HTH_11; pfam08279 1104321004428 WYL domain; Region: WYL; pfam13280 1104321004429 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1104321004430 propionyl-CoA synthetase; Provisional; Region: prpE; PRK10524 1104321004431 Propionyl-CoA synthetase (PrpE); Region: PrpE; cd05967 1104321004432 acyl-activating enzyme (AAE) consensus motif; other site 1104321004433 putative AMP binding site [chemical binding]; other site 1104321004434 putative active site [active] 1104321004435 putative CoA binding site [chemical binding]; other site 1104321004436 Phosphoglycerate kinase; Region: PGK; pfam00162 1104321004437 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 1104321004438 substrate binding site [chemical binding]; other site 1104321004439 hinge regions; other site 1104321004440 ADP binding site [chemical binding]; other site 1104321004441 catalytic site [active] 1104321004442 Glyceraldehyde-3-phosphate dehydrogenase/erythrose-4-phosphate dehydrogenase [Carbohydrate transport and metabolism]; Region: GapA; COG0057 1104321004443 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; smart00846 1104321004444 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 1104321004445 Transketolase [Carbohydrate transport and metabolism]; Region: TktA; COG0021 1104321004446 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 1104321004447 TPP-binding site [chemical binding]; other site 1104321004448 dimer interface [polypeptide binding]; other site 1104321004449 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 1104321004450 PYR/PP interface [polypeptide binding]; other site 1104321004451 dimer interface [polypeptide binding]; other site 1104321004452 TPP binding site [chemical binding]; other site 1104321004453 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 1104321004454 Domain of unknown function (DUF4164); Region: DUF4164; pfam13747 1104321004455 Cell division protein ZapA (stimulator of FtsZ polymerization and Z-ring component) [Cell cycle control, cell division, chromosome partitioning]; Region: zapA; COG3027 1104321004456 5-formyltetrahydrofolate cyclo-ligase [Coenzyme metabolism]; Region: COG0212 1104321004457 Deinococcus radiodurans DR1281 and related proteins, metallophosphatase domain; Region: MPP_DR1281; cd07382 1104321004458 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 1104321004459 putative active site [active] 1104321004460 metal binding site [ion binding]; metal-binding site 1104321004461 homodimer binding site [polypeptide binding]; other site 1104321004462 Membrane protein TerC, possibly involved in tellurium resistance [Inorganic ion transport and metabolism]; Region: TerC; COG0861 1104321004463 Uncharacterized conserved protein [Function unknown]; Region: COG3543 1104321004464 Uncharacterized conserved protein [General function prediction only]; Region: BioY; COG1268 1104321004465 Transcriptional regulators [Transcription]; Region: GntR; COG1802 1104321004466 FCD domain; Region: FCD; pfam07729 1104321004467 hypothetical protein; Validated; Region: PRK00110 1104321004468 50S ribosomal protein L31; Reviewed; Region: rpmE; PRK00528 1104321004469 ABC transporter, permease/ATP-binding protein; Region: MsbA_rel; TIGR02204 1104321004470 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 1104321004471 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1104321004472 Walker A/P-loop; other site 1104321004473 ATP binding site [chemical binding]; other site 1104321004474 Q-loop/lid; other site 1104321004475 ABC transporter signature motif; other site 1104321004476 Walker B; other site 1104321004477 D-loop; other site 1104321004478 H-loop/switch region; other site 1104321004479 hypothetical protein; Validated; Region: PRK09039 1104321004480 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 1104321004481 ligand binding site [chemical binding]; other site 1104321004482 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 1104321004483 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 1104321004484 active site 1104321004485 dimerization interface [polypeptide binding]; other site 1104321004486 elongation factor P; Validated; Region: PRK00529 1104321004487 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 1104321004488 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 1104321004489 RNA binding site [nucleotide binding]; other site 1104321004490 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 1104321004491 RNA binding site [nucleotide binding]; other site 1104321004492 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 1104321004493 Sel1-like repeats; Region: SEL1; smart00671 1104321004494 Sel1-like repeats; Region: SEL1; smart00671 1104321004495 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 1104321004496 active site 1104321004497 thiamine phosphate binding site [chemical binding]; other site 1104321004498 pyrophosphate binding site [ion binding]; other site 1104321004499 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4645 1104321004500 Acyltransferase family; Region: Acyl_transf_3; pfam01757 1104321004501 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5317 1104321004502 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 1104321004503 active site 1104321004504 putative DNA-binding cleft [nucleotide binding]; other site 1104321004505 dimer interface [polypeptide binding]; other site 1104321004506 Holliday junction DNA helicase RuvA; Reviewed; Region: ruvA; PRK00116 1104321004507 RuvA N terminal domain; Region: RuvA_N; pfam01330 1104321004508 RuvA, C-terminal domain; Region: RuvA_C; pfam07499 1104321004509 Holliday junction DNA helicase RuvB; Reviewed; Region: ruvB; PRK00080 1104321004510 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 1104321004511 Walker A motif; other site 1104321004512 ATP binding site [chemical binding]; other site 1104321004513 Walker B motif; other site 1104321004514 Holliday junction DNA helicase ruvB C-terminus; Region: RuvB_C; pfam05491 1104321004515 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 1104321004516 active site 1104321004517 TolQ protein; Region: tolQ; TIGR02796 1104321004518 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 1104321004519 TolR protein; Region: tolR; TIGR02801 1104321004520 translocation protein TolB; Provisional; Region: tolB; PRK05137 1104321004521 TolB amino-terminal domain; Region: TolB_N; pfam04052 1104321004522 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 1104321004523 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 1104321004524 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 1104321004525 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 1104321004526 ligand binding site [chemical binding]; other site 1104321004527 tol-pal system protein YbgF; Region: tol_pal_ybgF; TIGR02795 1104321004528 Tetratricopeptide repeat; Region: TPR_6; pfam13174 1104321004529 tRNA(Ile)-lysidine synthase MesJ [Cell cycle control, cell division, chromosome partitioning]; Region: MesJ; COG0037 1104321004530 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 1104321004531 FtsH Extracellular; Region: FtsH_ext; pfam06480 1104321004532 ATP-dependent metalloprotease FtsH; Region: FtsH_fam; TIGR01241 1104321004533 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 1104321004534 Walker A motif; other site 1104321004535 ATP binding site [chemical binding]; other site 1104321004536 Walker B motif; other site 1104321004537 arginine finger; other site 1104321004538 Peptidase family M41; Region: Peptidase_M41; pfam01434 1104321004539 phosphoglucosamine mutase; Provisional; Region: glmM; PRK14315 1104321004540 GlmM is a bacterial phosphoglucosamine mutase (PNGM) that belongs to the alpha-D-phosphohexomutase superfamily. It is required for the interconversion of glucosamine-6-phosphate and glucosamine-1-phosphate in the biosynthetic pathway of...; Region: GlmM; cd05802 1104321004541 active site 1104321004542 substrate binding site [chemical binding]; other site 1104321004543 metal binding site [ion binding]; metal-binding site 1104321004544 Opacity protein and related surface antigens [Cell envelope biogenesis, outer membrane]; Region: COG3637 1104321004545 potential frameshift: common BLAST hit: gi|256370097|ref|YP_003107608.1| sodium/bile acid transporter family protein 1104321004546 Predicted Na+-dependent transporter [General function prediction only]; Region: COG0385 1104321004547 Sodium Bile acid symporter family; Region: SBF; cl17470 1104321004548 Predicted Na+-dependent transporter [General function prediction only]; Region: COG0385 1104321004549 Sodium Bile acid symporter family; Region: SBF; cl17470 1104321004550 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; cd01494 1104321004551 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1104321004552 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 1104321004553 catalytic residue [active] 1104321004554 D-3-phosphoglycerate dehydrogenase; Provisional; Region: PRK13581 1104321004555 Phosphoglycerate dehydrogenases, NAD-binding and catalytic domains; Region: PGDH_4; cd12173 1104321004556 ligand binding site [chemical binding]; other site 1104321004557 NAD binding site [chemical binding]; other site 1104321004558 dimerization interface [polypeptide binding]; other site 1104321004559 catalytic site [active] 1104321004560 C-terminal ACT (regulatory) domain of D-3-phosphoglycerate dehydrogenase (3PGDH); Region: ACT_3PGDH-xct; cd04902 1104321004561 putative L-serine binding site [chemical binding]; other site 1104321004562 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 1104321004563 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1104321004564 Coenzyme A binding pocket [chemical binding]; other site 1104321004565 Adenylosuccinate synthetase; Region: Adenylsucc_synt; smart00788 1104321004566 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 1104321004567 GDP-binding site [chemical binding]; other site 1104321004568 ACT binding site; other site 1104321004569 IMP binding site; other site 1104321004570 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 1104321004571 metabolite-proton symporter; Region: 2A0106; TIGR00883 1104321004572 putative substrate translocation pore; other site 1104321004573 Uncharacterized family of ferritin-like proteins found in archaea and bacteria; Region: Ferritin_like_AB; cd01045 1104321004574 diiron binding motif [ion binding]; other site 1104321004575 Uncharacterized conserved protein [Function unknown]; Region: COG1633 1104321004576 CCC1-related protein family; Region: CCC1_like_1; cd02437 1104321004577 Predicted glutamine amidotransferase [General function prediction only]; Region: COG0121 1104321004578 Glutamine amidotransferases class-II (Gn-AT)_YafJ-type. YafJ is a glutamine amidotransferase-like protein of unknown function found in prokaryotes, eukaryotes and archaea. YafJ has a conserved structural fold similar to those of other class II...; Region: YafJ; cd01908 1104321004579 putative active site [active] 1104321004580 putative dimer interface [polypeptide binding]; other site 1104321004581 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 1104321004582 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cd00090 1104321004583 dimerization interface [polypeptide binding]; other site 1104321004584 putative DNA binding site [nucleotide binding]; other site 1104321004585 putative Zn2+ binding site [ion binding]; other site 1104321004586 AsnC family; Region: AsnC_trans_reg; pfam01037 1104321004587 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 1104321004588 trimer interface [polypeptide binding]; other site 1104321004589 active site 1104321004590 macrolide transporter subunit MacA; Provisional; Region: PRK11578 1104321004591 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1104321004592 HlyD family secretion protein; Region: HlyD_3; pfam13437 1104321004593 macrolide transporter ATP-binding /permease protein; Provisional; Region: PRK10535 1104321004594 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 1104321004595 Walker A/P-loop; other site 1104321004596 ATP binding site [chemical binding]; other site 1104321004597 Q-loop/lid; other site 1104321004598 ABC transporter signature motif; other site 1104321004599 Walker B; other site 1104321004600 D-loop; other site 1104321004601 H-loop/switch region; other site 1104321004602 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 1104321004603 FtsX-like permease family; Region: FtsX; pfam02687 1104321004604 Predicted periplasmic protein [Function unknown]; Region: COG3698 1104321004605 Predicted periplasmic protein (DUF2233); Region: DUF2233; pfam09992 1104321004606 Periplasmic protein TonB, links inner and outer membranes [Cell envelope biogenesis, outer membrane]; Region: TonB; COG0810 1104321004607 TonB family C-terminal domain; Region: tonB_Cterm; TIGR01352 1104321004608 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 1104321004609 TonB system transport protein ExbD, group 1; Region: ExbD_1; TIGR02803 1104321004610 tonB-system energizer ExbB; Region: exbB; TIGR02797 1104321004611 PRC-barrel domain; Region: PRC; pfam05239 1104321004612 PRC-barrel domain; Region: PRC; pfam05239 1104321004613 Bacterial protein of unknown function (DUF883); Region: DUF883; pfam05957 1104321004614 CHASE3 domain; Region: CHASE3; pfam05227 1104321004615 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 1104321004616 Histidine kinase; Region: HisKA_2; pfam07568 1104321004617 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 1104321004618 ATP binding site [chemical binding]; other site 1104321004619 Mg2+ binding site [ion binding]; other site 1104321004620 G-X-G motif; other site 1104321004621 RNA polymerase sigma factor; Provisional; Region: PRK12516 1104321004622 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1104321004623 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 1104321004624 DNA binding residues [nucleotide binding] 1104321004625 two-component response regulator; Provisional; Region: PRK09191 1104321004626 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1104321004627 active site 1104321004628 phosphorylation site [posttranslational modification] 1104321004629 intermolecular recognition site; other site 1104321004630 dimerization interface [polypeptide binding]; other site 1104321004631 PAS fold; Region: PAS_4; pfam08448 1104321004632 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 1104321004633 HWE histidine kinase; Region: HWE_HK; pfam07536 1104321004634 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 1104321004635 metal binding site 2 [ion binding]; metal-binding site 1104321004636 putative DNA binding helix; other site 1104321004637 metal binding site 1 [ion binding]; metal-binding site 1104321004638 dimer interface [polypeptide binding]; other site 1104321004639 structural Zn2+ binding site [ion binding]; other site 1104321004640 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 1104321004641 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 1104321004642 RNA binding surface [nucleotide binding]; other site 1104321004643 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 1104321004644 active site 1104321004645 RNA polymerase factor sigma-32; Reviewed; Region: PRK06596 1104321004646 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 1104321004647 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1104321004648 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 1104321004649 DNA binding residues [nucleotide binding] 1104321004650 Sortase and related acyltransferases [Cell envelope biogenesis, outer membrane]; Region: COG1247 1104321004651 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1104321004652 Coenzyme A binding pocket [chemical binding]; other site 1104321004653 Malate synthase G (MSG), monomeric enzyme present in some bacteria. In general, malate synthase catalyzes the Claisen condensation of glyoxylate and acetyl-CoA to malyl-CoA , which hydrolyzes to malate and CoA. This reaction is part of the glyoxylate...; Region: malate_synt_G; cd00728 1104321004654 active site 1104321004655 glutamyl-Q tRNA(Asp) synthetase; Reviewed; Region: PRK05710 1104321004656 Glutamyl- and glutaminyl-tRNA synthetases [Translation, ribosomal structure and biogenesis]; Region: GlnS; COG0008 1104321004657 active site 1104321004658 HIGH motif; other site 1104321004659 nucleotide binding site [chemical binding]; other site 1104321004660 active site 1104321004661 KMSKS motif; other site 1104321004662 3-methyladenine DNA glycosylase/8-oxoguanine DNA glycosylase [DNA replication, recombination, and repair]; Region: AlkA; COG0122 1104321004663 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 1104321004664 helix-hairpin-helix signature motif; other site 1104321004665 substrate binding pocket [chemical binding]; other site 1104321004666 active site 1104321004667 Restriction endonuclease [Defense mechanisms]; Region: McrA; COG1403 1104321004668 HNH nucleases; HNH endonuclease signature which is found in viral, prokaryotic, and eukaryotic proteins. The alignment includes members of the large group of homing endonucleases, yeast intron 1 protein, MutS, as well as bacterial colicins, pyocins, and...; Region: HNHc; cd00085 1104321004669 active site 1104321004670 Disulfide bond formation protein DsbB [Posttranslational modification, protein turnover, chaperones]; Region: DsbB; COG1495 1104321004671 Predicted membrane protein [Function unknown]; Region: COG1238 1104321004672 succinic semialdehyde dehydrogenase; Region: PLN02278 1104321004673 Mitochondrial succinate-semialdehyde dehydrogenase and ALDH family members 5A1 and 5F1-like; Region: ALDH_F5_SSADH_GabD; cd07103 1104321004674 tetramerization interface [polypeptide binding]; other site 1104321004675 NAD(P) binding site [chemical binding]; other site 1104321004676 catalytic residues [active] 1104321004677 Transcriptional regulator [Transcription]; Region: IclR; COG1414 1104321004678 IclR helix-turn-helix domain; Region: HTH_IclR; pfam09339 1104321004679 Bacterial transcriptional regulator; Region: IclR; pfam01614 1104321004680 choline dehydrogenase; Validated; Region: PRK02106 1104321004681 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 1104321004682 Uncharacterized conserved protein [Function unknown]; Region: COG5591 1104321004683 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 1104321004684 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 1104321004685 Walker A/P-loop; other site 1104321004686 ATP binding site [chemical binding]; other site 1104321004687 Q-loop/lid; other site 1104321004688 ABC transporter signature motif; other site 1104321004689 Walker B; other site 1104321004690 D-loop; other site 1104321004691 H-loop/switch region; other site 1104321004692 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 1104321004693 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 1104321004694 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1104321004695 TM-ABC transporter signature motif; other site 1104321004696 Periplasmic binding proteins specific to rhizopines; Region: PBP1_rhizopine_binding_like; cd06301 1104321004697 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 1104321004698 putative ligand binding site [chemical binding]; other site 1104321004699 short chain dehydrogenase; Provisional; Region: PRK06841 1104321004700 classical (c) SDRs; Region: SDR_c; cd05233 1104321004701 NAD(P) binding site [chemical binding]; other site 1104321004702 active site 1104321004703 Dihydroxyacetone kinase [Carbohydrate transport and metabolism]; Region: DAK1; COG2376 1104321004704 dihydroxyacetone kinase subunit DhaK; Provisional; Region: PRK14481; cl10557 1104321004705 DAK2 domain; Region: Dak2; pfam02734 1104321004706 Transcriptional regulator, contains sigma factor-related N-terminal domain [Transcription]; Region: DeoR; COG2390 1104321004707 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 1104321004708 DNA binding residues [nucleotide binding] 1104321004709 Putative sugar-binding domain; Region: Sugar-bind; pfam04198 1104321004710 dihydroxyacetone kinase subunit DhaK; Provisional; Region: PRK14481; cl10557 1104321004711 Dihydroxyacetone kinase [Carbohydrate transport and metabolism]; Region: DAK1; COG2376 1104321004712 Dihydroxyacetone kinase [Carbohydrate transport and metabolism]; Region: DAK1; COG2376 1104321004713 DAK2 domain; Region: Dak2; cl03685 1104321004714 Peptidase propeptide and YPEB domain; Region: PepSY_2; pfam13670 1104321004715 Patatins and Phospholipases; Region: Patatin_and_cPLA2; cl11396 1104321004716 active site 1104321004717 nucleophile elbow; other site 1104321004718 Opacity protein and related surface antigens [Cell envelope biogenesis, outer membrane]; Region: COG3637 1104321004719 Multiple antibiotic transporter [Intracellular trafficking and secretion]; Region: MarC; COG2095 1104321004720 Domain of unknown function (DUF4104); Region: DUF4104; pfam13372 1104321004721 7-alpha-hydroxysteroid dehydrogenase; Validated; Region: PRK06113 1104321004722 7 alpha-hydroxysteroid dehydrogenase (7 alpha-HSDH), classical (c) SDRs; Region: 7_alpha_HSDH_SDR_c; cd05365 1104321004723 NAD binding site [chemical binding]; other site 1104321004724 substrate binding site [chemical binding]; other site 1104321004725 homotetramer interface [polypeptide binding]; other site 1104321004726 homodimer interface [polypeptide binding]; other site 1104321004727 active site 1104321004728 7-alpha-hydroxysteroid dehydrogenase; Validated; Region: PRK06113 1104321004729 7 alpha-hydroxysteroid dehydrogenase (7 alpha-HSDH), classical (c) SDRs; Region: 7_alpha_HSDH_SDR_c; cd05365 1104321004730 NAD binding site [chemical binding]; other site 1104321004731 substrate binding site [chemical binding]; other site 1104321004732 homotetramer interface [polypeptide binding]; other site 1104321004733 homodimer interface [polypeptide binding]; other site 1104321004734 active site 1104321004735 isocitrate lyase; Provisional; Region: PRK15063 1104321004736 Members of the ICL/PEPM enzyme family catalyze either P-C or C-C bond formation/cleavage. Known members are phosphoenolpyruvate mutase (PEPM), phosphonopyruvate hydrolase (PPH), carboxyPEP mutase (CPEP mutase), oxaloacetate hydrolase (OAH), isocitrate...; Region: ICL_PEPM; cd00377 1104321004737 tetramer interface [polypeptide binding]; other site 1104321004738 active site 1104321004739 Mg2+/Mn2+ binding site [ion binding]; other site 1104321004740 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 1104321004741 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 1104321004742 non-specific DNA binding site [nucleotide binding]; other site 1104321004743 salt bridge; other site 1104321004744 sequence-specific DNA binding site [nucleotide binding]; other site 1104321004745 Predicted transcriptional regulator [General function prediction only]; Region: COG3800 1104321004746 Domain of unknown function (DUF955); Region: DUF955; pfam06114 1104321004747 Predicted transcriptional regulator (DUF2083); Region: DUF2083; pfam09856 1104321004748 putrescine transporter subunit: periplasmic-binding component of ABC superfamily; Provisional; Region: PRK10682 1104321004749 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 1104321004750 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 1104321004751 ATP-binding cassette domain of the polyamine transporter; Region: ABC_PotA_N; cd03300 1104321004752 Walker A/P-loop; other site 1104321004753 ATP binding site [chemical binding]; other site 1104321004754 Q-loop/lid; other site 1104321004755 ABC transporter signature motif; other site 1104321004756 Walker B; other site 1104321004757 D-loop; other site 1104321004758 H-loop/switch region; other site 1104321004759 TOBE domain; Region: TOBE_2; pfam08402 1104321004760 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 1104321004761 dimer interface [polypeptide binding]; other site 1104321004762 conserved gate region; other site 1104321004763 putative PBP binding loops; other site 1104321004764 ABC-ATPase subunit interface; other site 1104321004765 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 1104321004766 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 1104321004767 dimer interface [polypeptide binding]; other site 1104321004768 conserved gate region; other site 1104321004769 putative PBP binding loops; other site 1104321004770 ABC-ATPase subunit interface; other site 1104321004771 Uncharacterized protein involved in outer membrane biogenesis [Cell envelope biogenesis, outer membrane]; Region: AsmA; COG2982 1104321004772 AsmA-like C-terminal region; Region: AsmA_2; pfam13502 1104321004773 PAS domain; Region: PAS_8; pfam13188 1104321004774 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 1104321004775 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 1104321004776 putative active site [active] 1104321004777 heme pocket [chemical binding]; other site 1104321004778 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 1104321004779 dimer interface [polypeptide binding]; other site 1104321004780 phosphorylation site [posttranslational modification] 1104321004781 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 1104321004782 ATP binding site [chemical binding]; other site 1104321004783 Mg2+ binding site [ion binding]; other site 1104321004784 G-X-G motif; other site 1104321004785 Glycosyltransferase family 25 [lipooligosaccharide (LOS) biosynthesis protein] is a family of glycosyltransferases involved in LOS biosynthesis. The members include the beta(1,4) galactosyltransferases: Lgt2 of Moraxella catarrhalis, LgtB and LgtE of...; Region: Glyco_transf_25; cd06532 1104321004786 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 1104321004787 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 1104321004788 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 1104321004789 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 1104321004790 3-amino-5-hydroxybenzoic acid synthase family (AHBA_syn). AHBA_syn family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The members of this CD are involved in various biosynthetic pathways for secondary...; Region: AHBA_syn; cd00616 1104321004791 inhibitor-cofactor binding pocket; inhibition site 1104321004792 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1104321004793 catalytic residue [active] 1104321004794 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1104321004795 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1104321004796 active site 1104321004797 phosphorylation site [posttranslational modification] 1104321004798 intermolecular recognition site; other site 1104321004799 dimerization interface [polypeptide binding]; other site 1104321004800 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 1104321004801 DNA binding site [nucleotide binding] 1104321004802 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5385 1104321004803 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5400 1104321004804 chromosome segregation protein SMC, primarily archaeal type; Region: SMC_prok_A; TIGR02169 1104321004805 Predicted acetyltransferase [General function prediction only]; Region: COG2388 1104321004806 Protein of unknown function (DUF1153); Region: DUF1153; pfam06627 1104321004807 Predicted tRNA(5-methylaminomethyl-2-thiouridylate) methyltransferase, contains the PP-loop ATPase domain [Translation, ribosomal structure and biogenesis]; Region: TrmU; COG0482 1104321004808 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 1104321004809 Ligand Binding Site [chemical binding]; other site 1104321004810 rRNA methylases [Translation, ribosomal structure and biogenesis]; Region: SpoU; COG0566 1104321004811 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; smart00967 1104321004812 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 1104321004813 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cd00090 1104321004814 putative DNA binding site [nucleotide binding]; other site 1104321004815 putative Zn2+ binding site [ion binding]; other site 1104321004816 potential frameshift: common BLAST hit: gi|340791192|ref|YP_004756657.1| dipeptide ABC transporter extracellular solute-binding protein 1104321004817 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 1104321004818 The substrate-binding domain of an ABC-type nickel/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like; cl01709 1104321004819 The substrate-binding domain of an ABC-type nickel/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like; cl01709 1104321004820 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 1104321004821 The substrate-binding domain of an ABC-type nickel/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like; cl01709 1104321004822 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 1104321004823 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 1104321004824 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 1104321004825 dimer interface [polypeptide binding]; other site 1104321004826 conserved gate region; other site 1104321004827 putative PBP binding loops; other site 1104321004828 ABC-ATPase subunit interface; other site 1104321004829 dipeptide transporter; Provisional; Region: PRK10913 1104321004830 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 1104321004831 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 1104321004832 dimer interface [polypeptide binding]; other site 1104321004833 conserved gate region; other site 1104321004834 putative PBP binding loops; other site 1104321004835 ABC-ATPase subunit interface; other site 1104321004836 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppF; COG1124 1104321004837 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1104321004838 Walker A/P-loop; other site 1104321004839 ATP binding site [chemical binding]; other site 1104321004840 Q-loop/lid; other site 1104321004841 ABC transporter signature motif; other site 1104321004842 Walker B; other site 1104321004843 D-loop; other site 1104321004844 H-loop/switch region; other site 1104321004845 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; pfam08352 1104321004846 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1104321004847 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppF; COG1124 1104321004848 Walker A/P-loop; other site 1104321004849 ATP binding site [chemical binding]; other site 1104321004850 Q-loop/lid; other site 1104321004851 ABC transporter signature motif; other site 1104321004852 Walker B; other site 1104321004853 D-loop; other site 1104321004854 H-loop/switch region; other site 1104321004855 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; pfam08352 1104321004856 choline ABC transporter, ATP-binding protein; Region: ABC_choXWV_ATP; TIGR03415 1104321004857 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1104321004858 Walker A/P-loop; other site 1104321004859 ATP binding site [chemical binding]; other site 1104321004860 Q-loop/lid; other site 1104321004861 ABC transporter signature motif; other site 1104321004862 Walker B; other site 1104321004863 D-loop; other site 1104321004864 H-loop/switch region; other site 1104321004865 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 1104321004866 dimer interface [polypeptide binding]; other site 1104321004867 conserved gate region; other site 1104321004868 putative PBP binding loops; other site 1104321004869 ABC-ATPase subunit interface; other site 1104321004870 ABC-type proline/glycine betaine transport systems, periplasmic components [Amino acid transport and metabolism]; Region: ProX; COG2113 1104321004871 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5345 1104321004872 Mitochondrial small ribosomal subunit Rsm22; Region: Rsm22; cl17847 1104321004873 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 1104321004874 putative substrate translocation pore; other site 1104321004875 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1104321004876 Transcriptional regulators [Transcription]; Region: MarR; COG1846 1104321004877 MarR family; Region: MarR_2; pfam12802 1104321004878 leucine-responsive transcriptional regulator; Provisional; Region: PRK11169 1104321004879 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cd00090 1104321004880 putative DNA binding site [nucleotide binding]; other site 1104321004881 putative Zn2+ binding site [ion binding]; other site 1104321004882 AsnC family; Region: AsnC_trans_reg; pfam01037 1104321004883 anthranilate synthase; Provisional; Region: PRK13566 1104321004884 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 1104321004885 chorismate binding enzyme; Region: Chorismate_bind; pfam00425 1104321004886 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 1104321004887 glutamine binding [chemical binding]; other site 1104321004888 catalytic triad [active] 1104321004889 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 1104321004890 Cation efflux family; Region: Cation_efflux; pfam01545 1104321004891 2-isopropylmalate synthase; Validated; Region: PRK03739 1104321004892 Mycobacterium tuberculosis LeuA3 and related proteins, N-terminal catalytic TIM barrel domain; Region: DRE_TIM_LeuA; cd07942 1104321004893 active site 1104321004894 catalytic residues [active] 1104321004895 metal binding site [ion binding]; metal-binding site 1104321004896 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; smart00917 1104321004897 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 1104321004898 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 1104321004899 active site 1104321004900 metal binding site [ion binding]; metal-binding site 1104321004901 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_21; cd04680 1104321004902 nudix motif; other site 1104321004903 Outer membrane protein W [Cell envelope biogenesis, outer membrane]; Region: OmpW; COG3047 1104321004904 Predicted glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: ECM4; COG0435 1104321004905 Glutathione S-transferase, N-terminal domain; Region: GST_N_2; pfam13409 1104321004906 C-terminal, alpha helical domain of Class Omega-like Glutathione S-transferases; Region: GST_C_Omega_like; cd03190 1104321004907 putative dimer interface [polypeptide binding]; other site 1104321004908 N-terminal domain interface [polypeptide binding]; other site 1104321004909 putative substrate binding pocket (H-site) [chemical binding]; other site 1104321004910 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 1104321004911 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1104321004912 Coenzyme A binding pocket [chemical binding]; other site 1104321004913 Protein of unknown function (DUF1355); Region: DUF1355; cl17712 1104321004914 N-terminal double-transmembrane domain; Region: two_anch; TIGR02226 1104321004915 A4 beta-galactosidase middle domain: a type 1 glutamine amidotransferase (GATase1)-like domain; Region: A4_beta-galactosidase_middle_domain; cd03143 1104321004916 Domain of unknown function (DUF4159); Region: DUF4159; pfam13709 1104321004917 Uncharacterized conserved protein (some members contain a von Willebrand factor type A (vWA) domain) [General function prediction only]; Region: COG1721 1104321004918 Protein of unknown function DUF58; Region: DUF58; pfam01882 1104321004919 MoxR-like ATPases [General function prediction only]; Region: COG0714 1104321004920 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 1104321004921 ATP binding site [chemical binding]; other site 1104321004922 Walker B motif; other site 1104321004923 arginine finger; other site 1104321004924 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3816 1104321004925 Protein of unknown function (DUF1285); Region: DUF1285; pfam06938 1104321004926 Coenzyme A pyrophosphatase (CoAse), a member of the Nudix hydrolase superfamily, functions to catalyze the elimination of oxidized inactive CoA, which can inhibit CoA-utilizing enzymes. The need of CoAses mainly arises under conditions of oxidative...; Region: CoAse; cd03426 1104321004927 putative active site [active] 1104321004928 putative CoA binding site [chemical binding]; other site 1104321004929 nudix motif; other site 1104321004930 metal binding site [ion binding]; metal-binding site 1104321004931 tRNA nucleotidyltransferase/poly(A) polymerase [Translation, ribosomal structure and biogenesis]; Region: PcnB; COG0617 1104321004932 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 1104321004933 active site 1104321004934 NTP binding site [chemical binding]; other site 1104321004935 metal binding triad [ion binding]; metal-binding site 1104321004936 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 1104321004937 Aspartyl/asparaginyl beta-hydroxylase and related dioxygenases [Posttranslational modification, protein turnover, chaperones]; Region: COG3555 1104321004938 Aspartyl/Asparaginyl beta-hydroxylase; Region: Asp_Arg_Hydrox; cl17820 1104321004939 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1104321004940 Coenzyme A binding pocket [chemical binding]; other site 1104321004941 coproporphyrinogen III oxidase; Provisional; Region: PRK05330 1104321004942 Coproporphyrinogen III oxidase; Region: Coprogen_oxidas; cl17752 1104321004943 Purine nucleoside permease [Nucleotide transport and metabolism]; Region: NUP; COG5042 1104321004944 Predicted rRNA methylase (SpoU class) [Translation, ribosomal structure and biogenesis]; Region: CspR; COG0219 1104321004945 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 1104321004946 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 1104321004947 ATP-binding cassette domain of the bacterial lipid flippase and related proteins, subfamily C; Region: ABCC_MsbA; cd03251 1104321004948 Walker A/P-loop; other site 1104321004949 ATP binding site [chemical binding]; other site 1104321004950 Q-loop/lid; other site 1104321004951 ABC transporter signature motif; other site 1104321004952 Walker B; other site 1104321004953 D-loop; other site 1104321004954 H-loop/switch region; other site 1104321004955 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 1104321004956 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 1104321004957 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1104321004958 Walker A/P-loop; other site 1104321004959 ATP binding site [chemical binding]; other site 1104321004960 Q-loop/lid; other site 1104321004961 ABC transporter signature motif; other site 1104321004962 Walker B; other site 1104321004963 D-loop; other site 1104321004964 H-loop/switch region; other site 1104321004965 Ubiquitinol-cytochrome C reductase Fe-S subunit TAT signal; Region: UCR_Fe-S_N; pfam10399 1104321004966 ubiquinol-cytochrome c reductase, iron-sulfur subunit; Region: Rieske_proteo; TIGR01416 1104321004967 Iron-sulfur protein (ISP) component of the bc(1) complex family, Rieske domain; The Rieske domain is a [2Fe-2S] cluster binding domain involved in electron transfer. The bc(1) complex is a multisubunit enzyme found in many different organisms including...; Region: Rieske_cytochrome_bc1; cd03470 1104321004968 [2Fe-2S] cluster binding site [ion binding]; other site 1104321004969 cytochrome b; Provisional; Region: CYTB; MTH00191 1104321004970 Cytochrome b (N-terminus)/b6/petB: Cytochrome b is a subunit of cytochrome bc1, an 11-subunit mitochondrial respiratory enzyme. Cytochrome b spans the mitochondrial membrane with 8 transmembrane helices (A-H) in eukaryotes. In plants and cyanobacteria; Region: Cytochrome_b_N; cd00284 1104321004971 Qi binding site; other site 1104321004972 intrachain domain interface; other site 1104321004973 interchain domain interface [polypeptide binding]; other site 1104321004974 heme bH binding site [chemical binding]; other site 1104321004975 heme bL binding site [chemical binding]; other site 1104321004976 Qo binding site; other site 1104321004977 Cytochrome b(C-terminus)/b6/petD: Cytochrome b is a subunit of cytochrome bc1, an 11-subunit mitochondrial respiratory enzyme. Cytochrome b spans the mitochondrial membrane with 8 transmembrane helices (A-H) in eukaryotes. In plants and cyanobacteria; Region: cytochrome_b_C; cd00290 1104321004978 interchain domain interface [polypeptide binding]; other site 1104321004979 intrachain domain interface; other site 1104321004980 Qi binding site; other site 1104321004981 Qo binding site; other site 1104321004982 Cytochrome C1 family; Region: Cytochrom_C1; pfam02167 1104321004983 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1104321004984 active site 1104321004985 YdeM is a Bacillus subtilis protein that belongs to a family of prokaryotic proteins of unkown function. YdeM has sequence similarity to the hot-dog fold of (R)-specific enoyl-CoA hydratase. Other enzymes with this fold include the peroxisomal...; Region: YdeM; cd03454 1104321004986 putative active site [active] 1104321004987 putative catalytic site [active] 1104321004988 YdeM is a Bacillus subtilis protein that belongs to a family of prokaryotic proteins of unkown function. YdeM has sequence similarity to the hot-dog fold of (R)-specific enoyl-CoA hydratase. Other enzymes with this fold include the peroxisomal...; Region: YdeM; cd03454 1104321004989 putative active site [active] 1104321004990 putative catalytic site [active] 1104321004991 GTP-binding protein YchF; Reviewed; Region: PRK09601 1104321004992 YchF GTPase; Region: YchF; cd01900 1104321004993 G1 box; other site 1104321004994 GTP/Mg2+ binding site [chemical binding]; other site 1104321004995 Switch I region; other site 1104321004996 G2 box; other site 1104321004997 Switch II region; other site 1104321004998 G3 box; other site 1104321004999 G4 box; other site 1104321005000 G5 box; other site 1104321005001 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 1104321005002 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 1104321005003 putative active site [active] 1104321005004 catalytic residue [active] 1104321005005 50S ribosomal protein L25/general stress protein Ctc; Reviewed; Region: PRK05618 1104321005006 Ribosomal L25/TL5/CTC N-terminal 5S rRNA binding domain; Region: Ribosomal_L25_TL5_CTC; cd00495 1104321005007 5S rRNA interface [nucleotide binding]; other site 1104321005008 CTC domain interface [polypeptide binding]; other site 1104321005009 L16 interface [polypeptide binding]; other site 1104321005010 potential frameshift: common BLAST hit: gi|82700342|ref|YP_414916.1| ATP/GTP-binding domain-containing protein 1104321005011 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 1104321005012 Walker A motif; other site 1104321005013 ATP binding site [chemical binding]; other site 1104321005014 Walker B motif; other site 1104321005015 potential frameshift: common BLAST hit: gi|189024648|ref|YP_001935416.1| ATP/GTP-binding protein 1104321005016 HerA helicase [Replication, recombination, and repair]; Region: COG0433 1104321005017 ribose-phosphate pyrophosphokinase; Provisional; Region: PRK01259 1104321005018 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 1104321005019 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1104321005020 active site 1104321005021 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 1104321005022 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 1104321005023 A family including aminopeptidase P, aminopeptidase M, and prolidase. Also known as metallopeptidase family M24. This family of enzymes is able to cleave amido-, imido- and amidino-containing bonds. Members exibit relatively narrow substrate specificity...; Region: APP_MetAP; cd01066 1104321005024 active site 1104321005025 Multicopper polyphenol oxidase (laccase) [Secondary metabolites biosynthesis, transport and catabolism]; Region: yfiH; COG1496 1104321005026 Multi-copper polyphenol oxidoreductase laccase; Region: Cu-oxidase_4; pfam02578 1104321005027 Uncharacterized conserved protein [Function unknown]; Region: COG1565 1104321005028 prolipoprotein diacylglyceryl transferase; Reviewed; Region: PRK00052 1104321005029 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2960 1104321005030 Uncharacterized conserved protein [Function unknown]; Region: COG5465 1104321005031 tRNA-binding-domain-containing CsaA-like proteins. CsaA is a molecular chaperone with export related activities. CsaA has a putative tRNA binding activity. The functional unit of CsaA is a homodimer and this domain acts as a dimerization domain; Region: tRNA_bind_CsaA; cd02798 1104321005032 dimer interface [polypeptide binding]; other site 1104321005033 putative tRNA-binding site [nucleotide binding]; other site 1104321005034 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cl00080 1104321005035 dimer interface [polypeptide binding]; other site 1104321005036 phosphorylation site [posttranslational modification] 1104321005037 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 1104321005038 ATP binding site [chemical binding]; other site 1104321005039 Mg2+ binding site [ion binding]; other site 1104321005040 G-X-G motif; other site 1104321005041 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1104321005042 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1104321005043 active site 1104321005044 phosphorylation site [posttranslational modification] 1104321005045 intermolecular recognition site; other site 1104321005046 dimerization interface [polypeptide binding]; other site 1104321005047 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 1104321005048 DNA binding site [nucleotide binding] 1104321005049 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 1104321005050 MarR family; Region: MarR_2; pfam12802 1104321005051 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 1104321005052 BA14K-like protein; Region: BA14K; pfam07886 1104321005053 Cold-Shock Protein (CSP) contains an S1-like cold-shock domain (CSD) that is found in eukaryotes, prokaryotes, and archaea. CSP's include the major cold-shock proteins CspA and CspB in bacteria and the eukaryotic gene regulatory factor Y-box...; Region: CSP_CDS; cd04458 1104321005054 DNA-binding site [nucleotide binding]; DNA binding site 1104321005055 RNA-binding motif; other site 1104321005056 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 1104321005057 N-acetyl-D-glucosamine binding site [chemical binding]; other site 1104321005058 catalytic residue [active] 1104321005059 excinuclease ABC subunit B; Provisional; Region: PRK05298 1104321005060 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 1104321005061 ATP binding site [chemical binding]; other site 1104321005062 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 1104321005063 nucleotide binding region [chemical binding]; other site 1104321005064 ATP-binding site [chemical binding]; other site 1104321005065 Ultra-violet resistance protein B; Region: UvrB; pfam12344 1104321005066 UvrB/uvrC motif; Region: UVR; pfam02151 1104321005067 Uncharacterized protein with a bacterial SH3 domain homologue [Function unknown]; Region: COG4991 1104321005068 Bacterial SH3 domain; Region: SH3_3; pfam08239 1104321005069 Brown fat-inducible thioesterase (BFIT). Brain acyl-CoA hydrolase (BACH). These enzymes deacylate long-chain fatty acids by hydrolyzing acyl-CoA thioesters to free fatty acids and CoA-SH. Eukaryotic members of this family are expressed in brain, testis; Region: BFIT_BACH; cd03442 1104321005070 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3921 1104321005071 Extensin-like protein C-terminus; Region: Extensin-like_C; pfam06904 1104321005072 Protein of unknown function, DUF486; Region: DUF486; cl01236 1104321005073 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 1104321005074 EamA-like transporter family; Region: EamA; pfam00892 1104321005075 EamA-like transporter family; Region: EamA; pfam00892 1104321005076 Protein of unknown function (DUF1176); Region: DUF1176; pfam06674 1104321005077 Protein of unknown function (DUF1176); Region: DUF1176; pfam06674 1104321005078 transcription elongation factor GreA; Reviewed; Region: greA; PRK00226 1104321005079 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 1104321005080 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 1104321005081 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 1104321005082 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1104321005083 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 1104321005084 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cd00090 1104321005085 putative DNA binding site [nucleotide binding]; other site 1104321005086 putative Zn2+ binding site [ion binding]; other site 1104321005087 AsnC family; Region: AsnC_trans_reg; pfam01037 1104321005088 Trk-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: TrkG; COG0168 1104321005089 potassium uptake protein, TrkH family; Region: 2a38; TIGR00933 1104321005090 thioredoxin-disulfide reductase; Region: TRX_reduct; TIGR01292 1104321005091 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 1104321005092 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1104321005093 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1104321005094 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 1104321005095 putative effector binding pocket; other site 1104321005096 dimerization interface [polypeptide binding]; other site 1104321005097 aspartate aminotransferase; Provisional; Region: PRK05764 1104321005098 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 1104321005099 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1104321005100 homodimer interface [polypeptide binding]; other site 1104321005101 catalytic residue [active] 1104321005102 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 1104321005103 GST_N family, unknown subfamily 4; composed of uncharacterized bacterial proteins with similarity to GSTs. GSTs are cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with a wide range of...; Region: GST_N_4; cd03056 1104321005104 putative C-terminal domain interface [polypeptide binding]; other site 1104321005105 putative GSH binding site (G-site) [chemical binding]; other site 1104321005106 putative dimer interface [polypeptide binding]; other site 1104321005107 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cl02776 1104321005108 N-terminal domain interface [polypeptide binding]; other site 1104321005109 dimer interface [polypeptide binding]; other site 1104321005110 substrate binding pocket (H-site) [chemical binding]; other site 1104321005111 Cold-Shock Protein (CSP) contains an S1-like cold-shock domain (CSD) that is found in eukaryotes, prokaryotes, and archaea. CSP's include the major cold-shock proteins CspA and CspB in bacteria and the eukaryotic gene regulatory factor Y-box...; Region: CSP_CDS; cd04458 1104321005112 DNA-binding site [nucleotide binding]; DNA binding site 1104321005113 RNA-binding motif; other site 1104321005114 NUDIX domain; Region: NUDIX; pfam00293 1104321005115 nudix motif; other site 1104321005116 ABC-type uncharacterized transport system, permease and ATPase components [General function prediction only]; Region: COG4178 1104321005117 ABC transporter transmembrane region 2; Region: ABC_membrane_2; cl00549 1104321005118 ATP-binding cassette domain of peroxisomal transporter, subfamily D; Region: ABCD_peroxisomal_ALDP; cd03223 1104321005119 carbamoyl phosphate synthase large subunit; Reviewed; Region: carB; PRK05294 1104321005120 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 1104321005121 ATP-grasp domain; Region: ATP-grasp_4; cl17255 1104321005122 Carbamoyl-phosphate synthetase large chain, oligomerisation domain; Region: CPSase_L_D3; pfam02787 1104321005123 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 1104321005124 ATP-grasp domain; Region: ATP-grasp_4; cl17255 1104321005125 Methylglyoxal synthase-like domain from type II glutamine-dependent carbamoyl phosphate synthetase (CSP). CSP, a CarA and CarB heterodimer, catalyzes the production of carbamoyl phosphate which is subsequently employed in the metabolic pathways...; Region: MGS_CPS_II; cd01424 1104321005126 IMP binding site; other site 1104321005127 dimer interface [polypeptide binding]; other site 1104321005128 partial ornithine binding site; other site 1104321005129 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 1104321005130 LytTr DNA-binding domain; Region: LytTR; pfam04397 1104321005131 Predicted membrane protein [Function unknown]; Region: COG5395 1104321005132 Predicted metalloprotease [General function prediction only]; Region: COG2321 1104321005133 Putative neutral zinc metallopeptidase; Region: Zn_peptidase; pfam04228 1104321005134 carbamoyl phosphate synthase small subunit; Reviewed; Region: PRK12564 1104321005135 Carbamoyl-phosphate synthase small chain, CPSase domain; Region: CPSase_sm_chain; smart01097 1104321005136 Small chain of the glutamine-dependent form of carbamoyl phosphate synthase, CPSase II; Region: GATase1_CPSase; cd01744 1104321005137 catalytic site [active] 1104321005138 subunit interface [polypeptide binding]; other site 1104321005139 Uncharacterized conserved protein [Function unknown]; Region: COG1610 1104321005140 Na+/phosphate symporter [Inorganic ion transport and metabolism]; Region: NptA; COG1283 1104321005141 Na+/Pi-cotransporter; Region: Na_Pi_cotrans; pfam02690 1104321005142 Na+/Pi-cotransporter; Region: Na_Pi_cotrans; pfam02690 1104321005143 PhoU domain; Region: PhoU; pfam01895 1104321005144 PhoU domain; Region: PhoU; pfam01895 1104321005145 DNA primase; Validated; Region: dnaG; PRK05667 1104321005146 CHC2 zinc finger; Region: zf-CHC2; pfam01807 1104321005147 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 1104321005148 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 1104321005149 active site 1104321005150 metal binding site [ion binding]; metal-binding site 1104321005151 interdomain interaction site; other site 1104321005152 RNA polymerase sigma factor RpoD; Validated; Region: PRK05658 1104321005153 Sigma-70 factor, region 1.1; Region: Sigma70_r1_1; pfam03979 1104321005154 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 1104321005155 Sigma-70, non-essential region; Region: Sigma70_ner; pfam04546 1104321005156 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1104321005157 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 1104321005158 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 1104321005159 DNA binding residues [nucleotide binding] 1104321005160 Uncharacterized conserved protein [Function unknown]; Region: COG5453 1104321005161 hypothetical protein; Provisional; Region: PRK05170 1104321005162 Uncharacterized conserved protein [Function unknown]; Region: COG2968 1104321005163 Protein of unknown function (DUF541); Region: SIMPL; pfam04402 1104321005164 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 1104321005165 active site 1104321005166 Int/Topo IB signature motif; other site 1104321005167 Invasion associated locus B (IalB) protein; Region: IalB; cl02207 1104321005168 outer membrane protein; Region: OMP_w_GlyGly; TIGR04219 1104321005169 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 1104321005170 Linear amide C-N hydrolases, choloylglycine hydrolase family; Region: CBAH; pfam02275 1104321005171 active site 1104321005172 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2899 1104321005173 Isochorismatase family; Region: Isochorismatase; pfam00857 1104321005174 Nicotinamidase/pyrazinamidase (PZase). Nicotinamidase, a ubiquitous enzyme in prokaryotes, converts nicotinamide to nicotinic acid (niacin) and ammonia, which in turn can be recycled to make nicotinamide adenine dinucleotide (NAD). The same enzyme is...; Region: nicotinamidase; cd01011 1104321005175 catalytic triad [active] 1104321005176 metal binding site [ion binding]; metal-binding site 1104321005177 conserved cis-peptide bond; other site 1104321005178 Uncharacterized Zn-ribbon-containing protein involved in phosphonate metabolism [Inorganic ion transport and metabolism]; Region: PhnA; COG2824 1104321005179 PhnA protein; Region: PhnA; pfam03831 1104321005180 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 1104321005181 Iron-sulfur binding ferredoxin reductase (FNR) proteins combine the FAD and NAD(P) binding regions of FNR with an iron-sulfur binding cluster domain. Ferredoxin-NADP+ (oxido)reductase is an FAD-containing enzyme that catalyzes the reversible electron...; Region: FNR_iron_sulfur_binding_1; cd06215 1104321005182 FAD binding pocket [chemical binding]; other site 1104321005183 FAD binding motif [chemical binding]; other site 1104321005184 phosphate binding motif [ion binding]; other site 1104321005185 beta-alpha-beta structure motif; other site 1104321005186 NAD binding pocket [chemical binding]; other site 1104321005187 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 1104321005188 catalytic loop [active] 1104321005189 iron binding site [ion binding]; other site 1104321005190 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 1104321005191 Rieske non-heme iron oxygenase (RO) family, N-terminal Rieske domain of the oxygenase alpha subunit; The RO family comprise a large class of aromatic ring-hydroxylating dioxygenases found predominantly in microorganisms. These enzymes enable...; Region: Rieske_RO_Alpha_N; cd03469 1104321005192 [2Fe-2S] cluster binding site [ion binding]; other site 1104321005193 C-terminal catalytic domain of GbcA (glycine betaine catabolism A) from Pseudomonas aeruginosa PAO1 and related aromatic ring hydroxylating dioxygenases; Region: RHO_alpha_C_GbcA-like; cd08884 1104321005194 putative alpha subunit interface [polypeptide binding]; other site 1104321005195 putative active site [active] 1104321005196 putative substrate binding site [chemical binding]; other site 1104321005197 Fe binding site [ion binding]; other site 1104321005198 Protein of unknown function (DUF1498); Region: DUF1498; pfam07385 1104321005199 Lysophospholipase [Lipid metabolism]; Region: PldB; COG2267 1104321005200 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 1104321005201 PGAP1-like protein; Region: PGAP1; pfam07819 1104321005202 putative ABC transporter ATP-binding protein; Reviewed; Region: PRK11819 1104321005203 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1104321005204 Walker A/P-loop; other site 1104321005205 ATP binding site [chemical binding]; other site 1104321005206 Q-loop/lid; other site 1104321005207 ABC transporter signature motif; other site 1104321005208 Walker B; other site 1104321005209 D-loop; other site 1104321005210 H-loop/switch region; other site 1104321005211 ABC transporter; Region: ABC_tran_2; pfam12848 1104321005212 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1104321005213 Trans-aconitate methyltransferase [General function prediction only]; Region: Tam; COG4106 1104321005214 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 1104321005215 S-adenosylmethionine binding site [chemical binding]; other site 1104321005216 alpha-ketoglutarate transporter; Provisional; Region: PRK10406 1104321005217 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 1104321005218 putative substrate translocation pore; other site 1104321005219 Uncharacterized conserved protein [Function unknown]; Region: COG5586 1104321005220 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cd00090 1104321005221 dimerization interface [polypeptide binding]; other site 1104321005222 putative DNA binding site [nucleotide binding]; other site 1104321005223 putative Zn2+ binding site [ion binding]; other site 1104321005224 Methyltransferase domain; Region: Methyltransf_23; pfam13489 1104321005225 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 1104321005226 S-adenosylmethionine binding site [chemical binding]; other site 1104321005227 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 1104321005228 FAD binding site [chemical binding]; other site 1104321005229 Predicted permeases [General function prediction only]; Region: COG0679 1104321005230 potential frameshift: common BLAST hit: gi|340791056|ref|YP_004756521.1| lytic murein transglycosylase 1104321005231 murein hydrolase B; Provisional; Region: PRK10760; cl17906 1104321005232 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 1104321005233 Membrane-bound lytic murein transglycosylase B [Cell envelope biogenesis, outer membrane]; Region: MltB; COG2951 1104321005234 murein hydrolase B; Provisional; Region: PRK10760; cl17906 1104321005235 Lyzozyme M1 (1,4-beta-N-acetylmuramidase) [Cell envelope biogenesis, outer membrane]; Region: Acm; COG3757 1104321005236 Uncharacterized bacterial muramidase containing a glycosyl hydrolase family 25 (GH25) catalytic domain. Endo-N-acetylmuramidases are lysozymes (also referred to as peptidoglycan hydrolases) that degrade bacterial cell walls by catalyzing the hydrolysis...; Region: GH25_muramidase_1; cd06413 1104321005237 active site 1104321005238 N-terminal tellurium resistance protein terB-like domain of heat shock DnaJ-like proteins; Region: terB_like_DjlA; cd07316 1104321005239 DnaJ-domain-containing proteins 1 [Posttranslational modification, protein turnover, chaperones]; Region: DjlA; COG1076 1104321005240 putative metal binding site [ion binding]; other site 1104321005241 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 1104321005242 HSP70 interaction site [polypeptide binding]; other site 1104321005243 N-acetyl-anhydromuramyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: ampD; COG3023 1104321005244 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 1104321005245 amidase catalytic site [active] 1104321005246 Zn binding residues [ion binding]; other site 1104321005247 substrate binding site [chemical binding]; other site 1104321005248 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 1104321005249 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 1104321005250 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 1104321005251 N-acetyl-D-glucosamine binding site [chemical binding]; other site 1104321005252 catalytic residue [active] 1104321005253 manganese transport protein MntH; Reviewed; Region: PRK00701 1104321005254 Natural resistance-associated macrophage protein; Region: Nramp; pfam01566 1104321005255 Predicted S-adenosylmethionine-dependent methyltransferase involved in cell envelope biogenesis [Cell envelope biogenesis, outer membrane]; Region: COG0275 1104321005256 MraW methylase family; Region: Methyltransf_5; cl17771 1104321005257 Predicted secreted (periplasmic) protein [Function unknown]; Region: COG5462 1104321005258 Cell division protein FtsI/penicillin-binding protein 2 [Cell envelope biogenesis, outer membrane]; Region: FtsI; COG0768 1104321005259 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 1104321005260 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 1104321005261 UDP-N-acetylmuramoylalanyl-D-glutamate--2, 6-diaminopimelate ligase; Provisional; Region: murE; PRK00139 1104321005262 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 1104321005263 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 1104321005264 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 1104321005265 UDP-N-acetylmuramoylalanyl-D-glutamyl-2, 6-diaminopimelate--D-alanyl-D-alanine ligase; Provisional; Region: PRK14093 1104321005266 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 1104321005267 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 1104321005268 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 1104321005269 phospho-N-acetylmuramoyl-pentapeptide-transferase; Provisional; Region: mraY; PRK00108 1104321005270 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 1104321005271 Mg++ binding site [ion binding]; other site 1104321005272 putative catalytic motif [active] 1104321005273 putative substrate binding site [chemical binding]; other site 1104321005274 UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase; Provisional; Region: murD; PRK01390 1104321005275 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 1104321005276 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 1104321005277 cell division protein FtsW; Region: ftsW; TIGR02614 1104321005278 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 1104321005279 undecaprenyldiphospho-muramoylpentapeptide beta-N- acetylglucosaminyltransferase; Provisional; Region: murG; PRK00726 1104321005280 active site 1104321005281 homodimer interface [polypeptide binding]; other site 1104321005282 UDP-N-acetylmuramate--L-alanine ligase; Provisional; Region: murC; PRK00421 1104321005283 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 1104321005284 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 1104321005285 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 1104321005286 UDP-N-acetylenolpyruvoylglucosamine reductase; Provisional; Region: murB; PRK13905 1104321005287 FAD binding domain; Region: FAD_binding_4; pfam01565 1104321005288 UDP-N-acetylenolpyruvoylglucosamine reductase, C-terminal domain; Region: MurB_C; pfam02873 1104321005289 D-alanine--D-alanine ligase; Reviewed; Region: ddl; PRK01372 1104321005290 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 1104321005291 ATP-grasp domain; Region: ATP-grasp_4; cl17255 1104321005292 Cell division septal protein [Cell envelope biogenesis, outer membrane]; Region: FtsQ; COG1589 1104321005293 POTRA domain, FtsQ-type; Region: POTRA_1; pfam08478 1104321005294 Cell division protein FtsQ; Region: FtsQ; pfam03799 1104321005295 Cell division ATPase FtsA [Cell division and chromosome partitioning]; Region: ftsA; COG0849 1104321005296 Cell division protein FtsA; Region: FtsA; smart00842 1104321005297 Cell division protein FtsA; Region: FtsA; pfam14450 1104321005298 cell division protein FtsZ; Validated; Region: PRK09330 1104321005299 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 1104321005300 nucleotide binding site [chemical binding]; other site 1104321005301 SulA interaction site; other site 1104321005302 cell division protein FtsZ, alphaProteobacterial C-terminal extension; Region: FtsZ_alphas_C; TIGR03483 1104321005303 UDP-3-O-[3-hydroxymyristoyl] N-acetylglucosamine deacetylase; Reviewed; Region: lpxC; PRK13186 1104321005304 UDP-3-O-acyl N-acetylglycosamine deacetylase; Region: LpxC; pfam03331 1104321005305 DNA uptake lipoprotein [General function prediction only]; Region: ComL; COG4105 1104321005306 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 1104321005307 binding surface 1104321005308 TPR motif; other site 1104321005309 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: RecN; COG0497 1104321005310 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 1104321005311 Walker A/P-loop; other site 1104321005312 ATP binding site [chemical binding]; other site 1104321005313 Q-loop/lid; other site 1104321005314 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 1104321005315 ABC transporter signature motif; other site 1104321005316 Walker B; other site 1104321005317 D-loop; other site 1104321005318 H-loop/switch region; other site 1104321005319 NAD-dependent DNA ligase LigA; Validated; Region: ligA; PRK07956 1104321005320 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 1104321005321 nucleotide binding pocket [chemical binding]; other site 1104321005322 K-X-D-G motif; other site 1104321005323 catalytic site [active] 1104321005324 NAD-dependent DNA ligase OB-fold domain; Region: DNA_ligase_OB; pfam03120 1104321005325 NAD-dependent DNA ligase C4 zinc finger domain; Region: DNA_ligase_ZBD; pfam03119 1104321005326 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 1104321005327 Dimer interface [polypeptide binding]; other site 1104321005328 BRCT sequence motif; other site 1104321005329 Uncharacterized conserved protein [Function unknown]; Region: COG5587 1104321005330 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 1104321005331 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 1104321005332 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 1104321005333 active site 1104321005334 Ribosomal protein L11 methylase [Translation, ribosomal structure and biogenesis]; Region: PrmA; COG2264 1104321005335 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 1104321005336 S-adenosylmethionine binding site [chemical binding]; other site 1104321005337 Uncharacterized protein SCO1/SenC/PrrC, involved in biogenesis of respiratory and photosynthetic systems [General function prediction only]; Region: COG1999 1104321005338 SCO (an acronym for Synthesis of Cytochrome c Oxidase) family; composed of proteins similar to Sco1, a membrane-anchored protein possessing a soluble domain with a TRX fold. Members of this family are required for the proper assembly of cytochrome c...; Region: SCO; cd02968 1104321005339 Cu(I) binding site [ion binding]; other site 1104321005340 phosphonate metabolim protein, transferase hexapeptide repeat family; Region: phn_thr-fam; TIGR03308 1104321005341 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 1104321005342 trimer interface [polypeptide binding]; other site 1104321005343 active site 1104321005344 substrate binding site [chemical binding]; other site 1104321005345 CoA binding site [chemical binding]; other site 1104321005346 Uncharacterized protein conserved in bacteria [Function unknown]; Region: CreA; COG3045 1104321005347 CreA protein; Region: CreA; pfam05981 1104321005348 ATP-dependent DNA helicase PcrA; Region: pcrA; TIGR01073 1104321005349 Part of AAA domain; Region: AAA_19; pfam13245 1104321005350 Family description; Region: UvrD_C_2; pfam13538 1104321005351 serine/threonine protein kinase; Provisional; Region: PRK09188 1104321005352 serine/threonine protein kinase; Provisional; Region: PRK12274 1104321005353 Uncharacterized conserved protein [Function unknown]; Region: COG4702 1104321005354 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 1104321005355 FAD binding domain; Region: FAD_binding_4; pfam01565 1104321005356 Uncharacterized protein involved in outer membrane biogenesis [Cell envelope biogenesis, outer membrane]; Region: AsmA; COG2982 1104321005357 AsmA-like C-terminal region; Region: AsmA_2; pfam13502 1104321005358 Uncharacterized protein related to arylsulfate sulfotransferase involved in siderophore biosynthesis [General function prediction only]; Region: COG4321 1104321005359 Domain of unknown function (DUF4169); Region: DUF4169; pfam13770 1104321005360 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3814 1104321005361 pyrimidine utilization regulatory protein R; Region: RutR; TIGR03613 1104321005362 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1104321005363 AefR-like transcriptional repressor, C-terminal region; Region: TetR_C_7; pfam14246 1104321005364 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 1104321005365 bicyclomycin/multidrug efflux system; Provisional; Region: PRK11102 1104321005366 putative substrate translocation pore; other site 1104321005367 Protein of unknown function (DUF2853); Region: DUF2853; pfam11015 1104321005368 thymidylate synthase; Reviewed; Region: thyA; PRK01827 1104321005369 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 1104321005370 dimerization interface [polypeptide binding]; other site 1104321005371 active site 1104321005372 Dihydrofolate reductase [Coenzyme metabolism]; Region: FolA; COG0262 1104321005373 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 1104321005374 folate binding site [chemical binding]; other site 1104321005375 NADP+ binding site [chemical binding]; other site 1104321005376 Bacterial membrane protein N terminal; Region: HflK_N; pfam12221 1104321005377 Band_7_HflK: The band 7 domain of flotillin (reggie) like proteins. This group includes proteins similar to prokaryotic HlfK (High frequency of lysogenization K). Although many members of the band 7 family are lipid raft associated, prokaryote plasma...; Region: Band_7_HflK; cd03404 1104321005378 HflK protein; Region: hflK; TIGR01933 1104321005379 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 1104321005380 Band_7_HflC: The band 7 domain of flotillin (reggie) like proteins. This group includes proteins similar to prokaryotic HlfC (High frequency of lysogenization C). Although many members of the band 7 family are lipid raft associated, prokaryote plasma...; Region: Band_7_HflC; cd03405 1104321005381 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3242 1104321005382 periplasmic serine protease, Do/DeqQ family; Region: degP_htrA_DO; TIGR02037 1104321005383 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 1104321005384 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 1104321005385 protein binding site [polypeptide binding]; other site 1104321005386 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 1104321005387 protein binding site [polypeptide binding]; other site 1104321005388 Predicted flavoproteins [General function prediction only]; Region: COG2081 1104321005389 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 1104321005390 Phosphoserine phosphatase [Amino acid transport and metabolism]; Region: SerB; COG0560 1104321005391 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 1104321005392 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 1104321005393 motif II; other site 1104321005394 tRNA delta(2)-isopentenylpyrophosphate transferase [Translation, ribosomal structure and biogenesis]; Region: MiaA; COG0324 1104321005395 tRNA delta(2)-isopentenylpyrophosphate transferase; Reviewed; Region: miaA; PRK00091 1104321005396 acetolactate synthase 3 catalytic subunit; Validated; Region: PRK09107 1104321005397 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 1104321005398 PYR/PP interface [polypeptide binding]; other site 1104321005399 dimer interface [polypeptide binding]; other site 1104321005400 TPP binding site [chemical binding]; other site 1104321005401 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 1104321005402 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 1104321005403 TPP-binding site [chemical binding]; other site 1104321005404 dimer interface [polypeptide binding]; other site 1104321005405 acetolactate synthase 3 regulatory subunit; Reviewed; Region: ilvH; PRK11895 1104321005406 N-terminal ACT domain of the Escherichia coli IlvH-like regulatory subunit of acetohydroxyacid synthase (AHAS); Region: ACT_AHAS; cd04878 1104321005407 putative valine binding site [chemical binding]; other site 1104321005408 dimer interface [polypeptide binding]; other site 1104321005409 Small subunit of acetolactate synthase; Region: ALS_ss_C; pfam10369 1104321005410 ATP-dependent exoDNAse (exonuclease V), alpha subunit - helicase superfamily I member [DNA replication, recombination, and repair]; Region: RecD; COG0507 1104321005411 AAA domain; Region: AAA_30; pfam13604 1104321005412 Family description; Region: UvrD_C_2; pfam13538 1104321005413 Protein of unknown function (DUF3478); Region: DUF3478; pfam11964 1104321005414 Pyridoxine 5'-phosphate (PNP) synthase domain; pyridoxal 5'-phosphate is the active form of vitamin B6 that acts as an essential, ubiquitous coenzyme in amino acid metabolism. In bacteria, formation of pyridoxine 5'-phosphate is a step in...; Region: PNPsynthase; cl00541 1104321005415 active site 1104321005416 hydrophilic channel; other site 1104321005417 dimerization interface [polypeptide binding]; other site 1104321005418 catalytic residues [active] 1104321005419 active site lid [active] 1104321005420 K+ transporter [Inorganic ion transport and metabolism]; Region: Kup; COG3158 1104321005421 potassium uptake protein; Region: kup; TIGR00794 1104321005422 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1104321005423 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1104321005424 ketol-acid reductoisomerase; Provisional; Region: PRK05479 1104321005425 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvN; pfam07991 1104321005426 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvC; pfam01450 1104321005427 Aspartate/tyrosine/aromatic aminotransferase [Amino acid transport and metabolism]; Region: COG0436 1104321005428 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 1104321005429 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1104321005430 homodimer interface [polypeptide binding]; other site 1104321005431 catalytic residue [active] 1104321005432 BA14K-like protein; Region: BA14K; pfam07886 1104321005433 potential frameshift: common BLAST hit: gi|256369791|ref|YP_003107302.1| Endonuclease/exonuclease/phosphatase family protein 1104321005434 potential frameshift: common BLAST hit: gi|256369791|ref|YP_003107302.1| Endonuclease/exonuclease/phosphatase family protein 1104321005435 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 1104321005436 putative metal binding site [ion binding]; other site 1104321005437 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 1104321005438 nudix motif; other site 1104321005439 Predicted epimerase, PhzC/PhzF homolog [General function prediction only]; Region: COG0384 1104321005440 Predicted flavin-nucleotide-binding protein [General function prediction only]; Region: COG3467 1104321005441 Integral membrane protein possibly involved in chromosome condensation [Cell division and chromosome partitioning]; Region: CrcB; COG0239 1104321005442 camphor resistance protein CrcB; Provisional; Region: ccrB; PRK01636 1104321005443 Uncharacterized conserved protein [Function unknown]; Region: COG3439 1104321005444 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 1104321005445 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 1104321005446 Walker A/P-loop; other site 1104321005447 ATP binding site [chemical binding]; other site 1104321005448 Q-loop/lid; other site 1104321005449 ABC transporter signature motif; other site 1104321005450 Walker B; other site 1104321005451 D-loop; other site 1104321005452 H-loop/switch region; other site 1104321005453 cobalt ABC transporter, permease protein CbiQ; Region: CbiQ_TIGR; TIGR02454 1104321005454 cobalt transport protein CbiM; Validated; Region: PRK06265 1104321005455 Cobalt uptake substrate-specific transmembrane region; Region: CbiM; pfam01891 1104321005456 ABC-type Co2+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: CbiK; COG5266 1104321005457 Urea transporter [Amino acid transport and metabolism]; Region: Utp; COG4413 1104321005458 Urease accessory protein UreH [Posttranslational modification, protein turnover, chaperones]; Region: UreH; COG0829 1104321005459 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 1104321005460 Urease accessory protein UreF [Posttranslational modification, protein turnover, chaperones]; Region: UreF; COG0830 1104321005461 UreF; Region: UreF; pfam01730 1104321005462 urease accessory protein UreE; Provisional; Region: ureE; PRK14711 1104321005463 UreE urease accessory protein. UreE is a metallochaperone assisting the insertion of a Ni2+ ion in the active site of urease, an important step in the in vivo assembly of urease, an enzyme that hydrolyses urea into ammonia and carbamic acid. The...; Region: UreE; cd00571 1104321005464 dimer interface [polypeptide binding]; other site 1104321005465 catalytic residues [active] 1104321005466 urease subunit alpha; Reviewed; Region: ureC; PRK13309 1104321005467 Urease alpha-subunit; Urease is a nickel-dependent metalloenzyme that catalyzes the hydrolysis of urea to form ammonia and carbon dioxide. Nickel-dependent ureases are found in bacteria, fungi and plants. Their primary role is to allow the use of...; Region: Urease_alpha; cd00375 1104321005468 subunit interactions [polypeptide binding]; other site 1104321005469 active site 1104321005470 flap region; other site 1104321005471 Urease beta-subunit; Urease is a nickel-dependent metalloenzyme that catalyzes the hydrolysis of urea to form ammonia and carbon dioxide. Nickel-dependent ureases are found in bacteria, archaea, fungi and plants. Their primary role is to allow the use of...; Region: Urease_beta; cd00407 1104321005472 alpha-beta subunit interface [polypeptide binding]; other site 1104321005473 Urease gamma-subunit; Urease is a nickel-dependent metalloenzyme that catalyzes the hydrolysis of urea to form ammonia and carbon dioxide. Nickel-dependent ureases are found in bacteria, archaea, fungi and plants. Their primary role is to allow the use...; Region: Urease_gamma; cd00390 1104321005474 alpha-gamma subunit interface [polypeptide binding]; other site 1104321005475 beta-gamma subunit interface [polypeptide binding]; other site 1104321005476 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1649 1104321005477 Uncharacterized BCR, COG1649; Region: DUF187; pfam02638 1104321005478 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1104321005479 HlyD family secretion protein; Region: HlyD_3; pfam13437 1104321005480 ABC-type Mn/Zn transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: ZnuC; COG1121 1104321005481 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 1104321005482 Walker A/P-loop; other site 1104321005483 ATP binding site [chemical binding]; other site 1104321005484 Q-loop/lid; other site 1104321005485 ABC transporter signature motif; other site 1104321005486 Walker B; other site 1104321005487 D-loop; other site 1104321005488 H-loop/switch region; other site 1104321005489 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 1104321005490 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 1104321005491 Walker A/P-loop; other site 1104321005492 ATP binding site [chemical binding]; other site 1104321005493 Q-loop/lid; other site 1104321005494 ABC transporter signature motif; other site 1104321005495 Walker B; other site 1104321005496 D-loop; other site 1104321005497 H-loop/switch region; other site 1104321005498 ABC-2 family transporter protein; Region: ABC2_membrane_3; pfam12698 1104321005499 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 1104321005500 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 1104321005501 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 1104321005502 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 1104321005503 Outer membrane cobalamin receptor protein [Coenzyme metabolism]; Region: BtuB; COG4206 1104321005504 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 1104321005505 N-terminal plug; other site 1104321005506 ligand-binding site [chemical binding]; other site 1104321005507 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 1104321005508 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 1104321005509 intersubunit interface [polypeptide binding]; other site 1104321005510 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 1104321005511 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 1104321005512 ABC-ATPase subunit interface; other site 1104321005513 dimer interface [polypeptide binding]; other site 1104321005514 putative PBP binding regions; other site 1104321005515 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 1104321005516 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 1104321005517 Walker A/P-loop; other site 1104321005518 ATP binding site [chemical binding]; other site 1104321005519 Q-loop/lid; other site 1104321005520 ABC transporter signature motif; other site 1104321005521 Walker B; other site 1104321005522 D-loop; other site 1104321005523 H-loop/switch region; other site 1104321005524 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 1104321005525 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 1104321005526 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 1104321005527 Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems; Region: PBP1_ABC_sugar_binding_like_4; cd06312 1104321005528 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 1104321005529 putative ligand binding site [chemical binding]; other site 1104321005530 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1104321005531 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 1104321005532 TM-ABC transporter signature motif; other site 1104321005533 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 1104321005534 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 1104321005535 Walker A/P-loop; other site 1104321005536 ATP binding site [chemical binding]; other site 1104321005537 Q-loop/lid; other site 1104321005538 ABC transporter signature motif; other site 1104321005539 Walker B; other site 1104321005540 D-loop; other site 1104321005541 H-loop/switch region; other site 1104321005542 short chain dehydrogenase; Provisional; Region: PRK06198 1104321005543 classical (c) SDRs; Region: SDR_c; cd05233 1104321005544 NAD(P) binding site [chemical binding]; other site 1104321005545 active site 1104321005546 Fucose dissimilation pathway protein FucU [Carbohydrate transport and metabolism]; Region: FucU; COG4154 1104321005547 EF-hand domain pair; Region: EF_hand_5; pfam13499 1104321005548 EF-hand, calcium binding motif; A diverse superfamily of calcium sensors and calcium signal modulators; most examples in this alignment model have 2 active canonical EF hands. Ca2+ binding induces a conformational change in the EF-hand motif, leading to...; Region: EFh; cl17302 1104321005549 Ca2+ binding site [ion binding]; other site 1104321005550 EF-hand, calcium binding motif; A diverse superfamily of calcium sensors and calcium signal modulators; most examples in this alignment model have 2 active canonical EF hands. Ca2+ binding induces a conformational change in the EF-hand motif, leading to...; Region: EFh; cl17302 1104321005551 Ca2+ binding site [ion binding]; other site 1104321005552 potential frameshift: common BLAST hit: gi|17986953|ref|NP_539587.1| membrane-associated alkaline phosphatase 1104321005553 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 1104321005554 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 1104321005555 Membrane protein TerC, possibly involved in tellurium resistance [Inorganic ion transport and metabolism]; Region: TerC; COG0861 1104321005556 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 1104321005557 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 1104321005558 Transporter associated domain; Region: CorC_HlyC; smart01091 1104321005559 ABC-type sulfate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: CysP; COG4150 1104321005560 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 1104321005561 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 1104321005562 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 1104321005563 dimer interface [polypeptide binding]; other site 1104321005564 conserved gate region; other site 1104321005565 putative PBP binding loops; other site 1104321005566 ABC-ATPase subunit interface; other site 1104321005567 sulfate transport protein; Provisional; Region: cysT; CHL00187 1104321005568 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 1104321005569 dimer interface [polypeptide binding]; other site 1104321005570 conserved gate region; other site 1104321005571 putative PBP binding loops; other site 1104321005572 ABC-ATPase subunit interface; other site 1104321005573 Serine hydrolase; Region: Ser_hydrolase; pfam06821 1104321005574 Predicted integral membrane protein [Function unknown]; Region: COG0392 1104321005575 putative cation:proton antiport protein; Provisional; Region: PRK10669 1104321005576 Kef-type K+ transport system, predicted NAD-binding component [Inorganic ion transport and metabolism]; Region: RosB; COG4651 1104321005577 TrkA-N domain; Region: TrkA_N; pfam02254 1104321005578 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 1104321005579 bifunctional preprotein translocase subunit SecD/SecF; Reviewed; Region: PRK13024 1104321005580 protein-export membrane protein, SecD/SecF family; Region: 2A0604s01; TIGR00916 1104321005581 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 1104321005582 Protein export membrane protein; Region: SecD_SecF; pfam02355 1104321005583 potential frameshift: common BLAST hit: gi|189024458|ref|YP_001935226.1| mechanosensitive channel protein 1104321005584 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: COG3264 1104321005585 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: COG3264 1104321005586 Mechanosensitive ion channel; Region: MS_channel; pfam00924 1104321005587 potential frameshift: common BLAST hit: gi|340790938|ref|YP_004756403.1| sarcosine dehydrogenase 1104321005588 Aminomethyltransferase folate-binding domain; Region: GCV_T; pfam01571 1104321005589 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 1104321005590 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 1104321005591 hydroxyglutarate oxidase; Provisional; Region: PRK11728 1104321005592 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 1104321005593 AraC transcriptional regulators having an N-terminal Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_ArgR_like; cd03136 1104321005594 conserved cys residue [active] 1104321005595 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1104321005596 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1104321005597 potential frameshift: common BLAST hit: gi|340790936|ref|YP_004756401.1| LysR family transcriptional regulator 1104321005598 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1104321005599 LysR substrate binding domain; Region: LysR_substrate; pfam03466 1104321005600 dimerization interface [polypeptide binding]; other site 1104321005601 Predicted small secreted protein [Function unknown]; Region: COG5510 1104321005602 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 1104321005603 3-hydroxyisobutyrate dehydrogenase; Region: HIBADH; TIGR01692 1104321005604 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 1104321005605 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 1104321005606 active site 1104321005607 cobyric acid synthase; Provisional; Region: PRK00784 1104321005608 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 1104321005609 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 1104321005610 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyric Acid Synthase (CobQ); Region: GATase1_CobQ; cd01750 1104321005611 catalytic triad [active] 1104321005612 cobalt transporter subunit CbtB (proposed); Region: CbtB; TIGR02459 1104321005613 Predicted integral membrane protein [Function unknown]; Region: COG5446 1104321005614 Adenosylcobinamide kinase / adenosylcobinamide phosphate guanyltransferase (CobU). CobU is bifunctional cobalbumin biosynthesis enzymes which display adenosylcobinamide kinase and adenosylcobinamide phosphate guanyltransferase activity. This enzyme is a...; Region: CobU; cd00544 1104321005615 homotrimer interface [polypeptide binding]; other site 1104321005616 Walker A motif; other site 1104321005617 GTP binding site [chemical binding]; other site 1104321005618 Walker B motif; other site 1104321005619 cobalamin biosynthesis protein CobW; Region: CobW; TIGR02475 1104321005620 CobW/HypB/UreG, nucleotide-binding domain; Region: cobW; pfam02492 1104321005621 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; pfam07683 1104321005622 cobaltochelatase subunit CobN; Reviewed; Region: cobN; PRK05989 1104321005623 CobN subunit of cobaltochelatase, bchH and chlH subunits of magnesium chelatases, and similar proteins; Region: CobN_like; cd10150 1104321005624 CobN subunit of cobaltochelatase, bchH and chlH subunits of magnesium chelatases, and similar proteins; Region: CobN_like; cd10150 1104321005625 ATP:corrinoid adenosyltransferase [Coenzyme metabolism]; Region: BtuR; COG2109 1104321005626 ATP:corrinoid adenosyltransferase BtuR/CobO/CobP. This family consists of the BtuR, CobO, CobP proteins all of which are Cob(I)alamin (vitamin B12) adenosyltransferase, which is involved in cobalamin (vitamin B12) biosynthesis. This enzyme is a homodimer; Region: CobA_CobO_BtuR; cd00561 1104321005627 homodimer interface [polypeptide binding]; other site 1104321005628 Walker A motif; other site 1104321005629 ATP binding site [chemical binding]; other site 1104321005630 hydroxycobalamin binding site [chemical binding]; other site 1104321005631 Walker B motif; other site 1104321005632 Predicted membrane protein [Function unknown]; Region: COG2510 1104321005633 hypothetical protein; Provisional; Region: PRK10621 1104321005634 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 1104321005635 tellurium resistance terB-like protein; Region: terB_like; cd07177 1104321005636 metal binding site [ion binding]; metal-binding site 1104321005637 Cobalamin biosynthesis protein CbiG [Coenzyme metabolism]; Region: CbiG; COG2073 1104321005638 Cobalamin synthesis G C-terminus; Region: CbiG_C; pfam01890 1104321005639 Precorrin-4 C11-methyltransferase (CbiF/CobM); Region: Precorrin-4_C11-MT; cd11641 1104321005640 active site 1104321005641 SAM binding site [chemical binding]; other site 1104321005642 homodimer interface [polypeptide binding]; other site 1104321005643 cobalt-precorrin-6x reductase; Reviewed; Region: PRK08057 1104321005644 cobalt-precorrin-6A synthase; Reviewed; Region: cbiD; PRK00075 1104321005645 Uroporphyrin-III C-methyltransferase (S-Adenosyl-L-methionine:uroporphyrinogen III methyltransferase, SUMT); Region: SUMT; cd11642 1104321005646 active site 1104321005647 SAM binding site [chemical binding]; other site 1104321005648 homodimer interface [polypeptide binding]; other site 1104321005649 cobyrinic acid a,c-diamide synthase; Validated; Region: PRK01077 1104321005650 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 1104321005651 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyrinic Acid a,c-Diamide Synthase; Region: GATase1_CobB; cd03130 1104321005652 L-threonine-O-3-phosphate decarboxylase; Region: L_thr_O3P_dcar; TIGR01140 1104321005653 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 1104321005654 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1104321005655 homodimer interface [polypeptide binding]; other site 1104321005656 catalytic residue [active] 1104321005657 cobalamin biosynthesis protein; Provisional; Region: cobD; PRK01209 1104321005658 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 1104321005659 Periplasmic binding domain of ATP-binding cassette transporter-like systems that belong to the type I periplasmic binding fold protein superfamily; Region: PBP1_ABC_transporter_LIVBP_like; cd06268 1104321005660 ligand binding site [chemical binding]; other site 1104321005661 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 1104321005662 Flavin Reductases; Region: FlaRed; cl00801 1104321005663 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 1104321005664 Cobalamin biosynthesis protein CbiG [Coenzyme metabolism]; Region: CbiG; COG2073 1104321005665 Cobalamin synthesis G N-terminal; Region: CbiG_N; pfam11760 1104321005666 Cobalamin biosynthesis central region; Region: CbiG_mid; pfam11761 1104321005667 Precorrin-3B C(17)-methyltransferase (CobJ/CbiH); Region: Precorrin_3B_C17_MT; cd11646 1104321005668 active site 1104321005669 SAM binding site [chemical binding]; other site 1104321005670 homodimer interface [polypeptide binding]; other site 1104321005671 Precorrin-2 C20-methyltransferase, also named CobI or CbiL; Region: Precorrin_2_C20_MT; cd11645 1104321005672 active site 1104321005673 SAM binding site [chemical binding]; other site 1104321005674 homodimer interface [polypeptide binding]; other site 1104321005675 precorrin-8X methylmutase; Reviewed; Region: cobH; PRK08285 1104321005676 Precorrin-8X methylmutase; Region: CbiC; pfam02570 1104321005677 precorrin-3B synthase; Region: CobG; TIGR02435 1104321005678 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 1104321005679 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 1104321005680 Precorrin-6Y methyltransferase, the cobalamin biosynthesis enzyme CbiE; Region: Precorrin-6Y-methylase; cd11644 1104321005681 active site 1104321005682 SAM binding site [chemical binding]; other site 1104321005683 putative homodimer interface [polypeptide binding]; other site 1104321005684 Precorrin-6B methylase 2 [Coenzyme metabolism]; Region: CobL; COG2242 1104321005685 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 1104321005686 S-adenosylmethionine binding site [chemical binding]; other site 1104321005687 Opacity protein and related surface antigens [Cell envelope biogenesis, outer membrane]; Region: COG3637 1104321005688 DNA repair proteins [DNA replication, recombination, and repair]; Region: RadC; COG2003 1104321005689 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 1104321005690 MPN+ (JAMM) motif; other site 1104321005691 Zinc-binding site [ion binding]; other site 1104321005692 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 1104321005693 active site 1104321005694 putative DNA-binding transcriptional regulator; Reviewed; Region: PRK00347 1104321005695 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3553 1104321005696 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3108 1104321005697 Peptidase M15; Region: Peptidase_M15_3; cl01194 1104321005698 aminotransferase; Validated; Region: PRK09148 1104321005699 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 1104321005700 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1104321005701 homodimer interface [polypeptide binding]; other site 1104321005702 catalytic residue [active] 1104321005703 homoserine dehydrogenase; Provisional; Region: PRK06349 1104321005704 Homoserine dehydrogenase, NAD binding domain; Region: NAD_binding_3; pfam03447 1104321005705 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 1104321005706 ACT_HSDH_Hom CD includes the C-terminal ACT domain of the NAD(P)H-dependent, homoserine dehydrogenase (HSDH) and related domains; Region: ACT_HSDH-Hom; cd04881 1104321005707 Bacterial fructose-1,6-bisphosphatase, glpX-encoded; Region: FBPase_glpX; pfam03320 1104321005708 Bacterial fructose-1,6-bisphosphatase, glpX-encoded. A dimeric enzyme dependent on Mg(2+). glpX-encoded FPBase (FBPase class II) differs from other members of the inositol-phosphatase superfamily by permutation of secondary structure elements. The core...; Region: FBPase_glpX; cd01516 1104321005709 putative active site [active] 1104321005710 D-alanyl-alanine synthetase A; Reviewed; Region: ddl; PRK01966 1104321005711 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 1104321005712 ATP-grasp domain; Region: ATP-grasp_4; cl17255 1104321005713 single-stranded-DNA-specific exonuclease RecJ; Region: recJ; TIGR00644 1104321005714 DHH family; Region: DHH; pfam01368 1104321005715 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4395 1104321005716 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 1104321005717 Glyoxalase I catalyzes the isomerization of the hemithioacetal, formed by a 2-oxoaldehyde and glutathione, to S-D-lactoylglutathione; Region: Glyoxalase_I; cd07233 1104321005718 dimer interface [polypeptide binding]; other site 1104321005719 active site 1104321005720 metal binding site [ion binding]; metal-binding site 1104321005721 glutathione binding site [chemical binding]; other site 1104321005722 Cold-Shock Protein (CSP) contains an S1-like cold-shock domain (CSD) that is found in eukaryotes, prokaryotes, and archaea. CSP's include the major cold-shock proteins CspA and CspB in bacteria and the eukaryotic gene regulatory factor Y-box...; Region: CSP_CDS; cd04458 1104321005723 DNA-binding site [nucleotide binding]; DNA binding site 1104321005724 RNA-binding motif; other site 1104321005725 Cold-Shock Protein (CSP) contains an S1-like cold-shock domain (CSD) that is found in eukaryotes, prokaryotes, and archaea. CSP's include the major cold-shock proteins CspA and CspB in bacteria and the eukaryotic gene regulatory factor Y-box...; Region: CSP_CDS; cd04458 1104321005726 DNA-binding site [nucleotide binding]; DNA binding site 1104321005727 RNA-binding motif; other site 1104321005728 Uncharacterized conserved protein [Function unknown]; Region: COG1430 1104321005729 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 1104321005730 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 1104321005731 serine acetyltransferase; Provisional; Region: cysE; PRK11132 1104321005732 Serine acetyltransferase, N-terminal; Region: SATase_N; smart00971 1104321005733 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 1104321005734 trimer interface [polypeptide binding]; other site 1104321005735 active site 1104321005736 substrate binding site [chemical binding]; other site 1104321005737 CoA binding site [chemical binding]; other site 1104321005738 Protein of unknown function (DUF3126); Region: DUF3126; pfam11324 1104321005739 Carbonic anhydrases/acetyltransferases, isoleucine patch superfamily [General function prediction only]; Region: PaaY; COG0663 1104321005740 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 1104321005741 trimer interface [polypeptide binding]; other site 1104321005742 putative metal binding site [ion binding]; other site 1104321005743 Bacterial transglutaminase-like cysteine proteinase BTLCP; Region: BTLCP; pfam06035 1104321005744 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5388 1104321005745 PAS domain; Region: PAS_5; pfam07310 1104321005746 Membrane associated serine protease [Amino acid transport and metabolism]; Region: COG0705 1104321005747 FOG: CBS domain [General function prediction only]; Region: COG0517 1104321005748 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-called...; Region: CBS_pair_10; cd04623 1104321005749 rRNA methylases [Translation, ribosomal structure and biogenesis]; Region: SpoU; COG0566 1104321005750 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; smart00967 1104321005751 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 1104321005752 elongation factor Tu; Reviewed; Region: PRK00049 1104321005753 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 1104321005754 G1 box; other site 1104321005755 GEF interaction site [polypeptide binding]; other site 1104321005756 GTP/Mg2+ binding site [chemical binding]; other site 1104321005757 Switch I region; other site 1104321005758 G2 box; other site 1104321005759 G3 box; other site 1104321005760 Switch II region; other site 1104321005761 G4 box; other site 1104321005762 G5 box; other site 1104321005763 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 1104321005764 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 1104321005765 Antibiotic Binding Site [chemical binding]; other site 1104321005766 preprotein translocase subunit SecE; Reviewed; Region: secE; PRK07597 1104321005767 transcription antitermination protein NusG; Validated; Region: nusG; PRK05609 1104321005768 Bacterial N-Utilization Substance G (NusG) N-terminal (NGN) domain, subgroup 1; Region: NGN_Bact_1; cd09891 1104321005769 putative homodimer interface [polypeptide binding]; other site 1104321005770 NusG contains an NGN domain at its N-terminus and KOW motif at its C-terminus; Region: KOW_NusG; cd06091 1104321005771 heterodimer interface [polypeptide binding]; other site 1104321005772 homodimer interface [polypeptide binding]; other site 1104321005773 50S ribosomal protein L11; Validated; Region: rplK; PRK00140 1104321005774 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 1104321005775 23S rRNA interface [nucleotide binding]; other site 1104321005776 L7/L12 interface [polypeptide binding]; other site 1104321005777 putative thiostrepton binding site; other site 1104321005778 L25 interface [polypeptide binding]; other site 1104321005779 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 1104321005780 mRNA/rRNA interface [nucleotide binding]; other site 1104321005781 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 1104321005782 23S rRNA interface [nucleotide binding]; other site 1104321005783 Interface with L7/L12 ribosomal proteins [polypeptide binding]; other site 1104321005784 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 1104321005785 L11 interface [polypeptide binding]; other site 1104321005786 putative EF-Tu interaction site [polypeptide binding]; other site 1104321005787 putative EF-G interaction site [polypeptide binding]; other site 1104321005788 DNA-directed RNA polymerase subunit beta; Reviewed; Region: rpoB; PRK00405 1104321005789 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 1104321005790 RNA polymerase Rpb2, domain 2; Region: RNA_pol_Rpb2_2; pfam04561 1104321005791 RNA polymerase Rpb2, domain 2; Region: RNA_pol_Rpb2_2; pfam04561 1104321005792 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 1104321005793 RPB11 interaction site [polypeptide binding]; other site 1104321005794 RPB12 interaction site [polypeptide binding]; other site 1104321005795 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 1104321005796 RPB1 interaction site [polypeptide binding]; other site 1104321005797 RPB11 interaction site [polypeptide binding]; other site 1104321005798 RPB10 interaction site [polypeptide binding]; other site 1104321005799 RPB3 interaction site [polypeptide binding]; other site 1104321005800 RNA polymerase Rpb1, domain 1; Region: RNA_pol_Rpb1_1; pfam04997 1104321005801 DNA-directed RNA polymerase, beta' subunit/160 kD subunit [Transcription]; Region: RpoC; COG0086 1104321005802 RNA polymerase I subunit A N-terminus; Region: RPOLA_N; smart00663 1104321005803 RNA polymerase Rpb1, domain 3; Region: RNA_pol_Rpb1_3; pfam04983 1104321005804 RNA polymerase Rpb1, domain 4; Region: RNA_pol_Rpb1_4; pfam05000 1104321005805 RNA polymerase Rpb1, domain 5; Region: RNA_pol_Rpb1_5; pfam04998 1104321005806 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 1104321005807 Rpb1 - Rpb6 interaction site [polypeptide binding]; other site 1104321005808 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 1104321005809 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 1104321005810 DNA binding site [nucleotide binding] 1104321005811 Rpb1 (beta') - Rpb2 (beta) interaction site [polypeptide binding]; other site 1104321005812 Ribosomal protein S12-like family; composed of prokaryotic 30S ribosomal protein S12, eukaryotic 40S ribosomal protein S23 and similar proteins. S12 and S23 are located at the interface of the large and small ribosomal subunits, adjacent to the decoding...; Region: Ribosomal_S12_like; cl00312 1104321005813 30S ribosomal protein S7; Validated; Region: PRK05302 1104321005814 elongation factor G; Reviewed; Region: PRK00007 1104321005815 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 1104321005816 G1 box; other site 1104321005817 putative GEF interaction site [polypeptide binding]; other site 1104321005818 GTP/Mg2+ binding site [chemical binding]; other site 1104321005819 Switch I region; other site 1104321005820 G2 box; other site 1104321005821 G3 box; other site 1104321005822 Switch II region; other site 1104321005823 G4 box; other site 1104321005824 G5 box; other site 1104321005825 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 1104321005826 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 1104321005827 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 1104321005828 elongation factor Tu; Reviewed; Region: PRK00049 1104321005829 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 1104321005830 G1 box; other site 1104321005831 GEF interaction site [polypeptide binding]; other site 1104321005832 GTP/Mg2+ binding site [chemical binding]; other site 1104321005833 Switch I region; other site 1104321005834 G2 box; other site 1104321005835 G3 box; other site 1104321005836 Switch II region; other site 1104321005837 G4 box; other site 1104321005838 G5 box; other site 1104321005839 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 1104321005840 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 1104321005841 Antibiotic Binding Site [chemical binding]; other site 1104321005842 30S ribosomal protein S10; Reviewed; Region: rpsJ; PRK00596 1104321005843 50S ribosomal protein L3; Validated; Region: rplC; PRK00001 1104321005844 50S ribosomal protein L4; Provisional; Region: rplD; PRK05319 1104321005845 50S ribosomal protein L23; Reviewed; Region: rplW; PRK05738 1104321005846 50S ribosomal protein L2; Validated; Region: rplB; PRK09374 1104321005847 Ribosomal Proteins L2, RNA binding domain; Region: Ribosomal_L2; pfam00181 1104321005848 Ribosomal Proteins L2, C-terminal domain; Region: Ribosomal_L2_C; pfam03947 1104321005849 30S ribosomal protein S19; Reviewed; Region: rpsS; PRK00357 1104321005850 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 1104321005851 putative translocon binding site; other site 1104321005852 protein-rRNA interface [nucleotide binding]; other site 1104321005853 30S ribosomal protein S3; Reviewed; Region: rpsC; PRK00310 1104321005854 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 1104321005855 G-X-X-G motif; other site 1104321005856 Ribosomal protein S3, C-terminal domain; Region: Ribosomal_S3_C; pfam00189 1104321005857 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 1104321005858 23S rRNA interface [nucleotide binding]; other site 1104321005859 5S rRNA interface [nucleotide binding]; other site 1104321005860 putative antibiotic binding site [chemical binding]; other site 1104321005861 L25 interface [polypeptide binding]; other site 1104321005862 L27 interface [polypeptide binding]; other site 1104321005863 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 1104321005864 23S rRNA interface [nucleotide binding]; other site 1104321005865 putative translocon interaction site; other site 1104321005866 signal recognition particle (SRP54) interaction site; other site 1104321005867 L23 interface [polypeptide binding]; other site 1104321005868 trigger factor interaction site; other site 1104321005869 30S ribosomal protein S17; Reviewed; Region: rpsQ; PRK05610 1104321005870 50S ribosomal protein L14; Validated; Region: rplN; PRK05483 1104321005871 50S ribosomal protein L24; Reviewed; Region: rplX; PRK00004 1104321005872 KOW motif of Ribosomal Protein L26; Region: KOW_RPL26; cd06089 1104321005873 RNA binding site [nucleotide binding]; other site 1104321005874 50S ribosomal protein L5; Validated; Region: rplE; PRK00010 1104321005875 Ribosomal protein L5; Region: Ribosomal_L5; pfam00281 1104321005876 ribosomal L5P family C-terminus; Region: Ribosomal_L5_C; pfam00673 1104321005877 30S ribosomal protein S14; Reviewed; Region: rpsN; PRK08881 1104321005878 30S ribosomal protein S8; Validated; Region: rpsH; PRK00136 1104321005879 50S ribosomal protein L6; Validated; Region: rplF; PRK05498 1104321005880 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 1104321005881 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 1104321005882 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 1104321005883 5S rRNA interface [nucleotide binding]; other site 1104321005884 23S rRNA interface [nucleotide binding]; other site 1104321005885 L5 interface [polypeptide binding]; other site 1104321005886 30S ribosomal protein S5; Validated; Region: rpsE; PRK00550 1104321005887 Ribosomal protein S5, N-terminal domain; Region: Ribosomal_S5; pfam00333 1104321005888 Ribosomal protein S5, C-terminal domain; Region: Ribosomal_S5_C; pfam03719 1104321005889 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 1104321005890 23S rRNA binding site [nucleotide binding]; other site 1104321005891 50S ribosomal protein L15; Reviewed; Region: rplO; PRK05592 1104321005892 preprotein translocase subunit SecY; Reviewed; Region: secY; PRK09204 1104321005893 SecY translocase; Region: SecY; pfam00344 1104321005894 adenylate kinase; Reviewed; Region: adk; PRK00279 1104321005895 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 1104321005896 AMP-binding site [chemical binding]; other site 1104321005897 ATP-AMP (Ap5A)-binding site [chemical binding]; other site 1104321005898 Ribosomal protein S13 [Translation, ribosomal structure and biogenesis]; Region: RpsM; COG0099 1104321005899 30S ribosomal protein S13; Region: bact_S13; TIGR03631 1104321005900 30S ribosomal protein S11; Validated; Region: PRK05309 1104321005901 DNA-directed RNA polymerase subunit alpha; Provisional; Region: PRK05182 1104321005902 N-terminal domain of the Alpha subunit of Bacterial RNA polymerase; Region: RNAP_alpha_NTD; cd06928 1104321005903 alphaNTD homodimer interface [polypeptide binding]; other site 1104321005904 alphaNTD - beta interaction site [polypeptide binding]; other site 1104321005905 alphaNTD - beta' interaction site [polypeptide binding]; other site 1104321005906 Bacterial RNA polymerase, alpha chain C terminal domain; Region: RNA_pol_A_CTD; pfam03118 1104321005907 50S ribosomal protein L17; Validated; Region: rplQ; PRK05591 1104321005908 periplasmic serine protease, Do/DeqQ family; Region: degP_htrA_DO; TIGR02037 1104321005909 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 1104321005910 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 1104321005911 protein binding site [polypeptide binding]; other site 1104321005912 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 1104321005913 protein binding site [polypeptide binding]; other site 1104321005914 recombination factor protein RarA; Reviewed; Region: PRK13342 1104321005915 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 1104321005916 Walker A motif; other site 1104321005917 ATP binding site [chemical binding]; other site 1104321005918 Walker B motif; other site 1104321005919 arginine finger; other site 1104321005920 MgsA AAA+ ATPase C terminal; Region: MgsA_C; pfam12002 1104321005921 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 1104321005922 N-acetyl-D-glucosamine binding site [chemical binding]; other site 1104321005923 catalytic residue [active] 1104321005924 putative outer membrane lipoprotein; Provisional; Region: PRK10510 1104321005925 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 1104321005926 ligand binding site [chemical binding]; other site 1104321005927 recombinase A; Provisional; Region: recA; PRK09354 1104321005928 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 1104321005929 hexamer interface [polypeptide binding]; other site 1104321005930 Walker A motif; other site 1104321005931 ATP binding site [chemical binding]; other site 1104321005932 Walker B motif; other site 1104321005933 alanyl-tRNA synthetase; Reviewed; Region: alaS; PRK00252 1104321005934 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 1104321005935 motif 1; other site 1104321005936 active site 1104321005937 motif 2; other site 1104321005938 motif 3; other site 1104321005939 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 1104321005940 alkaline phosphatase; Provisional; Region: PRK10518 1104321005941 Alkaline phosphatase homologues; alkaline phosphatases are non-specific phosphomonoesterases that catalyze the hydrolysis reaction via a phosphoseryl intermediate to produce inorganic phosphate and the corresponding alcohol, optimally at high pH; Region: alkPPc; cd00016 1104321005942 dimer interface [polypeptide binding]; other site 1104321005943 active site 1104321005944 isocitrate dehydrogenase; Validated; Region: PRK08299 1104321005945 Uncharacterized protein related to arylsulfate sulfotransferase involved in siderophore biosynthesis [General function prediction only]; Region: COG4321 1104321005946 intracellular protease, PfpI family; Region: PfpI; TIGR01382 1104321005947 Type 1 glutamine amidotransferase (GATase1)-like domain found in a subgroup of proteins similar to PfpI from Pyrococcus furiosus; Region: GATase1_PfpI_1; cd03169 1104321005948 conserved cys residue [active] 1104321005949 rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: LasT; COG0565 1104321005950 SpoU rRNA Methylase family; Region: SpoU_methylase; cl17307 1104321005951 glutamate racemase; Provisional; Region: PRK00865 1104321005952 TRAP-type uncharacterized transport system, periplasmic component [General function prediction only]; Region: Imp; COG2358 1104321005953 TRAP transporter solute receptor, TAXI family; Region: TRAP_TAXI; TIGR02122 1104321005954 TRAP transporter, 4TM/12TM fusion protein; Region: TRAP_fused; TIGR02123 1104321005955 DctM-like transporters; Region: DctM; pfam06808 1104321005956 methylmalonyl-CoA mutase; Reviewed; Region: PRK09426 1104321005957 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 1104321005958 active site 1104321005959 substrate binding site [chemical binding]; other site 1104321005960 coenzyme B12 binding site [chemical binding]; other site 1104321005961 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 1104321005962 B12 binding site [chemical binding]; other site 1104321005963 cobalt ligand [ion binding]; other site 1104321005964 Acetyl/propionyl-CoA carboxylase, alpha subunit [Lipid metabolism]; Region: COG4770 1104321005965 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 1104321005966 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 1104321005967 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 1104321005968 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 1104321005969 carboxyltransferase (CT) interaction site; other site 1104321005970 biotinylation site [posttranslational modification]; other site 1104321005971 Acetyl-CoA carboxylase alpha subunit [Lipid metabolism]; Region: AccA; cl17345 1104321005972 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 1104321005973 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 1104321005974 non-specific DNA binding site [nucleotide binding]; other site 1104321005975 salt bridge; other site 1104321005976 sequence-specific DNA binding site [nucleotide binding]; other site 1104321005977 Predicted transcriptional regulator [General function prediction only]; Region: COG3800 1104321005978 Domain of unknown function (DUF955); Region: DUF955; pfam06114 1104321005979 Predicted transcriptional regulator (DUF2083); Region: DUF2083; pfam09856 1104321005980 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3803 1104321005981 7-cyano-7-deazaguanine reductase; Provisional; Region: PRK13258 1104321005982 Bacterial protein of unknown function (DUF883); Region: DUF883; cl01888 1104321005983 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 1104321005984 Helix-Turn-Helix DNA binding domain of the regulatory protein GnyR; Region: HTH_GnyR; cd04776 1104321005985 DNA binding residues [nucleotide binding] 1104321005986 putative dimer interface [polypeptide binding]; other site 1104321005987 Predicted membrane protein [Function unknown]; Region: COG3503 1104321005988 Predicted acyltransferases [Lipid metabolism]; Region: COG1835 1104321005989 Uncharacterized conserved protein [Function unknown]; Region: COG1434 1104321005990 YdcF-like. YdcF-like is a large family of mainly bacterial proteins, with a few members found in fungi, plants, and archaea. Escherichia coli YdcF has been shown to bind S-adenosyl-L-methionine (AdoMet), but a biochemical function has not been...; Region: YdcF-like; cd06259 1104321005991 putative active site [active] 1104321005992 L-serine dehydratase, iron-sulfur-dependent, single chain form; Region: sda_mono; TIGR00720 1104321005993 Serine dehydratase beta chain; Region: SDH_beta; pfam03315 1104321005994 Serine dehydratase alpha chain; Region: SDH_alpha; pfam03313 1104321005995 Uncharacterized conserved protein [Function unknown]; Region: COG5458 1104321005996 D-alanyl-D-alanine carboxypeptidase [Cell envelope biogenesis, outer membrane]; Region: DacC; COG1686 1104321005997 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 1104321005998 Sporulation related domain; Region: SPOR; pfam05036 1104321005999 Uncharacterized conserved protein [Function unknown]; Region: COG2127 1104321006000 ATP-dependent Clp protease ATP-binding subunit clpA; Region: ClpA; TIGR02639 1104321006001 Clp amino terminal domain; Region: Clp_N; pfam02861 1104321006002 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 1104321006003 Walker A motif; other site 1104321006004 ATP binding site [chemical binding]; other site 1104321006005 Walker B motif; other site 1104321006006 arginine finger; other site 1104321006007 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 1104321006008 Walker A motif; other site 1104321006009 ATP binding site [chemical binding]; other site 1104321006010 Walker B motif; other site 1104321006011 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 1104321006012 HINT (histidine triad nucleotide-binding protein) subgroup: Members of this CD belong to the superfamily of histidine triad hydrolases that act on alpha-phosphate of ribonucleotides. This subgroup includes members from all three forms of cellular life; Region: HINT_subgroup; cd01277 1104321006013 HIT family signature motif; other site 1104321006014 catalytic residue [active] 1104321006015 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3146 1104321006016 Protein of unknown function, DUF482; Region: DUF482; pfam04339 1104321006017 Glycerophosphodiester phosphodiesterase domain of uncharacterized bacterial glycerophosphodiester phosphodiesterases; Region: GDPD_like_3; cd08585 1104321006018 Glycerophosphoryl diester phosphodiesterase [Energy production and conversion]; Region: UgpQ; COG0584 1104321006019 putative active site [active] 1104321006020 catalytic site [active] 1104321006021 putative metal binding site [ion binding]; other site 1104321006022 This group of proteins belong to a large family of YjgF/YER057c/UK114-like proteins present in bacteria, archaea, and eukaryotes with no definitive function. The conserved domain is similar in structure to chorismate mutase but there is no sequence...; Region: YjgF_YER057c_UK114_like_1; cd02199 1104321006023 homotrimer interaction site [polypeptide binding]; other site 1104321006024 putative active site [active] 1104321006025 Domain of unknown function (DUF1849); Region: DUF1849; pfam08904 1104321006026 Calcium/calmodulin dependent protein kinase II Association; Region: CaMKII_AD; cl17504 1104321006027 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 1104321006028 rRNA interaction site [nucleotide binding]; other site 1104321006029 S8 interaction site; other site 1104321006030 putative laminin-1 binding site; other site 1104321006031 elongation factor Ts; Provisional; Region: tsf; PRK09377 1104321006032 UBA/TS-N domain; Region: UBA; pfam00627 1104321006033 Elongation factor TS; Region: EF_TS; pfam00889 1104321006034 Elongation factor TS; Region: EF_TS; pfam00889 1104321006035 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 1104321006036 putative nucleotide binding site [chemical binding]; other site 1104321006037 uridine monophosphate binding site [chemical binding]; other site 1104321006038 homohexameric interface [polypeptide binding]; other site 1104321006039 ribosome recycling factor; Reviewed; Region: frr; PRK00083 1104321006040 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 1104321006041 hinge region; other site 1104321006042 undecaprenyl pyrophosphate synthase; Provisional; Region: PRK14834 1104321006043 Cis (Z)-Isoprenyl Diphosphate Synthases (cis-IPPS); homodimers which catalyze the successive 1'-4 condensation of the isopentenyl diphosphate (IPP) molecule to trans,trans-farnesyl diphosphate (FPP) or to cis,trans-FPP to form long-chain polyprenyl...; Region: CIS_IPPS; cl00230 1104321006044 catalytic residue [active] 1104321006045 putative FPP diphosphate binding site; other site 1104321006046 putative FPP binding hydrophobic cleft; other site 1104321006047 dimer interface [polypeptide binding]; other site 1104321006048 putative IPP diphosphate binding site; other site 1104321006049 CDP-diglyceride synthetase [Lipid metabolism]; Region: CdsA; COG0575 1104321006050 Cytidylyltransferase family; Region: CTP_transf_1; pfam01148 1104321006051 Predicted membrane-associated Zn-dependent proteases 1 [Cell envelope biogenesis, outer membrane]; Region: COG0750 1104321006052 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 1104321006053 active site 1104321006054 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 1104321006055 protein binding site [polypeptide binding]; other site 1104321006056 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 1104321006057 putative substrate binding region [chemical binding]; other site 1104321006058 outer membrane protein assembly complex, YaeT protein; Region: OM_YaeT; TIGR03303 1104321006059 POTRA domain, FtsQ-type; Region: POTRA_1; pfam08478 1104321006060 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 1104321006061 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 1104321006062 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 1104321006063 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 1104321006064 Surface antigen; Region: Bac_surface_Ag; pfam01103 1104321006065 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase; Provisional; Region: lpxD; PRK00892 1104321006066 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase, LpxD; Region: LpxD; pfam04613 1104321006067 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 1104321006068 trimer interface [polypeptide binding]; other site 1104321006069 active site 1104321006070 UDP-GlcNAc binding site [chemical binding]; other site 1104321006071 lipid binding site [chemical binding]; lipid-binding site 1104321006072 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 1104321006073 Acyl-[acyl carrier protein]; Region: LpxA; COG1043 1104321006074 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 1104321006075 active site 1104321006076 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3494 1104321006077 Lipid A disaccharide synthetase [Cell envelope biogenesis, outer membrane]; Region: LpxB; COG0763 1104321006078 ipid-A-disaccharide synthase; Provisional; Region: PRK14089 1104321006079 Escherichia coli (Ec) citrate synthase (CS) GltA_like. CS catalyzes the condensation of acetyl coenzyme A (AcCoA) and oxalacetate (OAA) to form citrate and coenzyme A (CoA), the first step in the citric acid cycle (TCA or Krebs cycle). The overall CS...; Region: EcCS_like; cd06114 1104321006080 Citrate synthase [Energy production and conversion]; Region: GltA; COG0372 1104321006081 dimer interface [polypeptide binding]; other site 1104321006082 active site 1104321006083 citrylCoA binding site [chemical binding]; other site 1104321006084 NADH binding [chemical binding]; other site 1104321006085 cationic pore residues; other site 1104321006086 oxalacetate/citrate binding site [chemical binding]; other site 1104321006087 coenzyme A binding site [chemical binding]; other site 1104321006088 catalytic triad [active] 1104321006089 glutamyl-tRNA synthetase; Reviewed; Region: gltX; PRK01406 1104321006090 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 1104321006091 active site 1104321006092 HIGH motif; other site 1104321006093 nucleotide binding site [chemical binding]; other site 1104321006094 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 1104321006095 active site 1104321006096 KMSKS motif; other site 1104321006097 Domain of unknown function (DUF4131); Region: DUF4131; pfam13567 1104321006098 Predicted membrane metal-binding protein [General function prediction only]; Region: ComEC; COG0658 1104321006099 Competence protein; Region: Competence; pfam03772 1104321006100 LexA repressor; Validated; Region: PRK00215 1104321006101 LexA DNA binding domain; Region: LexA_DNA_bind; pfam01726 1104321006102 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 1104321006103 Catalytic site [active] 1104321006104 Molybdopterin biosynthesis enzyme [Coenzyme metabolism]; Region: MoeA; COG0303 1104321006105 MoeA family. Members of this family are involved in biosynthesis of the molybdenum cofactor (MoCF), an essential cofactor of a diverse group of redox enzymes. MoCF biosynthesis is an evolutionarily conserved pathway present in eubacteria, archaea and...; Region: MoeA; cd00887 1104321006106 dimer interface [polypeptide binding]; other site 1104321006107 putative functional site; other site 1104321006108 putative MPT binding site; other site 1104321006109 MoaC family, prokaryotic and eukaryotic. Members of this family are involved in molybdenum cofactor (Moco) biosynthesis, an essential cofactor of a diverse group of redox enzymes. MoaC, a small hexameric protein, converts, together with MoaA, a guanosine...; Region: MoaC_PE; cd01420 1104321006110 trimer interface [polypeptide binding]; other site 1104321006111 dimer interface [polypeptide binding]; other site 1104321006112 putative active site [active] 1104321006113 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 1104321006114 active site 1104321006115 ribulose/triose binding site [chemical binding]; other site 1104321006116 phosphate binding site [ion binding]; other site 1104321006117 substrate (anthranilate) binding pocket [chemical binding]; other site 1104321006118 product (indole) binding pocket [chemical binding]; other site 1104321006119 anthranilate phosphoribosyltransferase; Provisional; Region: trpD; PRK00188 1104321006120 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 1104321006121 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 1104321006122 SurA N-terminal domain; Region: SurA_N_3; cl07813 1104321006123 Parvulin-like peptidyl-prolyl isomerase [Posttranslational modification, protein turnover, chaperones]; Region: SurA; COG0760 1104321006124 PPIC-type PPIASE domain; Region: Rotamase_2; pfam13145 1104321006125 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 1104321006126 triosephosphate isomerase; Provisional; Region: PRK14565 1104321006127 substrate binding site [chemical binding]; other site 1104321006128 dimer interface [polypeptide binding]; other site 1104321006129 catalytic triad [active] 1104321006130 Preprotein translocase subunit SecG [Intracellular trafficking and secretion]; Region: SecG; COG1314 1104321006131 Uncharacterized protein conserved in bacteria [Function unknown]; Region: ErfK; COG1376 1104321006132 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 1104321006133 CTP synthetase; Validated; Region: pyrG; PRK05380 1104321006134 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 1104321006135 Catalytic site [active] 1104321006136 active site 1104321006137 UTP binding site [chemical binding]; other site 1104321006138 Type 1 glutamine amidotransferase (GATase1) domain found in Cytidine Triphosphate Synthetase; Region: GATase1_CTP_Synthase; cd01746 1104321006139 active site 1104321006140 putative oxyanion hole; other site 1104321006141 catalytic triad [active] 1104321006142 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 1104321006143 2-dehydro-3-deoxyphosphooctonate aldolase; Provisional; Region: PRK05198 1104321006144 enolase; Provisional; Region: eno; PRK00077 1104321006145 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 1104321006146 dimer interface [polypeptide binding]; other site 1104321006147 metal binding site [ion binding]; metal-binding site 1104321006148 substrate binding pocket [chemical binding]; other site 1104321006149 Methyltransferase domain; Region: Methyltransf_23; pfam13489 1104321006150 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 1104321006151 S-adenosylmethionine binding site [chemical binding]; other site 1104321006152 Septum formation initiator [Cell division and chromosome partitioning]; Region: COG2919 1104321006153 Septum formation initiator; Region: DivIC; pfam04977 1104321006154 pyruvate dehydrogenase E1 component, alpha subunit; Region: PDH_E1_alph_y; TIGR03182 1104321006155 Thiamine pyrophosphate (TPP) family, E1 of PDC_ADC_BCADC subfamily, TPP-binding module; composed of proteins similar to the E1 components of the human pyruvate dehydrogenase complex (PDC), the acetoin dehydrogenase complex (ADC) and the branched chain...; Region: TPP_E1_PDC_ADC_BCADC; cd02000 1104321006156 tetramer interface [polypeptide binding]; other site 1104321006157 TPP-binding site [chemical binding]; other site 1104321006158 heterodimer interface [polypeptide binding]; other site 1104321006159 phosphorylation loop region [posttranslational modification] 1104321006160 pyruvate dehydrogenase subunit beta; Provisional; Region: PRK11892 1104321006161 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 1104321006162 E3 interaction surface; other site 1104321006163 lipoyl attachment site [posttranslational modification]; other site 1104321006164 Pyrimidine (PYR) binding domain of the beta subunits of the E1 components of human pyruvate dehydrogenase complex (E1- PDHc) and related proteins; Region: TPP_PYR_E1-PDHc-beta_like; cd07036 1104321006165 alpha subunit interface [polypeptide binding]; other site 1104321006166 TPP binding site [chemical binding]; other site 1104321006167 heterodimer interface [polypeptide binding]; other site 1104321006168 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 1104321006169 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 1104321006170 pyruvate dehydrogenase complex dihydrolipoamide acetyltransferase, long form; Region: PDHac_trf_mito; TIGR01349 1104321006171 E3 interaction surface; other site 1104321006172 lipoyl attachment site [posttranslational modification]; other site 1104321006173 e3 binding domain; Region: E3_binding; pfam02817 1104321006174 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 1104321006175 dihydrolipoamide dehydrogenase; Reviewed; Region: PRK06416 1104321006176 Anaerobic glycerol-3-phosphate dehydrogenase [Amino acid transport and metabolism]; Region: GlpB; cl17730 1104321006177 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1104321006178 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 1104321006179 lipoyl synthase; Provisional; Region: PRK05481 1104321006180 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 1104321006181 FeS/SAM binding site; other site 1104321006182 Coenzyme Q-binding protein COQ10p and similar proteins; Region: COQ10p_like; cd07813 1104321006183 putative coenzyme Q binding site [chemical binding]; other site 1104321006184 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK05565 1104321006185 classical (c) SDRs; Region: SDR_c; cd05233 1104321006186 NAD(P) binding site [chemical binding]; other site 1104321006187 active site 1104321006188 Uncharacterized protein (competence- and mitomycin-induced) [General function prediction only]; Region: CinA; COG1546 1104321006189 bifunctional 2-C-methyl-D-erythritol 4-phosphate cytidylyltransferase/2-C-methyl-D-erythritol 2,4-cyclodiphosphate synthase protein; Provisional; Region: ispDF; PRK09382 1104321006190 CDP-ME synthetase is involved in mevalonate-independent isoprenoid production; Region: CDP-ME_synthetase; cd02516 1104321006191 substrate binding site; other site 1104321006192 dimer interface; other site 1104321006193 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 1104321006194 homotrimer interaction site [polypeptide binding]; other site 1104321006195 zinc binding site [ion binding]; other site 1104321006196 CDP-binding sites; other site 1104321006197 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 1104321006198 Dihydrouridine synthase (Dus); Region: Dus; pfam01207 1104321006199 FMN binding site [chemical binding]; other site 1104321006200 active site 1104321006201 catalytic residues [active] 1104321006202 substrate binding site [chemical binding]; other site 1104321006203 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 1104321006204 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 1104321006205 dimer interface [polypeptide binding]; other site 1104321006206 phosphorylation site [posttranslational modification] 1104321006207 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 1104321006208 ATP binding site [chemical binding]; other site 1104321006209 Mg2+ binding site [ion binding]; other site 1104321006210 G-X-G motif; other site 1104321006211 nitrogen regulation protein NR(I); Region: ntrC; TIGR01818 1104321006212 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1104321006213 active site 1104321006214 phosphorylation site [posttranslational modification] 1104321006215 intermolecular recognition site; other site 1104321006216 dimerization interface [polypeptide binding]; other site 1104321006217 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 1104321006218 Walker A motif; other site 1104321006219 ATP binding site [chemical binding]; other site 1104321006220 Walker B motif; other site 1104321006221 arginine finger; other site 1104321006222 Bacterial regulatory protein, Fis family; Region: HTH_8; cl17420 1104321006223 Signal transduction histidine kinase involved in nitrogen fixation and metabolism regulation [Signal transduction mechanisms]; Region: NtrY; COG5000 1104321006224 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 1104321006225 dimerization interface [polypeptide binding]; other site 1104321006226 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 1104321006227 dimer interface [polypeptide binding]; other site 1104321006228 phosphorylation site [posttranslational modification] 1104321006229 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 1104321006230 ATP binding site [chemical binding]; other site 1104321006231 Mg2+ binding site [ion binding]; other site 1104321006232 G-X-G motif; other site 1104321006233 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 1104321006234 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1104321006235 active site 1104321006236 phosphorylation site [posttranslational modification] 1104321006237 intermolecular recognition site; other site 1104321006238 dimerization interface [polypeptide binding]; other site 1104321006239 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 1104321006240 Walker A motif; other site 1104321006241 ATP binding site [chemical binding]; other site 1104321006242 Walker B motif; other site 1104321006243 arginine finger; other site 1104321006244 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 1104321006245 potassium transporter peripheral membrane component; Reviewed; Region: trkA; PRK09496 1104321006246 TrkA-N domain; Region: TrkA_N; pfam02254 1104321006247 TrkA-C domain; Region: TrkA_C; pfam02080 1104321006248 TrkA-N domain; Region: TrkA_N; pfam02254 1104321006249 TrkA-C domain; Region: TrkA_C; pfam02080 1104321006250 Capsular polysaccharide synthesis protein; Region: Caps_synth; pfam05704 1104321006251 bacterial Hfq-like; Region: Hfq; cd01716 1104321006252 hexamer interface [polypeptide binding]; other site 1104321006253 Sm1 motif; other site 1104321006254 RNA binding site [nucleotide binding]; other site 1104321006255 Sm2 motif; other site 1104321006256 GTPases [General function prediction only]; Region: HflX; COG2262 1104321006257 GTP-binding GTPase N-terminal; Region: GTP-bdg_N; pfam13167 1104321006258 HflX GTPase family; Region: HflX; cd01878 1104321006259 G1 box; other site 1104321006260 GTP/Mg2+ binding site [chemical binding]; other site 1104321006261 Switch I region; other site 1104321006262 G2 box; other site 1104321006263 G3 box; other site 1104321006264 Switch II region; other site 1104321006265 G4 box; other site 1104321006266 G5 box; other site 1104321006267 Protease subunit of ATP-dependent Clp proteases [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: ClpP; COG0740 1104321006268 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 1104321006269 oligomer interface [polypeptide binding]; other site 1104321006270 active site residues [active] 1104321006271 ATP-dependent protease ATP-binding subunit ClpX; Provisional; Region: clpX; PRK05342 1104321006272 ClpX C4-type zinc finger; Region: zf-C4_ClpX; pfam06689 1104321006273 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 1104321006274 Walker A motif; other site 1104321006275 ATP binding site [chemical binding]; other site 1104321006276 Walker B motif; other site 1104321006277 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 1104321006278 ATP-dependent Lon protease, bacterial type [Posttranslational modification, protein turnover, chaperones]; Region: Lon; COG0466 1104321006279 Found in ATP-dependent protease La (LON); Region: LON; smart00464 1104321006280 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 1104321006281 Walker A motif; other site 1104321006282 ATP binding site [chemical binding]; other site 1104321006283 Walker B motif; other site 1104321006284 arginine finger; other site 1104321006285 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 1104321006286 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 1104321006287 IHF dimer interface [polypeptide binding]; other site 1104321006288 IHF - DNA interface [nucleotide binding]; other site 1104321006289 excinuclease ABC subunit A; Reviewed; Region: uvrA; PRK00349 1104321006290 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 1104321006291 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 1104321006292 ATP-binding cassette domain II of the excision repair protein UvrA; Region: ABC_UvrA_II; cd03271 1104321006293 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 1104321006294 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 1104321006295 dimer interface [polypeptide binding]; other site 1104321006296 ssDNA binding site [nucleotide binding]; other site 1104321006297 tetramer (dimer of dimers) interface [polypeptide binding]; other site 1104321006298 phosphonates metabolism transcriptional regulator PhnF; Region: C_P_lyase_phnF; TIGR02325 1104321006299 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1104321006300 DNA-binding site [nucleotide binding]; DNA binding site 1104321006301 UTRA domain; Region: UTRA; pfam07702 1104321006302 Uncharacterized component of phosphonate metabolism [Inorganic ion transport and metabolism]; Region: COG3709 1104321006303 Multiple antibiotic transporter [Intracellular trafficking and secretion]; Region: MarC; COG2095 1104321006304 DNA gyrase subunit A; Validated; Region: PRK05560 1104321006305 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 1104321006306 CAP-like domain; other site 1104321006307 active site 1104321006308 primary dimer interface [polypeptide binding]; other site 1104321006309 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 1104321006310 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 1104321006311 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 1104321006312 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 1104321006313 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 1104321006314 phosphopantetheine adenylyltransferase; Provisional; Region: coaD; PRK00168 1104321006315 Phosphopantetheine adenylyltransferase; Region: PPAT; cd02163 1104321006316 active site 1104321006317 (T/H)XGH motif; other site 1104321006318 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 1104321006319 active site 1104321006320 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 1104321006321 active site 1104321006322 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Provisional; Region: queA; PRK00147 1104321006323 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Region: queA; TIGR00113 1104321006324 queuine tRNA-ribosyltransferase; Provisional; Region: tgt; PRK00112 1104321006325 Queuine/archaeosine tRNA-ribosyltransferase [Translation, ribosomal structure and biogenesis]; Region: Tgt; COG0343 1104321006326 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1104321006327 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1104321006328 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 1104321006329 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1104321006330 HlyD family secretion protein; Region: HlyD_3; pfam13437 1104321006331 multidrug efflux protein; Reviewed; Region: PRK09579 1104321006332 luciferase family oxidoreductase, group 1; Region: oxido_grp_1; TIGR03558 1104321006333 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 1104321006334 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cd00347 1104321006335 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 1104321006336 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1104321006337 The C-terminal substrate binding domain of LysR-type transcriptional regulators GcdR-like, contains the type 2 periplasmic binding fold; Region: PBP2_GcdR_like; cd08481 1104321006338 dimerization interface [polypeptide binding]; other site 1104321006339 substrate binding pocket [chemical binding]; other site 1104321006340 Glutaryl-CoA dehydrogenase; Region: GCD; cd01151 1104321006341 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 1104321006342 FAD binding site [chemical binding]; other site 1104321006343 substrate binding pocket [chemical binding]; other site 1104321006344 catalytic base [active] 1104321006345 potential frameshift: common BLAST hit: gi|17987181|ref|NP_539815.1| acyl-CoA transferase 1104321006346 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 1104321006347 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 1104321006348 CoA-transferase family III; Region: CoA_transf_3; pfam02515 1104321006349 Prophage antirepressor [Transcription]; Region: COG3617 1104321006350 BRO family, N-terminal domain; Region: Bro-N; smart01040 1104321006351 Protein of unknown function DUF91; Region: DUF91; cl00709 1104321006352 Uncharacterized conserved protein [Function unknown]; Region: COG3586 1104321006353 Protein of unknown function DUF45; Region: DUF45; pfam01863 1104321006354 Type I site-specific restriction-modification system, R (restriction) subunit and related helicases [Defense mechanisms]; Region: COG0610 1104321006355 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; pfam04313 1104321006356 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 1104321006357 ATP binding site [chemical binding]; other site 1104321006358 putative Mg++ binding site [ion binding]; other site 1104321006359 helicase superfamily c-terminal domain; Region: HELICc; smart00490 1104321006360 Domain of unknown function (DUF3387); Region: DUF3387; pfam11867 1104321006361 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 1104321006362 Type I restriction-modification system methyltransferase subunit [Defense mechanisms]; Region: HsdM; COG0286 1104321006363 HsdM N-terminal domain; Region: HsdM_N; pfam12161 1104321006364 Methyltransferase domain; Region: Methyltransf_26; pfam13659 1104321006365 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 1104321006366 Dioxygenases related to 2-nitropropane dioxygenase [General function prediction only]; Region: COG2070 1104321006367 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 1104321006368 FMN binding site [chemical binding]; other site 1104321006369 substrate binding site [chemical binding]; other site 1104321006370 putative catalytic residue [active] 1104321006371 ATP-dependent DNA ligase; Validated; Region: PRK09247 1104321006372 DEXH box helicase, DNA ligase-associated; Region: DEXH_lig_assoc; TIGR04121 1104321006373 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 1104321006374 ATP binding site [chemical binding]; other site 1104321006375 putative Mg++ binding site [ion binding]; other site 1104321006376 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 1104321006377 nucleotide binding region [chemical binding]; other site 1104321006378 ATP-binding site [chemical binding]; other site 1104321006379 DEAD/H associated; Region: DEAD_assoc; pfam08494 1104321006380 Pyrococcus furiosus PF1019 and related proteins, metallophosphatase domain; Region: MPP_PF1019; cd07391 1104321006381 putative active site [active] 1104321006382 putative metal binding site [ion binding]; other site 1104321006383 conserved hypothetical protein; Region: alph_Pro_TM; TIGR02186 1104321006384 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 1104321006385 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 1104321006386 Sel1-like repeats; Region: SEL1; smart00671 1104321006387 Sel1-like repeats; Region: SEL1; smart00671 1104321006388 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 1104321006389 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 1104321006390 Helix-Turn-Helix DNA binding domain of the regulatory protein GnyR; Region: HTH_GnyR; cd04776 1104321006391 DNA binding residues [nucleotide binding] 1104321006392 putative dimer interface [polypeptide binding]; other site 1104321006393 PII-like signaling protein [Signal transduction mechanisms]; Region: COG1993 1104321006394 camphor resistance protein CrcB; Provisional; Region: PRK14225 1104321006395 camphor resistance protein CrcB; Provisional; Region: PRK14233 1104321006396 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 1104321006397 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1104321006398 HlyD family secretion protein; Region: HlyD_3; pfam13437 1104321006399 potential frameshift: common BLAST hit: gi|225686578|ref|YP_002734550.1| putative multidrug efflux transporter protein 1104321006400 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 1104321006401 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 1104321006402 mannonate dehydratase; Region: uxuA; TIGR00695 1104321006403 mannonate dehydratase; Provisional; Region: PRK03906 1104321006404 Transcriptional regulators [Transcription]; Region: GntR; COG1802 1104321006405 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1104321006406 DNA-binding site [nucleotide binding]; DNA binding site 1104321006407 FCD domain; Region: FCD; pfam07729 1104321006408 glucuronate isomerase; Reviewed; Region: PRK02925 1104321006409 Glucuronate isomerase [Carbohydrate transport and metabolism]; Region: UxaC; COG1904 1104321006410 Mannitol dehydrogenase Rossmann domain; Region: Mannitol_dh; pfam01232 1104321006411 Mannitol-1-phosphate/altronate dehydrogenases [Carbohydrate transport and metabolism]; Region: MtlD; COG0246 1104321006412 Mannitol dehydrogenase C-terminal domain; Region: Mannitol_dh_C; pfam08125 1104321006413 ABC-type uncharacterized transport system, periplasmic component [General function prediction only]; Region: COG4134 1104321006414 hypothetical protein; Provisional; Region: PRK11622 1104321006415 ABC-type sugar transport systems, ATPase components [Carbohydrate transport and metabolism]; Region: MalK; COG3839 1104321006416 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1104321006417 Walker A/P-loop; other site 1104321006418 ATP binding site [chemical binding]; other site 1104321006419 Q-loop/lid; other site 1104321006420 ABC transporter signature motif; other site 1104321006421 Walker B; other site 1104321006422 D-loop; other site 1104321006423 H-loop/switch region; other site 1104321006424 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 1104321006425 putative PBP binding loops; other site 1104321006426 ABC-ATPase subunit interface; other site 1104321006427 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 1104321006428 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 1104321006429 dimer interface [polypeptide binding]; other site 1104321006430 conserved gate region; other site 1104321006431 putative PBP binding loops; other site 1104321006432 ABC-ATPase subunit interface; other site 1104321006433 Domains similar to fish antifreeze type III protein; Region: SAF_AH_GD; cd11613 1104321006434 galactarate dehydratase; Region: galactar-dH20; TIGR03248 1104321006435 D-galactarate dehydratase / Altronate hydrolase, C terminus; Region: GD_AH_C; pfam04295 1104321006436 nickel responsive regulator; Provisional; Region: PRK02967 1104321006437 Ribbon-helix-helix protein, copG family; Region: RHH_1; pfam01402 1104321006438 NikR C terminal nickel binding domain; Region: NikR_C; pfam08753 1104321006439 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 1104321006440 The substrate-binding component of an ABC-type nickel import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA; cd08489 1104321006441 substrate binding site [chemical binding]; other site 1104321006442 nickel transporter permease NikB; Provisional; Region: PRK10352 1104321006443 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 1104321006444 dimer interface [polypeptide binding]; other site 1104321006445 conserved gate region; other site 1104321006446 putative PBP binding loops; other site 1104321006447 ABC-ATPase subunit interface; other site 1104321006448 nickel transporter permease NikC; Provisional; Region: nikC; PRK10417 1104321006449 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 1104321006450 dimer interface [polypeptide binding]; other site 1104321006451 conserved gate region; other site 1104321006452 putative PBP binding loops; other site 1104321006453 ABC-ATPase subunit interface; other site 1104321006454 nickel transporter ATP-binding protein NikD; Provisional; Region: nikD; PRK10418 1104321006455 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1104321006456 Walker A/P-loop; other site 1104321006457 ATP binding site [chemical binding]; other site 1104321006458 Q-loop/lid; other site 1104321006459 ABC transporter signature motif; other site 1104321006460 Walker B; other site 1104321006461 D-loop; other site 1104321006462 H-loop/switch region; other site 1104321006463 nickel transporter ATP-binding protein NikE; Provisional; Region: nikE; PRK10419 1104321006464 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1104321006465 Walker A/P-loop; other site 1104321006466 ATP binding site [chemical binding]; other site 1104321006467 Q-loop/lid; other site 1104321006468 ABC transporter signature motif; other site 1104321006469 Walker B; other site 1104321006470 D-loop; other site 1104321006471 H-loop/switch region; other site 1104321006472 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 1104321006473 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 1104321006474 active site 1104321006475 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1104321006476 The C-teminal substrate binding domain of LysR-like nitrogen assimilation control (NAC) protein, contains the type 2 periplasmic binding fold; Region: PBP2_Nac; cd08433 1104321006477 putative dimerization interface [polypeptide binding]; other site 1104321006478 Acyl-CoA dehydrogenase N terminal; Region: AcylCoA_DH_N; pfam12418 1104321006479 acyl-CoA dehydrogenase; Provisional; Region: PTZ00456 1104321006480 Putative acyl-CoA dehydrogenases similar to fadE5; Region: ACAD_fadE5; cd01153 1104321006481 FAD binding site [chemical binding]; other site 1104321006482 substrate binding site [chemical binding]; other site 1104321006483 catalytic residues [active] 1104321006484 Acetyl-CoA dehydrogenase C-terminal like; Region: Acyl-CoA_dh_C; pfam12806 1104321006485 acetyl-CoA acetyltransferase; Validated; Region: PRK08242 1104321006486 Thiolase are ubiquitous enzymes that catalyze the reversible thiolytic cleavage of 3-ketoacyl-CoA into acyl-CoA and acetyl-CoA, a 2-step reaction involving a covalent intermediate formed with a catalytic cysteine. They are found in prokaryotes and...; Region: thiolase; cd00751 1104321006487 dimer interface [polypeptide binding]; other site 1104321006488 active site 1104321006489 multifunctional fatty acid oxidation complex subunit alpha; Reviewed; Region: fadJ; PRK11154 1104321006490 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 1104321006491 substrate binding site [chemical binding]; other site 1104321006492 oxyanion hole (OAH) forming residues; other site 1104321006493 trimer interface [polypeptide binding]; other site 1104321006494 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 1104321006495 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 1104321006496 Predicted transcriptional regulator [Transcription]; Region: COG2932 1104321006497 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 1104321006498 Catalytic site [active] 1104321006499 Micrococcal nuclease (thermonuclease) homologs [DNA replication, recombination, and repair]; Region: COG1525 1104321006500 lysyl-tRNA synthetase; Reviewed; Region: lysK; PRK00750 1104321006501 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 1104321006502 active site 1104321006503 nucleotide binding site [chemical binding]; other site 1104321006504 HIGH motif; other site 1104321006505 KMSKS motif; other site 1104321006506 tellurite resistance protein terB; Region: terB; cd07176 1104321006507 putative metal binding site [ion binding]; other site 1104321006508 Carbonic anhydrases (CA) are zinc-containing enzymes that catalyze the reversible hydration of carbon dioxide in a two-step mechanism in which the nucleophilic attack of a zinc-bound hydroxide ion on carbon dioxide is followed by the regeneration of an...; Region: beta_CA_cladeA; cd00883 1104321006509 active site clefts [active] 1104321006510 zinc binding site [ion binding]; other site 1104321006511 dimer interface [polypeptide binding]; other site 1104321006512 Eukaryotic translation initiation factor 3 subunit 8 N-terminus; Region: eIF-3c_N; pfam05470 1104321006513 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 1104321006514 The substrate-binding component of an uncharacterized ABC-type nickel/dipeptide/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like_13; cd08517 1104321006515 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 1104321006516 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 1104321006517 dimer interface [polypeptide binding]; other site 1104321006518 conserved gate region; other site 1104321006519 putative PBP binding loops; other site 1104321006520 ABC-ATPase subunit interface; other site 1104321006521 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 1104321006522 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 1104321006523 dimer interface [polypeptide binding]; other site 1104321006524 conserved gate region; other site 1104321006525 putative PBP binding loops; other site 1104321006526 ABC-ATPase subunit interface; other site 1104321006527 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppF; COG1124 1104321006528 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1104321006529 Walker A/P-loop; other site 1104321006530 ATP binding site [chemical binding]; other site 1104321006531 Q-loop/lid; other site 1104321006532 ABC transporter signature motif; other site 1104321006533 Walker B; other site 1104321006534 D-loop; other site 1104321006535 H-loop/switch region; other site 1104321006536 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppF; COG1124 1104321006537 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1104321006538 Walker A/P-loop; other site 1104321006539 ATP binding site [chemical binding]; other site 1104321006540 Q-loop/lid; other site 1104321006541 ABC transporter signature motif; other site 1104321006542 Walker B; other site 1104321006543 D-loop; other site 1104321006544 H-loop/switch region; other site 1104321006545 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 1104321006546 pyrroline-5-carboxylate reductase; Reviewed; Region: PRK11880 1104321006547 NADP oxidoreductase coenzyme F420-dependent; Region: F420_oxidored; cl17232 1104321006548 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional; Region: PRK14188 1104321006549 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 1104321006550 NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080 1104321006551 homodimer interface [polypeptide binding]; other site 1104321006552 NADP binding site [chemical binding]; other site 1104321006553 substrate binding site [chemical binding]; other site 1104321006554 phosphogluconate dehydratase; Validated; Region: PRK09054 1104321006555 6-phosphogluconate dehydratase; Region: edd; TIGR01196 1104321006556 6-phosphogluconolactonase/Glucosamine-6-phosphate isomerase/deaminase [Carbohydrate transport and metabolism]; Region: NagB; COG0363 1104321006557 6PGL: 6-Phosphogluconolactonase (6PGL) subfamily; 6PGL catalyzes the second step of the oxidative phase of the pentose phosphate pathway, the hydrolyzation of 6-phosphoglucono-1,5-lactone (delta form) to 6-phosphogluconate. 6PGL is thought to guard...; Region: 6PGL; cd01400 1104321006558 putative active site [active] 1104321006559 glucose-6-phosphate 1-dehydrogenase; Validated; Region: PRK05722 1104321006560 Glucose-6-phosphate dehydrogenase, NAD binding domain; Region: G6PD_N; pfam00479 1104321006561 Glucose-6-phosphate dehydrogenase, C-terminal domain; Region: G6PD_C; pfam02781 1104321006562 putative beta-ketoacyl acyl carrier protein [ACP] reductase (BKR), subgroup 3, classical (c) SDR; Region: BKR_3_SDR_c; cd05345 1104321006563 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK07231 1104321006564 putative NAD(P) binding site [chemical binding]; other site 1104321006565 active site 1104321006566 potential frameshift: common BLAST hit: gi|256015540|ref|YP_003105549.1| multi-drug resistance efflux protein 1104321006567 drug efflux system protein MdtG; Provisional; Region: PRK09874 1104321006568 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 1104321006569 Predicted membrane protein [Function unknown]; Region: COG4541 1104321006570 Predicted branched-chain amino acid permease (azaleucine resistance) [Amino acid transport and metabolism]; Region: AzlC; COG1296 1104321006571 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 1104321006572 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cd00090 1104321006573 putative DNA binding site [nucleotide binding]; other site 1104321006574 putative Zn2+ binding site [ion binding]; other site 1104321006575 AsnC family; Region: AsnC_trans_reg; pfam01037 1104321006576 Hint domain; Region: Hint_2; pfam13403 1104321006577 Transcriptional regulators [Transcription]; Region: MarR; COG1846 1104321006578 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 1104321006579 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 1104321006580 hypothetical protein; Reviewed; Region: PRK12275 1104321006581 four helix bundle protein; Region: TIGR02436 1104321006582 Glutamine synthetase [Amino acid transport and metabolism]; Region: GlnA; COG0174 1104321006583 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 1104321006584 Domain of unknown function (DUF1127); Region: DUF1127; cl02276 1104321006585 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1104321006586 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1104321006587 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 1104321006588 dimerization interface [polypeptide binding]; other site 1104321006589 exodeoxyribonuclease VII large subunit; Reviewed; Region: xseA; PRK00286 1104321006590 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 1104321006591 generic binding surface II; other site 1104321006592 generic binding surface I; other site 1104321006593 Gamma-glutamylcysteine synthetase [Coenzyme metabolism]; Region: GshA; COG3572 1104321006594 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1385 1104321006595 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 1104321006596 MarR family; Region: MarR_2; pfam12802 1104321006597 Fusaric acid resistance protein family; Region: FUSC; pfam04632 1104321006598 Fusaric acid resistance protein-like; Region: FUSC_2; pfam13515 1104321006599 Protein of unknown function (DUF1656); Region: DUF1656; pfam07869 1104321006600 Multidrug resistance efflux pump [Defense mechanisms]; Region: EmrA; COG1566 1104321006601 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1104321006602 HlyD family secretion protein; Region: HlyD_3; pfam13437 1104321006603 Metal binding protein TroA_a. These proteins are predicted to function as initial receptors in ABC transport of metal ions in eubacteria. They belong to the TroA superfamily of helical backbone metal receptor proteins that share a distinct fold and...; Region: TroA_a; cd01148 1104321006604 proposed F420-0 ABC transporter, periplasmic F420-0 binding protein; Region: F420-O_ABCperi; TIGR03868 1104321006605 putative ligand binding residues [chemical binding]; other site 1104321006606 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 1104321006607 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 1104321006608 ABC-ATPase subunit interface; other site 1104321006609 dimer interface [polypeptide binding]; other site 1104321006610 putative PBP binding regions; other site 1104321006611 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 1104321006612 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 1104321006613 Walker A/P-loop; other site 1104321006614 ATP binding site [chemical binding]; other site 1104321006615 Q-loop/lid; other site 1104321006616 ABC transporter signature motif; other site 1104321006617 Walker B; other site 1104321006618 D-loop; other site 1104321006619 H-loop/switch region; other site 1104321006620 Uncharacterized conserved protein [Function unknown]; Region: COG5476 1104321006621 Protein of unknown function (DUF1485); Region: DUF1485; pfam07364 1104321006622 MlrC C-terminus; Region: MlrC_C; pfam07171 1104321006623 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 1104321006624 homotrimer interaction site [polypeptide binding]; other site 1104321006625 putative active site [active] 1104321006626 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 1104321006627 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 1104321006628 dimer interface [polypeptide binding]; other site 1104321006629 conserved gate region; other site 1104321006630 putative PBP binding loops; other site 1104321006631 ABC-ATPase subunit interface; other site 1104321006632 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 1104321006633 dimer interface [polypeptide binding]; other site 1104321006634 conserved gate region; other site 1104321006635 putative PBP binding loops; other site 1104321006636 ABC-ATPase subunit interface; other site 1104321006637 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 1104321006638 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 1104321006639 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 1104321006640 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1104321006641 NAD(P) binding site [chemical binding]; other site 1104321006642 active site 1104321006643 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 1104321006644 Walker A/P-loop; other site 1104321006645 ATP binding site [chemical binding]; other site 1104321006646 ABC transporter; Region: ABC_tran; pfam00005 1104321006647 Q-loop/lid; other site 1104321006648 ABC transporter signature motif; other site 1104321006649 Walker B; other site 1104321006650 D-loop; other site 1104321006651 H-loop/switch region; other site 1104321006652 TOBE domain; Region: TOBE; pfam03459 1104321006653 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 1104321006654 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 1104321006655 RpiR-like protein. RpiR contains a SIS (Sugar ISomerase) domain, which is found in many phosphosugar isomerases and phosphosugar binding proteins. In E. coli, rpiR negatively regulates the expression of rpiB gene. Both rpiB and rpiA are ribose phosphate...; Region: SIS_RpiR; cd05013 1104321006656 putative active site [active] 1104321006657 Predicted amino acid aldolase or racemase [Amino acid transport and metabolism]; Region: COG3616 1104321006658 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, Low Specificity D-Threonine Aldolase-like; Region: PLPDE_III_LS_D-TA_like; cd06820 1104321006659 dimer interface [polypeptide binding]; other site 1104321006660 active site 1104321006661 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 1104321006662 substrate binding site [chemical binding]; other site 1104321006663 catalytic residue [active] 1104321006664 ABC-type proline/glycine betaine transport system, ATPase component [Amino acid transport and metabolism]; Region: ProV; COG4175 1104321006665 ATP-binding cassette domain of the osmoprotectant proline/glycine betaine uptake system; Region: ABC_Pro_Gly_Betaine; cd03294 1104321006666 Walker A/P-loop; other site 1104321006667 ATP binding site [chemical binding]; other site 1104321006668 Q-loop/lid; other site 1104321006669 ABC transporter signature motif; other site 1104321006670 Walker B; other site 1104321006671 D-loop; other site 1104321006672 H-loop/switch region; other site 1104321006673 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-called...; Region: CBS_pair; cl15354 1104321006674 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 1104321006675 dimer interface [polypeptide binding]; other site 1104321006676 conserved gate region; other site 1104321006677 putative PBP binding loops; other site 1104321006678 ABC-ATPase subunit interface; other site 1104321006679 ABC-type proline/glycine betaine transport systems, periplasmic components [Amino acid transport and metabolism]; Region: ProX; COG2113 1104321006680 Substrate binding domain of ABC-type glycine betaine transport system; Region: OpuAC; pfam04069 1104321006681 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 1104321006682 EamA-like transporter family; Region: EamA; pfam00892 1104321006683 BA14K-like protein; Region: BA14K; pfam07886 1104321006684 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 1104321006685 Iron-containing alcohol dehydrogenases-like, involved in the linear alkylbenzenesulfonate (LAS) degradation pathway; Region: Fe-ADH7; cd08192 1104321006686 putative active site [active] 1104321006687 metal binding site [ion binding]; metal-binding site 1104321006688 Glutamine synthetase [Amino acid transport and metabolism]; Region: GlnA; COG0174 1104321006689 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 1104321006690 Predicted N-formylglutamate amidohydrolase [Amino acid transport and metabolism]; Region: COG3931 1104321006691 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 1104321006692 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 1104321006693 RpiR-like protein. RpiR contains a SIS (Sugar ISomerase) domain, which is found in many phosphosugar isomerases and phosphosugar binding proteins. In E. coli, rpiR negatively regulates the expression of rpiB gene. Both rpiB and rpiA are ribose phosphate...; Region: SIS_RpiR; cd05013 1104321006694 putative active site [active] 1104321006695 Uncharacterized NAD(FAD)-dependent dehydrogenases [General function prediction only]; Region: HcaD; COG0446 1104321006696 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 1104321006697 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1104321006698 Uncharacterized conserved small protein [Function unknown]; Region: COG5457 1104321006699 glycine cleavage system aminomethyltransferase T; Provisional; Region: gcvT; PRK13579 1104321006700 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 1104321006701 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 1104321006702 lipoyl attachment site [posttranslational modification]; other site 1104321006703 glycine dehydrogenase; Provisional; Region: PRK05367 1104321006704 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 1104321006705 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1104321006706 catalytic residue [active] 1104321006707 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 1104321006708 tetramer interface [polypeptide binding]; other site 1104321006709 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1104321006710 catalytic residue [active] 1104321006711 leucine-responsive transcriptional regulator; Provisional; Region: PRK11169 1104321006712 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cd00090 1104321006713 putative DNA binding site [nucleotide binding]; other site 1104321006714 putative Zn2+ binding site [ion binding]; other site 1104321006715 AsnC family; Region: AsnC_trans_reg; pfam01037 1104321006716 bifunctional proline dehydrogenase/pyrroline-5-carboxylate dehydrogenase; Reviewed; Region: PRK11905 1104321006717 Proline dehydrogenase [Amino acid transport and metabolism]; Region: PutA; COG0506 1104321006718 Delta(1)-pyrroline-5-carboxylate dehydrogenase, PutA; Region: ALDH_PutA-P5CDH; cd07125 1104321006719 Glutamate binding site [chemical binding]; other site 1104321006720 NAD binding site [chemical binding]; other site 1104321006721 catalytic residues [active] 1104321006722 2-aminoethylphosphonate ABC transporter substrate-binding protein; Provisional; Region: PRK15046 1104321006723 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 1104321006724 ABC-type Fe3+ transport system, permease component [Inorganic ion transport and metabolism]; Region: ThiP; COG1178 1104321006725 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 1104321006726 dimer interface [polypeptide binding]; other site 1104321006727 conserved gate region; other site 1104321006728 putative PBP binding loops; other site 1104321006729 ABC-ATPase subunit interface; other site 1104321006730 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 1104321006731 dimer interface [polypeptide binding]; other site 1104321006732 conserved gate region; other site 1104321006733 putative PBP binding loops; other site 1104321006734 ABC-ATPase subunit interface; other site 1104321006735 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 1104321006736 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1104321006737 Walker A/P-loop; other site 1104321006738 ATP binding site [chemical binding]; other site 1104321006739 Q-loop/lid; other site 1104321006740 ABC transporter signature motif; other site 1104321006741 Walker B; other site 1104321006742 D-loop; other site 1104321006743 H-loop/switch region; other site 1104321006744 TOBE domain; Region: TOBE_2; pfam08402 1104321006745 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 1104321006746 Bacterial family of Mg++ dependent phosphatases, related to inositol monophosphatases. These enzymes may dephosphorylate inositol monophosphate or similar substrates; Region: Bacterial_IMPase_like_2; cd01643 1104321006747 active site 1104321006748 Uncharacterized enzyme involved in inositol metabolism [Carbohydrate transport and metabolism]; Region: IolB; COG3718 1104321006749 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 1104321006750 Acetolactate synthase [Amino acid transport and metabolism]; Region: COG3962 1104321006751 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 1104321006752 PYR/PP interface [polypeptide binding]; other site 1104321006753 dimer interface [polypeptide binding]; other site 1104321006754 TPP binding site [chemical binding]; other site 1104321006755 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 1104321006756 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 1104321006757 TPP-binding site [chemical binding]; other site 1104321006758 potential frameshift: common BLAST hit: gi|189022698|ref|YP_001932439.1| Carbohydrate kinase, PfkB 1104321006759 Uncharacterized protein conserved in bacteria (DUF2090); Region: DUF2090; pfam09863 1104321006760 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 1104321006761 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 1104321006762 substrate binding site [chemical binding]; other site 1104321006763 ATP binding site [chemical binding]; other site 1104321006764 Uncharacterized protein conserved in bacteria (DUF2090); Region: DUF2090; pfam09863 1104321006765 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 1104321006766 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 1104321006767 RpiR-like protein. RpiR contains a SIS (Sugar ISomerase) domain, which is found in many phosphosugar isomerases and phosphosugar binding proteins. In E. coli, rpiR negatively regulates the expression of rpiB gene. Both rpiB and rpiA are ribose phosphate...; Region: SIS_RpiR; cd05013 1104321006768 putative active site [active] 1104321006769 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 1104321006770 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 1104321006771 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 1104321006772 Protein of unknown function (DUF1612); Region: DUF1612; pfam07756 1104321006773 HTH DNA binding domain; Region: HTH_13; pfam11972 1104321006774 DNA-binding transcriptional regulator OxyR; Provisional; Region: PRK11151 1104321006775 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1104321006776 The C-terminal substrate-binding domain of the LysR-type transcriptional regulator OxyR, a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_OxyR; cd08411 1104321006777 dimerization interface [polypeptide binding]; other site 1104321006778 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 1104321006779 Peroxiredoxin (PRX) family, Typical 2-Cys PRX subfamily; PRXs are thiol-specific antioxidant (TSA) proteins, which confer a protective role in cells through its peroxidase activity by reducing hydrogen peroxide, peroxynitrite, and organic hydroperoxides; Region: PRX_Typ2cys; cd03015 1104321006780 dimer interface [polypeptide binding]; other site 1104321006781 decamer (pentamer of dimers) interface [polypeptide binding]; other site 1104321006782 catalytic triad [active] 1104321006783 peroxidatic and resolving cysteines [active] 1104321006784 alkylhydroperoxidase, AhpD family; Region: ahpD; TIGR00777 1104321006785 Carboxymuconolactone decarboxylase family; Region: CMD; pfam02627 1104321006786 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 1104321006787 metabolite-proton symporter; Region: 2A0106; TIGR00883 1104321006788 putative substrate translocation pore; other site 1104321006789 multicopper oxidase; Provisional; Region: PRK10965 1104321006790 Multicopper oxidase; Region: Cu-oxidase_3; pfam07732 1104321006791 Multicopper oxidase; Region: Cu-oxidase; pfam00394 1104321006792 Multicopper oxidase; Region: Cu-oxidase_2; pfam07731 1104321006793 Cu/Zn superoxide dismutase [Inorganic ion transport and metabolism]; Region: SodC; COG2032 1104321006794 Copper/zinc superoxide dismutase (SOD). superoxide dismutases catalyse the conversion of superoxide radicals to molecular oxygen. Three evolutionarily distinct families of SODs are known, of which the copper/zinc-binding family is one. Defects in the...; Region: Cu-Zn_Superoxide_Dismutase; cd00305 1104321006795 E-class dimer interface [polypeptide binding]; other site 1104321006796 P-class dimer interface [polypeptide binding]; other site 1104321006797 active site 1104321006798 Cu2+ binding site [ion binding]; other site 1104321006799 Zn2+ binding site [ion binding]; other site 1104321006800 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 1104321006801 hydroxyglutarate oxidase; Provisional; Region: PRK11728 1104321006802 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 1104321006803 ATP-binding cassette domain of the carbohydrate and solute transporters-like; Region: ABC_Carb_Solutes_like; cd03259 1104321006804 Walker A/P-loop; other site 1104321006805 ATP binding site [chemical binding]; other site 1104321006806 Q-loop/lid; other site 1104321006807 ABC transporter signature motif; other site 1104321006808 Walker B; other site 1104321006809 D-loop; other site 1104321006810 H-loop/switch region; other site 1104321006811 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 1104321006812 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 1104321006813 ABC-type Fe3+ transport system, permease component [Inorganic ion transport and metabolism]; Region: ThiP; COG1178 1104321006814 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 1104321006815 dimer interface [polypeptide binding]; other site 1104321006816 conserved gate region; other site 1104321006817 putative PBP binding loops; other site 1104321006818 ABC-ATPase subunit interface; other site 1104321006819 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 1104321006820 dimer interface [polypeptide binding]; other site 1104321006821 conserved gate region; other site 1104321006822 putative PBP binding loops; other site 1104321006823 ABC-ATPase subunit interface; other site 1104321006824 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3453 1104321006825 formate dehydrogenase accessory protein; Reviewed; Region: PRK00724 1104321006826 lumazine synthase (6,7-dimethyl-8-ribityllumazine synthase, LS), catalyzes the penultimate step in the biosynthesis of riboflavin (vitamin B2); type-II; Region: Lumazine_synthase-II; cd09208 1104321006827 active site 1104321006828 homopentamer interface [polypeptide binding]; other site 1104321006829 dimer interface [polypeptide binding]; other site 1104321006830 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 1104321006831 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 1104321006832 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 1104321006833 dimer interface [polypeptide binding]; other site 1104321006834 conserved gate region; other site 1104321006835 putative PBP binding loops; other site 1104321006836 ABC-ATPase subunit interface; other site 1104321006837 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 1104321006838 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 1104321006839 dimer interface [polypeptide binding]; other site 1104321006840 conserved gate region; other site 1104321006841 putative PBP binding loops; other site 1104321006842 ABC-ATPase subunit interface; other site 1104321006843 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 1104321006844 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 1104321006845 Walker A/P-loop; other site 1104321006846 ATP binding site [chemical binding]; other site 1104321006847 Q-loop/lid; other site 1104321006848 ABC transporter signature motif; other site 1104321006849 Walker B; other site 1104321006850 D-loop; other site 1104321006851 H-loop/switch region; other site 1104321006852 TOBE domain; Region: TOBE_2; pfam08402 1104321006853 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 1104321006854 putative transporter; Provisional; Region: PRK10504 1104321006855 putative substrate translocation pore; other site 1104321006856 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 1104321006857 23S rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: FtsJ; COG0293 1104321006858 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 1104321006859 S-adenosylmethionine binding site [chemical binding]; other site 1104321006860 exopolyphosphatase; Region: exo_poly_only; TIGR03706 1104321006861 Ppx/GppA phosphatase family; Region: Ppx-GppA; pfam02541 1104321006862 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1104321006863 ABC transporter; Region: ABC_tran; pfam00005 1104321006864 Q-loop/lid; other site 1104321006865 ABC transporter signature motif; other site 1104321006866 Walker B; other site 1104321006867 D-loop; other site 1104321006868 H-loop/switch region; other site 1104321006869 Protocatechuate 3,4-dioxygenase beta subunit [Secondary metabolites biosynthesis, transport, and catabolism]; Region: PcaH; COG3485 1104321006870 Protocatechuate 3,4-dioxygenase beta subunit N terminal; Region: PCDO_beta_N; pfam12391 1104321006871 Intradiol dioxygenases catalyze the critical ring-cleavage step in the conversion of catecholate derivatives to citric acid cycle intermediates. This family contains catechol 1,2-dioxygenases and protocatechuate 3,4-dioxygenases which are mononuclear...; Region: intradiol_dioxygenase; cl17208 1104321006872 active site 1104321006873 4-carboxymuconolactone decarboxylase; Region: decarb_PcaC; TIGR02425 1104321006874 3-oxoadipate enol-lactonase; Region: protocat_pcaD; TIGR02427 1104321006875 pca operon transcription factor PcaQ; Region: TF_pcaQ; TIGR02424 1104321006876 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1104321006877 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 1104321006878 dimerization interface [polypeptide binding]; other site 1104321006879 4-hydroxybenzoate 3-monooxygenase; Validated; Region: PRK08243 1104321006880 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 1104321006881 hypothetical protein; Provisional; Region: PRK07236 1104321006882 4-hydroxyphenylacetate catabolism regulatory protein HpaA; Region: HpaA; TIGR02297 1104321006883 Cupin domain; Region: Cupin_2; cl17218 1104321006884 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1104321006885 beta-ketoadipate pathway transcriptional regulators, PcaR/PcaU/PobR family; Region: pcaR_pcaU; TIGR02431 1104321006886 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 1104321006887 Bacterial transcriptional regulator; Region: IclR; pfam01614 1104321006888 potential frameshift: common BLAST hit: gi|225686418|ref|YP_002734390.1| 3-oxoacid CoA-transferase, A subunit 1104321006889 Coenzyme A transferase; Region: CoA_trans; cl17247 1104321006890 Coenzyme A transferase; Region: CoA_trans; cl17247 1104321006891 3-oxoacid CoA-transferase, B subunit; Region: pcaJ_scoB_fam; TIGR02428 1104321006892 beta-ketoadipyl CoA thiolase; Validated; Region: PRK09050 1104321006893 Thiolase are ubiquitous enzymes that catalyze the reversible thiolytic cleavage of 3-ketoacyl-CoA into acyl-CoA and acetyl-CoA, a 2-step reaction involving a covalent intermediate formed with a catalytic cysteine. They are found in prokaryotes and...; Region: thiolase; cd00751 1104321006894 dimer interface [polypeptide binding]; other site 1104321006895 active site 1104321006896 Predicted metal-dependent hydrolase with the TIM-barrel fold [General function prediction only]; Region: COG1574 1104321006897 YtcJ_like metal dependent amidohydrolases. YtcJ is a Bacillus subtilis ORF of unknown function. The Arabidopsis homolog LAF3 has been identified as a factor required for photochrome A signalling; Region: YtcJ_like; cd01300 1104321006898 active site 1104321006899 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cd00090 1104321006900 putative DNA binding site [nucleotide binding]; other site 1104321006901 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 1104321006902 putative Zn2+ binding site [ion binding]; other site 1104321006903 AsnC family; Region: AsnC_trans_reg; pfam01037 1104321006904 Saccharopine dehydrogenase and related proteins [Amino acid transport and metabolism]; Region: LYS9; COG1748 1104321006905 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1104321006906 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 1104321006907 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 1104321006908 substrate binding pocket [chemical binding]; other site 1104321006909 membrane-bound complex binding site; other site 1104321006910 hinge residues; other site 1104321006911 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 1104321006912 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 1104321006913 substrate binding pocket [chemical binding]; other site 1104321006914 membrane-bound complex binding site; other site 1104321006915 hinge residues; other site 1104321006916 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 1104321006917 hydroxyglutarate oxidase; Provisional; Region: PRK11728 1104321006918 hydroxyglutarate oxidase; Provisional; Region: PRK11728 1104321006919 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1104321006920 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 1104321006921 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1104321006922 DNA polymerase III, epsilon subunit and related 3'-5' exonucleases [DNA replication, recombination, and repair]; Region: DnaQ; COG0847 1104321006923 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 1104321006924 active site 1104321006925 catalytic site [active] 1104321006926 substrate binding site [chemical binding]; other site 1104321006927 Pyrimidine dimer DNA glycosylase; Region: Pyr_excise; pfam03013 1104321006928 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1104321006929 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1104321006930 metal binding site [ion binding]; metal-binding site 1104321006931 active site 1104321006932 I-site; other site 1104321006933 Uncharacterized conserved protein [Function unknown]; Region: COG3391 1104321006934 Esterase-like activity of phytase; Region: Phytase-like; pfam13449 1104321006935 DNA polymerase IV; Provisional; Region: PRK02794 1104321006936 DNA Polymerase IV/Kappa; Region: PolY_Pol_IV_kappa; cd03586 1104321006937 active site 1104321006938 DNA binding site [nucleotide binding] 1104321006939 nucleoside diphosphate kinase regulator; Provisional; Region: PRK05753 1104321006940 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 1104321006941 Protein of unknown function (DUF3572); Region: DUF3572; pfam12096 1104321006942 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 1104321006943 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1104321006944 active site 1104321006945 phosphorylation site [posttranslational modification] 1104321006946 intermolecular recognition site; other site 1104321006947 dimerization interface [polypeptide binding]; other site 1104321006948 response regulator PleD; Reviewed; Region: pleD; PRK09581 1104321006949 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1104321006950 active site 1104321006951 phosphorylation site [posttranslational modification] 1104321006952 intermolecular recognition site; other site 1104321006953 dimerization interface [polypeptide binding]; other site 1104321006954 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1104321006955 active site 1104321006956 phosphorylation site [posttranslational modification] 1104321006957 intermolecular recognition site; other site 1104321006958 dimerization interface [polypeptide binding]; other site 1104321006959 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1104321006960 metal binding site [ion binding]; metal-binding site 1104321006961 active site 1104321006962 I-site; other site 1104321006963 50S ribosomal protein L33; Validated; Region: rpmG; PRK00595 1104321006964 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1104321006965 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 1104321006966 putative substrate translocation pore; other site 1104321006967 hypothetical protein; Provisional; Region: PRK05978 1104321006968 ribonuclease R; Region: RNase_R; TIGR02063 1104321006969 RNB domain; Region: RNB; pfam00773 1104321006970 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 1104321006971 RNA binding site [nucleotide binding]; other site 1104321006972 DNA topoisomerase I subunit omega; Validated; Region: PRK07561 1104321006973 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 1104321006974 active site 1104321006975 interdomain interaction site; other site 1104321006976 putative metal-binding site [ion binding]; other site 1104321006977 nucleotide binding site [chemical binding]; other site 1104321006978 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 1104321006979 domain I; other site 1104321006980 DNA binding groove [nucleotide binding] 1104321006981 phosphate binding site [ion binding]; other site 1104321006982 domain II; other site 1104321006983 domain III; other site 1104321006984 nucleotide binding site [chemical binding]; other site 1104321006985 catalytic site [active] 1104321006986 domain IV; other site 1104321006987 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 1104321006988 Topoisomerase C-terminal repeat; Region: Toprim_C_rpt; pfam13368 1104321006989 Topoisomerase C-terminal repeat; Region: Toprim_C_rpt; pfam13368 1104321006990 Topoisomerase C-terminal repeat; Region: Toprim_C_rpt; pfam13368 1104321006991 Predicted Rossmann fold nucleotide-binding protein involved in DNA uptake [DNA replication, recombination, and repair / Intracellular trafficking and secretion]; Region: Smf; COG0758 1104321006992 DNA protecting protein DprA; Region: dprA; TIGR00732 1104321006993 putative glycerol-3-phosphate acyltransferase PlsY; Provisional; Region: PRK00220 1104321006994 dihydroorotase; Validated; Region: PRK09059 1104321006995 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 1104321006996 Dihydroorotase (DHOase), subgroup IIa; DHOases catalyze the reversible interconversion of carbamoyl aspartate to dihydroorotate, a key reaction in pyrimidine biosynthesis. This subgroup also contains proteins that lack the active site, like unc-33, a C; Region: DHOase_IIa; cd01317 1104321006997 active site 1104321006998 aspartate carbamoyltransferase catalytic subunit; Provisional; Region: pyrB; PRK00856 1104321006999 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 1104321007000 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 1104321007001 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 1104321007002 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 1104321007003 active site 1104321007004 Predicted endonuclease involved in recombination (possible Holliday junction resolvase in Mycoplasmas and B. subtilis) [DNA replication, recombination, and repair]; Region: COG0816 1104321007005 Predicted Zn-dependent hydrolases of the beta-lactamase fold [General function prediction only]; Region: COG2220 1104321007006 metal-dependent hydrolase; Provisional; Region: PRK00685 1104321007007 aspartyl/glutamyl-tRNA amidotransferase subunit C; Reviewed; Region: gatC; PRK00034 1104321007008 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 1104321007009 aspartyl/glutamyl-tRNA amidotransferase subunit A; Reviewed; Region: gatA; PRK00012 1104321007010 DNA topoisomerase IV subunit B; Reviewed; Region: PRK05559 1104321007011 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 1104321007012 Mg2+ binding site [ion binding]; other site 1104321007013 G-X-G motif; other site 1104321007014 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 1104321007015 anchoring element; other site 1104321007016 dimer interface [polypeptide binding]; other site 1104321007017 ATP binding site [chemical binding]; other site 1104321007018 Topoisomerase-primase domain. This is a nucleotidyl transferase/hydrolase domain found in type IA, type IIA and type IIB topoisomerases, bacterial DnaG-type primases, small primase-like proteins from bacteria and archaea, OLD family nucleases from...; Region: TOPRIM; cl00718 1104321007019 active site 1104321007020 metal binding site [ion binding]; metal-binding site 1104321007021 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 1104321007022 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 1104321007023 EamA-like transporter family; Region: EamA; pfam00892 1104321007024 lipoate-protein ligase B; Provisional; Region: PRK14341 1104321007025 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 1104321007026 PAS domain; Region: PAS_9; pfam13426 1104321007027 putative active site [active] 1104321007028 heme pocket [chemical binding]; other site 1104321007029 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 1104321007030 PAS fold; Region: PAS_3; pfam08447 1104321007031 putative active site [active] 1104321007032 heme pocket [chemical binding]; other site 1104321007033 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 1104321007034 HWE histidine kinase; Region: HWE_HK; pfam07536 1104321007035 BA14K-like protein; Region: BA14K; pfam07886 1104321007036 Type IV secretory pathway, VirJ component [Intracellular trafficking and secretion]; Region: VirJ; COG3946 1104321007037 Bacterial virulence protein (VirJ); Region: VirJ; pfam06057 1104321007038 Predicted integral membrane protein [Function unknown]; Region: COG0392 1104321007039 Uncharacterized conserved protein [Function unknown]; Region: COG2898 1104321007040 Uncharacterized conserved protein (DUF2156); Region: DUF2156; pfam09924 1104321007041 Cytochrome c biogenesis protein [Posttranslational modification, protein turnover, chaperones]; Region: CcdA; COG0785 1104321007042 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; cl15788 1104321007043 bifunctional N-acetylglucosamine-1-phosphate uridyltransferase/glucosamine-1-phosphate acetyltransferase; Provisional; Region: glmU; PRK14353 1104321007044 N-terminal domain of bacterial GlmU; Region: GT2_GlmU_N_bac; cd02540 1104321007045 Substrate binding site; other site 1104321007046 Mg++ binding site; other site 1104321007047 N-acetyl-glucosamine-1-phosphate uridyltransferase (GlmU), C-terminal left-handed beta-helix (LbH) acetyltransferase domain: GlmU is also known as UDP-N-acetylglucosamine pyrophosphorylase. It is a bifunctional bacterial enzyme that catalyzes two...; Region: LbH_GlmU_C; cd03353 1104321007048 active site 1104321007049 substrate binding site [chemical binding]; other site 1104321007050 CoA binding site [chemical binding]; other site 1104321007051 glucosamine--fructose-6-phosphate aminotransferase; Reviewed; Region: PRK00331 1104321007052 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 1104321007053 glutaminase active site [active] 1104321007054 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 1104321007055 dimer interface [polypeptide binding]; other site 1104321007056 active site 1104321007057 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 1104321007058 dimer interface [polypeptide binding]; other site 1104321007059 active site 1104321007060 RecG-like helicase [DNA replication, recombination, and repair / Transcription]; Region: RecG; COG1200 1104321007061 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 1104321007062 generic binding surface II; other site 1104321007063 ssDNA binding site; other site 1104321007064 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 1104321007065 ATP binding site [chemical binding]; other site 1104321007066 putative Mg++ binding site [ion binding]; other site 1104321007067 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 1104321007068 nucleotide binding region [chemical binding]; other site 1104321007069 ATP-binding site [chemical binding]; other site 1104321007070 Uncharacterized conserved protein [Function unknown]; Region: COG2938 1104321007071 Transcription-repair coupling factor (superfamily II helicase) [DNA replication, recombination, and repair / Transcription]; Region: Mfd; COG1197 1104321007072 CarD-like/TRCF domain; Region: CarD_TRCF; smart01058 1104321007073 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 1104321007074 ATP binding site [chemical binding]; other site 1104321007075 putative Mg++ binding site [ion binding]; other site 1104321007076 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 1104321007077 nucleotide binding region [chemical binding]; other site 1104321007078 ATP-binding site [chemical binding]; other site 1104321007079 This domain is found in proteins necessary for strand-specific repair in DNA such as TRCF in Escherichia coli; Region: TRCF; smart00982 1104321007080 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 1104321007081 fosfomycin resistance protein FosB; Provisional; Region: PRK04101 1104321007082 active site 1104321007083 metal binding site [ion binding]; metal-binding site 1104321007084 Predicted dithiol-disulfide isomerase involved in polyketide biosynthesis [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FrnE; COG2761 1104321007085 DsbA family, FrnE subfamily; FrnE is a DsbA-like protein containing a CXXC motif. It is presumed to be a thiol oxidoreductase involved in polyketide biosynthesis, specifically in the production of the aromatic antibiotics frenolicin and nanaomycins; Region: DsbA_FrnE; cd03024 1104321007086 catalytic residues [active] 1104321007087 ABC-type oligopeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: OppA; COG4166 1104321007088 The substrate-binding component of an uncharacterized ABC-type nickel/dipeptide/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like_14; cd08497 1104321007089 Invasion protein B, involved in pathogenesis [General function prediction only]; Region: COG5342 1104321007090 Uncharacterized conserved protein [Function unknown]; Region: COG3785 1104321007091 2-octaprenyl-6-methoxyphenyl hydroxylase; Provisional; Region: PRK07494 1104321007092 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 1104321007093 Phosphatidylserine synthase [Lipid metabolism]; Region: PssA; COG1183 1104321007094 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; pfam01066 1104321007095 quinone oxidoreductase, NADPH-dependent; Provisional; Region: PRK10754 1104321007096 Quinone oxidoreductase (QOR); Region: QOR2; cd05286 1104321007097 NADP binding site [chemical binding]; other site 1104321007098 dimer interface [polypeptide binding]; other site 1104321007099 ABC-type uncharacterized transport systems, ATPase components [General function prediction only]; Region: COG3845 1104321007100 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 1104321007101 Walker A/P-loop; other site 1104321007102 ATP binding site [chemical binding]; other site 1104321007103 Q-loop/lid; other site 1104321007104 ABC transporter signature motif; other site 1104321007105 Walker B; other site 1104321007106 D-loop; other site 1104321007107 H-loop/switch region; other site 1104321007108 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 1104321007109 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1104321007110 Transmembrane subunit (TM) of Treponema pallidum (Tp) RbsC-1, RbsC-2 and related proteins. This is a functionally uncharacterized subgroup of TMs which belong to a larger group of TMs of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette; Region: TM_PBP1_transp_TpRbsC_like; cd06580 1104321007111 TM-ABC transporter signature motif; other site 1104321007112 Transmembrane subunit (TM) of Treponema pallidum (Tp) RbsC-1, RbsC-2 and related proteins. This is a functionally uncharacterized subgroup of TMs which belong to a larger group of TMs of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette; Region: TM_PBP1_transp_TpRbsC_like; cd06580 1104321007113 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1104321007114 TM-ABC transporter signature motif; other site 1104321007115 Uncharacterized ABC-type transport system, periplasmic component/surface lipoprotein [General function prediction only]; Region: Med; COG1744 1104321007116 Periplasmic binding domain of the basic membrane lipoprotein Med in Bacillus and its close homologs from other bacteria and Archaea; Region: PBP1_BmpA_Med_like; cd06353 1104321007117 putative ligand binding site [chemical binding]; other site 1104321007118 ribosomal protein S12 methylthiotransferase; Provisional; Region: rimO; PRK14862 1104321007119 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 1104321007120 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 1104321007121 FeS/SAM binding site; other site 1104321007122 Bacterioferritin (cytochrome b1) [Inorganic ion transport and metabolism]; Region: Bfr; COG2193 1104321007123 Bacterioferritin, ferritin-like diiron-binding domain; Region: Bacterioferritin; cd00907 1104321007124 heme binding site [chemical binding]; other site 1104321007125 ferroxidase pore; other site 1104321007126 ferroxidase diiron center [ion binding]; other site 1104321007127 Uncharacterized enzyme involved in biosynthesis of extracellular polysaccharides [General function prediction only]; Region: COG2329 1104321007128 iron-responsive transcriptional regulator; Reviewed; Region: rirA; PRK11920 1104321007129 Predicted transcriptional regulator [Transcription]; Region: COG1959 1104321007130 This CD, composed mainly of bacterial single-domain proteins, includes the Thermus thermophilus (Tt) YbaK-like protein, a homolog of the trans-acting Escherichia coli YbaK Cys-tRNA(Pro) deacylase and the Agrobacterium tumefaciens ProX Ala-tRNA(Pro)...; Region: ProX_deacylase; cd04333 1104321007131 putative deacylase active site [active] 1104321007132 Putative transposase of IS4/5 family (DUF4096); Region: DUF4096; pfam13340 1104321007133 Transposase C of IS166 homeodomain; Region: LZ_Tnp_IS66; pfam13007 1104321007134 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 1104321007135 putative Helix-turn-helix domain of transposase IS66; Region: HTH_Tnp_IS66; pfam13005 1104321007136 Transposase IS66 family; Region: DDE_Tnp_IS66; pfam03050 1104321007137 IS66 C-terminal element; Region: DDE_Tnp_IS66_C; pfam13817 1104321007138 yecA family protein; Region: ygfB_yecA; TIGR02292 1104321007139 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 1104321007140 Putative transposase of IS4/5 family (DUF4096); Region: DUF4096; pfam13340 1104321007141 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 1104321007142 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1104321007143 Protein of unknown function (DUF995); Region: DUF995; pfam06191 1104321007144 Beta-mannanase [Carbohydrate transport and metabolism]; Region: ManB; COG4124 1104321007145 Protein of unknown function (DUF995); Region: DUF995; pfam06191 1104321007146 Predicted UDP-glucose 6-dehydrogenase [Cell envelope biogenesis, outer membrane]; Region: Ugd; COG1004 1104321007147 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 1104321007148 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 1104321007149 UDP binding domain; Region: UDPG_MGDP_dh_C; smart00984 1104321007150 Glycosyltransferases, probably involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: COG1215 1104321007151 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 1104321007152 active site 1104321007153 Cellulose synthase-like protein; Region: PLN02893 1104321007154 UDP-glucose 4-epimerase [Cell envelope biogenesis, outer membrane]; Region: GalE; COG1087 1104321007155 UDP-glucose 4 epimerase, subgroup 1, extended (e) SDRs; Region: UDP_G4E_1_SDR_e; cd05247 1104321007156 NAD binding site [chemical binding]; other site 1104321007157 homodimer interface [polypeptide binding]; other site 1104321007158 active site 1104321007159 substrate binding site [chemical binding]; other site 1104321007160 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 1104321007161 UDP-glucuronate decarboxylase (UGD) and related proteins, extended (e) SDRs; Region: UGD_SDR_e; cd05230 1104321007162 NAD binding site [chemical binding]; other site 1104321007163 putative substrate binding site 2 [chemical binding]; other site 1104321007164 putative substrate binding site 1 [chemical binding]; other site 1104321007165 active site 1104321007166 Predicted integral membrane protein [Function unknown]; Region: COG5455 1104321007167 ABC-type oligopeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: OppA; COG4166 1104321007168 The substrate-binding component of an ABC-type oligopetide import system contains the type 2 periplasmic binding fold; Region: PBP2_OppA; cd08504 1104321007169 peptide binding site [polypeptide binding]; other site 1104321007170 ABC-type oligopeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: OppA; COG4166 1104321007171 The substrate-binding component of an ABC-type oligopetide import system contains the type 2 periplasmic binding fold; Region: PBP2_OppA; cd08504 1104321007172 peptide binding site [polypeptide binding]; other site 1104321007173 oligopeptide transporter permease; Reviewed; Region: oppB; PRK09471 1104321007174 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 1104321007175 dimer interface [polypeptide binding]; other site 1104321007176 conserved gate region; other site 1104321007177 putative PBP binding loops; other site 1104321007178 ABC-ATPase subunit interface; other site 1104321007179 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 1104321007180 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 1104321007181 dimer interface [polypeptide binding]; other site 1104321007182 conserved gate region; other site 1104321007183 ABC-ATPase subunit interface; other site 1104321007184 ABC-type uncharacterized transport system, duplicated ATPase component [General function prediction only]; Region: COG4172 1104321007185 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1104321007186 Walker A/P-loop; other site 1104321007187 ATP binding site [chemical binding]; other site 1104321007188 Q-loop/lid; other site 1104321007189 ABC transporter signature motif; other site 1104321007190 Walker B; other site 1104321007191 D-loop; other site 1104321007192 H-loop/switch region; other site 1104321007193 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; pfam08352 1104321007194 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1104321007195 Walker A/P-loop; other site 1104321007196 ATP binding site [chemical binding]; other site 1104321007197 Q-loop/lid; other site 1104321007198 ABC transporter signature motif; other site 1104321007199 Walker B; other site 1104321007200 D-loop; other site 1104321007201 H-loop/switch region; other site 1104321007202 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 1104321007203 alpha-ketoglutarate-dependent dioxygenase AlkB; Provisional; Region: PRK15401 1104321007204 benzoate transport; Region: 2A0115; TIGR00895 1104321007205 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 1104321007206 putative substrate translocation pore; other site 1104321007207 L-Aminopeptidase D-amidase/D-esterase (DmpA) family; DmpA catalyzes the release of N-terminal D and L amino acids from peptide susbtrates. DmpA is synthesized as a single polypeptide precursor, which is autocatalytically cleaved to the active...; Region: DmpA; cd02253 1104321007208 homodimer interface [polypeptide binding]; other site 1104321007209 homotetramer interface [polypeptide binding]; other site 1104321007210 active site pocket [active] 1104321007211 cleavage site 1104321007212 DNA segregation ATPase FtsK/SpoIIIE and related proteins [Cell division and chromosome partitioning]; Region: FtsK; COG1674 1104321007213 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 1104321007214 Ftsk gamma domain; Region: Ftsk_gamma; pfam09397 1104321007215 SURF1 superfamily. Surf1/Shy1 has been implicated in the posttranslational steps of the biogenesis of the mitochondrially-encoded Cox1 subunit of cytochrome c oxidase (complex IV). Cytochrome c oxidase (complex IV), the terminal electron-transferring...; Region: SURF1; cd06662 1104321007216 dihydrolipoamide dehydrogenase; Validated; Region: PRK05976 1104321007217 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 1104321007218 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1104321007219 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 1104321007220 branched-chain alpha-keto acid dehydrogenase subunit E2; Reviewed; Region: PRK11856 1104321007221 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 1104321007222 E3 interaction surface; other site 1104321007223 lipoyl attachment site [posttranslational modification]; other site 1104321007224 e3 binding domain; Region: E3_binding; pfam02817 1104321007225 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 1104321007226 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, beta subunit [Energy production and conversion]; Region: AcoB; COG0022 1104321007227 Pyrimidine (PYR) binding domain of the beta subunits of the E1 components of human pyruvate dehydrogenase complex (E1- PDHc) and related proteins; Region: TPP_PYR_E1-PDHc-beta_like; cd07036 1104321007228 alpha subunit interface [polypeptide binding]; other site 1104321007229 TPP binding site [chemical binding]; other site 1104321007230 heterodimer interface [polypeptide binding]; other site 1104321007231 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 1104321007232 2-oxoisovalerate dehydrogenase E1 alpha subunit N terminal; Region: OxoDH_E1alpha_N; pfam12573 1104321007233 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, alpha subunit [Energy production and conversion]; Region: AcoA; COG1071 1104321007234 Thiamine pyrophosphate (TPP) family, E1 of PDC_ADC_BCADC subfamily, TPP-binding module; composed of proteins similar to the E1 components of the human pyruvate dehydrogenase complex (PDC), the acetoin dehydrogenase complex (ADC) and the branched chain...; Region: TPP_E1_PDC_ADC_BCADC; cd02000 1104321007235 tetramer interface [polypeptide binding]; other site 1104321007236 TPP-binding site [chemical binding]; other site 1104321007237 heterodimer interface [polypeptide binding]; other site 1104321007238 phosphorylation loop region [posttranslational modification] 1104321007239 ABC-type sugar transport systems, ATPase components [Carbohydrate transport and metabolism]; Region: MalK; COG3839 1104321007240 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 1104321007241 Walker A/P-loop; other site 1104321007242 ATP binding site [chemical binding]; other site 1104321007243 Q-loop/lid; other site 1104321007244 ABC transporter signature motif; other site 1104321007245 Walker B; other site 1104321007246 D-loop; other site 1104321007247 H-loop/switch region; other site 1104321007248 TOBE domain; Region: TOBE_2; pfam08402 1104321007249 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 1104321007250 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 1104321007251 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 1104321007252 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 1104321007253 dimer interface [polypeptide binding]; other site 1104321007254 conserved gate region; other site 1104321007255 putative PBP binding loops; other site 1104321007256 ABC-ATPase subunit interface; other site 1104321007257 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 1104321007258 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 1104321007259 dimer interface [polypeptide binding]; other site 1104321007260 conserved gate region; other site 1104321007261 putative PBP binding loops; other site 1104321007262 ABC-ATPase subunit interface; other site 1104321007263 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 1104321007264 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 1104321007265 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 1104321007266 nucleotide binding site [chemical binding]; other site 1104321007267 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 1104321007268 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1104321007269 DNA-binding site [nucleotide binding]; DNA binding site 1104321007270 UTRA domain; Region: UTRA; pfam07702 1104321007271 Predicted outer membrane lipoprotein [Function unknown]; Region: COG4890 1104321007272 cytochrome d ubiquinol oxidase subunit 2; Provisional; Region: PRK15003; cl12219 1104321007273 Cytochrome oxidase subunit II; Region: Cyto_ox_2; pfam02322 1104321007274 cytochrome d terminal oxidase subunit 1; Provisional; Region: PRK15097 1104321007275 Bacterial Cytochrome Ubiquinol Oxidase; Region: Bac_Ubq_Cox; cl00562 1104321007276 ABC-type transport system involved in cytochrome bd biosynthesis, fused ATPase and permease components [Energy production and conversion / Posttranslational modification, protein turnover, chaperones]; Region: CydC; COG4987 1104321007277 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1104321007278 Walker A/P-loop; other site 1104321007279 ATP binding site [chemical binding]; other site 1104321007280 Q-loop/lid; other site 1104321007281 ABC transporter signature motif; other site 1104321007282 Walker B; other site 1104321007283 D-loop; other site 1104321007284 H-loop/switch region; other site 1104321007285 ABC-type transport system involved in cytochrome bd biosynthesis, ATPase and permease components [Energy production and conversion / Posttranslational modification, protein turnover, chaperones]; Region: CydD; COG4988 1104321007286 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 1104321007287 ATP-binding cassette domain of multidrug resistance protein-like transporters; Region: ABCC_MRP_Like; cd03228 1104321007288 Walker A/P-loop; other site 1104321007289 ATP binding site [chemical binding]; other site 1104321007290 Q-loop/lid; other site 1104321007291 ABC transporter signature motif; other site 1104321007292 Walker B; other site 1104321007293 D-loop; other site 1104321007294 H-loop/switch region; other site 1104321007295 Predicted transcriptional regulators [Transcription]; Region: COG1510 1104321007296 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cd00090 1104321007297 dimerization interface [polypeptide binding]; other site 1104321007298 putative DNA binding site [nucleotide binding]; other site 1104321007299 putative Zn2+ binding site [ion binding]; other site 1104321007300 putative monovalent cation/H+ antiporter subunit G; Reviewed; Region: PRK12671 1104321007301 putative monovalent cation/H+ antiporter subunit F; Reviewed; Region: PRK06161 1104321007302 putative monovalent cation/H+ antiporter subunit E; Reviewed; Region: PRK12596 1104321007303 putative monovalent cation/H+ antiporter subunit D; Reviewed; Region: PRK12666 1104321007304 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 1104321007305 putative monovalent cation/H+ antiporter subunit C; Reviewed; Region: PRK09094 1104321007306 putative monovalent cation/H+ antiporter subunit A; Reviewed; Region: PRK12648 1104321007307 NADH-Ubiquinone oxidoreductase (complex I), chain 5 N-terminus; Region: Oxidored_q1_N; pfam00662 1104321007308 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 1104321007309 Multisubunit Na+/H+ antiporter, MnhB subunit [Inorganic ion transport and metabolism]; Region: MnhB; COG2111 1104321007310 monovalent cation:proton antiporter; Region: 2a6301s02; TIGR00943 1104321007311 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4529 1104321007312 FAD-NAD(P)-binding; Region: NAD_binding_9; pfam13454 1104321007313 Nitroreductase-like family 4. A subfamily of the nitroreductase family containing uncharacterized proteins that are similar to nitroreductase. Nitroreductase catalyzes the reduction of nitroaromatic compounds such as nitrotoluenes, nitrofurans and...; Region: Nitroreductase_4; cd02140 1104321007314 dimer interface [polypeptide binding]; other site 1104321007315 FMN binding site [chemical binding]; other site 1104321007316 MogA_MoaB family. Members of this family are involved in biosynthesis of the molybdenum cofactor (MoCF) an essential cofactor of a diverse group of redox enzymes. MoCF biosynthesis is an evolutionarily conserved pathway present in eubacteria, archaea; Region: MogA_MoaB; cd00886 1104321007317 MPT binding site; other site 1104321007318 trimer interface [polypeptide binding]; other site 1104321007319 biotin synthase; Region: bioB; TIGR00433 1104321007320 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 1104321007321 FeS/SAM binding site; other site 1104321007322 Biotin and Thiamin Synthesis associated domain; Region: BATS; smart00876 1104321007323 8-amino-7-oxononanoate synthase; Reviewed; Region: PRK05958 1104321007324 hypothetical protein; Provisional; Region: PRK07505 1104321007325 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1104321007326 catalytic residue [active] 1104321007327 dithiobiotin synthetase; Reviewed; Region: bioD; PRK00090 1104321007328 AAA domain; Region: AAA_26; pfam13500 1104321007329 adenosylmethionine--8-amino-7-oxononanoate transaminase; Provisional; Region: PRK05964 1104321007330 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 1104321007331 inhibitor-cofactor binding pocket; inhibition site 1104321007332 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1104321007333 catalytic residue [active] 1104321007334 3-oxoacyl-(acyl carrier protein) synthase II; Reviewed; Region: PRK05963 1104321007335 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 1104321007336 dimer interface [polypeptide binding]; other site 1104321007337 active site 1104321007338 CoA binding pocket [chemical binding]; other site 1104321007339 Lyzozyme M1 (1,4-beta-N-acetylmuramidase) [Cell envelope biogenesis, outer membrane]; Region: Acm; COG3757 1104321007340 Uncharacterized bacterial muramidase containing a glycosyl hydrolase family 25 (GH25) catalytic domain. Endo-N-acetylmuramidases are lysozymes (also referred to as peptidoglycan hydrolases) that degrade bacterial cell walls by catalyzing the hydrolysis...; Region: GH25_muramidase_1; cd06413 1104321007341 active site 1104321007342 Homoserine trans-succinylase [Amino acid transport and metabolism]; Region: MetA; COG1897 1104321007343 Type 1 glutamine amidotransferase (GATase1)-like domain found in homoserine trans-succinylase (HTS); Region: GATase1_HTS; cd03131 1104321007344 proposed active site lysine [active] 1104321007345 conserved cys residue [active] 1104321007346 Na+/alanine symporter [Amino acid transport and metabolism]; Region: AlsT; COG1115 1104321007347 Sodium:alanine symporter family; Region: Na_Ala_symp; cl00548 1104321007348 N-terminal domain of Streptomyces griseus SgaA (suppression of growth disturbance caused by A-factor at a high concentration under high osmolality during early growth phase), and similar domains; Region: SgaA_N_like; cd07247 1104321007349 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 1104321007350 N-terminal domain of Streptomyces griseus SgaA (suppression of growth disturbance caused by A-factor at a high concentration under high osmolality during early growth phase), and similar domains; Region: SgaA_N_like; cd07247 1104321007351 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 1104321007352 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 1104321007353 Winged helix DNA-binding domain; Region: HTH_27; pfam13463 1104321007354 NADH dehydrogenase, FAD-containing subunit [Energy production and conversion]; Region: Ndh; COG1252 1104321007355 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1104321007356 Uncharacterized conserved protein [Function unknown]; Region: COG3189 1104321007357 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1104321007358 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1104321007359 active site 1104321007360 phosphorylation site [posttranslational modification] 1104321007361 intermolecular recognition site; other site 1104321007362 dimerization interface [polypeptide binding]; other site 1104321007363 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 1104321007364 DNA binding site [nucleotide binding] 1104321007365 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1104321007366 HAMP domain; Region: HAMP; pfam00672 1104321007367 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 1104321007368 dimer interface [polypeptide binding]; other site 1104321007369 phosphorylation site [posttranslational modification] 1104321007370 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 1104321007371 ATP binding site [chemical binding]; other site 1104321007372 Mg2+ binding site [ion binding]; other site 1104321007373 G-X-G motif; other site 1104321007374 efflux pump membrane protein (multidrug resistance protein A); Region: 8a0101; TIGR00998 1104321007375 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1104321007376 HlyD family secretion protein; Region: HlyD_3; pfam13437 1104321007377 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 1104321007378 putative substrate translocation pore; other site 1104321007379 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 1104321007380 potential frameshift: common BLAST hit: gi|340792201|ref|YP_004757665.1| MarR family transcriptional regulator 1104321007381 transcriptional regulator SlyA; Provisional; Region: PRK03573 1104321007382 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl17200 1104321007383 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cl17432 1104321007384 NMT1/THI5 like; Region: NMT1; pfam09084 1104321007385 substrate binding pocket [chemical binding]; other site 1104321007386 membrane-bound complex binding site; other site 1104321007387 hinge residues; other site 1104321007388 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 1104321007389 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 1104321007390 Walker A/P-loop; other site 1104321007391 ATP binding site [chemical binding]; other site 1104321007392 Q-loop/lid; other site 1104321007393 ABC transporter signature motif; other site 1104321007394 Walker B; other site 1104321007395 D-loop; other site 1104321007396 H-loop/switch region; other site 1104321007397 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 1104321007398 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 1104321007399 dimer interface [polypeptide binding]; other site 1104321007400 conserved gate region; other site 1104321007401 putative PBP binding loops; other site 1104321007402 ABC-ATPase subunit interface; other site 1104321007403 Uncharacterized conserved protein, contains double-stranded beta-helix domain [Function unknown]; Region: COG1917 1104321007404 YhgE/Pip N-terminal domain; Region: pip_yhgE_Nterm; TIGR03061 1104321007405 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 1104321007406 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 1104321007407 potential frameshift: common BLAST hit: gi|256015247|ref|YP_003105256.1| daunorubicin resistance ATP-binding protein 1104321007408 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 1104321007409 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 1104321007410 Walker A/P-loop; other site 1104321007411 ATP binding site [chemical binding]; other site 1104321007412 Q-loop/lid; other site 1104321007413 putative efflux pump membrane fusion protein; Provisional; Region: PRK03598 1104321007414 Peptidase family M23; Region: Peptidase_M23; pfam01551 1104321007415 HlyD family secretion protein; Region: HlyD_3; pfam13437 1104321007416 putative DNA-binding transcriptional regulator; Provisional; Region: PRK11552 1104321007417 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1104321007418 Domain of unknown function (DUF1956); Region: DUF1956; pfam09209 1104321007419 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 1104321007420 Domain of unknown function DUF20; Region: UPF0118; pfam01594 1104321007421 Transcriptional regulators [Transcription]; Region: GntR; COG1802 1104321007422 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1104321007423 DNA-binding site [nucleotide binding]; DNA binding site 1104321007424 FCD domain; Region: FCD; pfam07729 1104321007425 Domain of unknown function (DUF4341); Region: DUF4341; pfam14241 1104321007426 Predicted transporter component [General function prediction only]; Region: COG2391 1104321007427 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cd00090 1104321007428 dimerization interface [polypeptide binding]; other site 1104321007429 putative DNA binding site [nucleotide binding]; other site 1104321007430 putative Zn2+ binding site [ion binding]; other site 1104321007431 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2354 1104321007432 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 1104321007433 active site 1104321007434 catalytic residues [active] 1104321007435 metal binding site [ion binding]; metal-binding site 1104321007436 D-3-phosphoglycerate dehydrogenase; Provisional; Region: PRK11790 1104321007437 Phosphoglycerate dehydrogenases, NAD-binding and catalytic domains; Region: PGDH_3; cd12176 1104321007438 ligand binding site [chemical binding]; other site 1104321007439 NAD binding site [chemical binding]; other site 1104321007440 tetramer interface [polypeptide binding]; other site 1104321007441 catalytic site [active] 1104321007442 C-terminal ACT (regulatory) domain of D-3-Phosphoglycerate Dehydrogenase (3PGDH) found in fungi and bacteria; Region: ACT_3PGDH; cd04901 1104321007443 L-serine binding site [chemical binding]; other site 1104321007444 ACT domain interface; other site 1104321007445 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 1104321007446 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 1104321007447 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1104321007448 Acyl-coenzyme A synthetases/AMP-(fatty) acid ligases [Lipid metabolism]; Region: Acs; COG0365 1104321007449 Uncharacterized subfamily of medium-chain acyl-CoA synthetase (MACS); Region: MACS_like_2; cd05973 1104321007450 active site 1104321007451 acyl-activating enzyme (AAE) consensus motif; other site 1104321007452 putative CoA binding site [chemical binding]; other site 1104321007453 AMP binding site [chemical binding]; other site 1104321007454 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK08217 1104321007455 17hydroxysteroid dehydrogenase type 10 (HSD10)-like, classical (c) SDRs; Region: HSD10-like_SDR_c; cd05371 1104321007456 NAD binding site [chemical binding]; other site 1104321007457 homodimer interface [polypeptide binding]; other site 1104321007458 homotetramer interface [polypeptide binding]; other site 1104321007459 active site 1104321007460 acetyl-CoA acetyltransferase; Provisional; Region: PRK06954 1104321007461 Thiolase are ubiquitous enzymes that catalyze the reversible thiolytic cleavage of 3-ketoacyl-CoA into acyl-CoA and acetyl-CoA, a 2-step reaction involving a covalent intermediate formed with a catalytic cysteine. They are found in prokaryotes and...; Region: thiolase; cd00751 1104321007462 dimer interface [polypeptide binding]; other site 1104321007463 active site 1104321007464 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 1104321007465 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 1104321007466 active site 1104321007467 methionine sulfoxide reductase B; Provisional; Region: PRK00222 1104321007468 SelR domain; Region: SelR; pfam01641 1104321007469 DNA-binding transcriptional regulator HcaR; Provisional; Region: PRK09906 1104321007470 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1104321007471 The C-terminal substrate binding domain of LysR-type transcrptional regulator BudR, which is responsible for activation of the expression of the butanediol operon genes; contains the type 2 periplasmic binding fold; Region: PBP2_BudR; cd08451 1104321007472 putative dimerization interface [polypeptide binding]; other site 1104321007473 putative substrate binding pocket [chemical binding]; other site 1104321007474 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 1104321007475 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1104321007476 putative substrate translocation pore; other site 1104321007477 Glycerol kinase [Energy production and conversion]; Region: GlpK; COG0554 1104321007478 Escherichia coli glycerol kinase-like proteins; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_EcGK_like; cd07786 1104321007479 homotetramer interface [polypeptide binding]; other site 1104321007480 homodimer interface [polypeptide binding]; other site 1104321007481 N- and C-terminal domain interface [polypeptide binding]; other site 1104321007482 active site 1104321007483 glycerol binding site [chemical binding]; other site 1104321007484 FBP binding site [chemical binding]; other site 1104321007485 MgATP binding site [chemical binding]; other site 1104321007486 protein IIAGlc interface [polypeptide binding]; other site 1104321007487 pyrimidine utilization transport protein G; Region: RutG; TIGR03616 1104321007488 Uncharacterized proteins, LmbE homologs [Function unknown]; Region: COG2120 1104321007489 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 1104321007490 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 1104321007491 active site 1104321007492 Putative zinc binding domain; Region: Methyltransf_13; pfam08421 1104321007493 Methyltransferase domain; Region: Methyltransf_23; pfam13489 1104321007494 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 1104321007495 S-adenosylmethionine binding site [chemical binding]; other site 1104321007496 C-methyltransferase C-terminal domain; Region: Methyltransf_14; pfam08484 1104321007497 dTDP-4-dehydrorhamnose 3,5-epimerase and related enzymes [Cell envelope biogenesis, outer membrane]; Region: RfbC; COG1898 1104321007498 Zinc peptidases M18, M20, M28, and M42; Region: Zinc_peptidase_like; cl14876 1104321007499 metal binding site [ion binding]; metal-binding site 1104321007500 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 1104321007501 extended (e) SDRs; Region: SDR_e; cd08946 1104321007502 NAD(P) binding site [chemical binding]; other site 1104321007503 active site 1104321007504 substrate binding site [chemical binding]; other site 1104321007505 Protein of unknown function (DUF4038); Region: DUF4038; pfam13204 1104321007506 glutamate-1-semialdehyde 2,1-aminomutase; Provisional; Region: PRK06209 1104321007507 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 1104321007508 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1104321007509 catalytic residue [active] 1104321007510 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 1104321007511 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1104321007512 Polysaccharide pyruvyl transferase family protein [Cell wall/membrane/envelope biogenesis]; Region: WcaK; COG2327 1104321007513 Polysaccharide pyruvyl transferase; Region: PS_pyruv_trans; cl09156 1104321007514 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 1104321007515 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 1104321007516 active site 1104321007517 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 1104321007518 Uncharacterized subfamily of the multidrug and toxic compound extrusion (MATE) proteins; Region: MATE_tuaB_like; cd13127 1104321007519 UDP-N-acetylmuramyl pentapeptide phosphotransferase/UDP-N- acetylglucosamine-1-phosphate transferase [Cell envelope biogenesis, outer membrane]; Region: Rfe; COG0472 1104321007520 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 1104321007521 Mg++ binding site [ion binding]; other site 1104321007522 putative catalytic motif [active] 1104321007523 substrate binding site [chemical binding]; other site 1104321007524 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 1104321007525 UDP-glucose LOS-beta-1,4 glucosyltransferase is required for biosynthesis of lipooligosaccharide; Region: Beta4Glucosyltransferase; cd02511 1104321007526 putative metal binding site; other site 1104321007527 Uncharacterized conserved protein [Function unknown]; Region: COG1434 1104321007528 YdcF-like. YdcF-like is a large family of mainly bacterial proteins, with a few members found in fungi, plants, and archaea. Escherichia coli YdcF has been shown to bind S-adenosyl-L-methionine (AdoMet), but a biochemical function has not been...; Region: YdcF-like; cd06259 1104321007529 putative active site [active] 1104321007530 potential frameshift: common BLAST hit: gi|340792157|ref|YP_004757621.1| Bme3 protein 1104321007531 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 1104321007532 putative trimer interface [polypeptide binding]; other site 1104321007533 putative active site [active] 1104321007534 putative substrate binding site [chemical binding]; other site 1104321007535 putative CoA binding site [chemical binding]; other site 1104321007536 Opacity protein and related surface antigens [Cell envelope biogenesis, outer membrane]; Region: COG3637 1104321007537 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1104321007538 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 1104321007539 putative ADP-binding pocket [chemical binding]; other site 1104321007540 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1104321007541 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 1104321007542 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1104321007543 This family is most closely related to the GT1 family of glycosyltransferases. wbuB in E. coli is involved in the biosynthesis of the O26 O-antigen. It has been proposed to function as an N-acetyl-L-fucosamine (L-FucNAc) transferase; Region: GT1_wbuB_like; cd03794 1104321007544 GDP-D-mannose dehydratase [Cell envelope biogenesis, outer membrane]; Region: Gmd; COG1089 1104321007545 GDP-mannose 4,6 dehydratase, extended (e) SDRs; Region: GDP_MD_SDR_e; cd05260 1104321007546 NADP-binding site; other site 1104321007547 homotetramer interface [polypeptide binding]; other site 1104321007548 substrate binding site [chemical binding]; other site 1104321007549 homodimer interface [polypeptide binding]; other site 1104321007550 active site 1104321007551 GDP-fucose synthetase, extended (e) SDRs; Region: GDP_FS_SDR_e; cd05239 1104321007552 GDP-4-keto-6-deoxymannose-3, 5-epimerase-4-reductase; Region: PLN02725 1104321007553 NADP binding site [chemical binding]; other site 1104321007554 active site 1104321007555 putative substrate binding site [chemical binding]; other site 1104321007556 Periplasmic protein involved in polysaccharide export, contains SLBB domain of b-grasp fold [Cell wall/membrane/envelope biogenesis]; Region: Wza; COG1596 1104321007557 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 1104321007558 Uncharacterized protein involved in exopolysaccharide biosynthesis [Cell envelope biogenesis, outer membrane]; Region: GumC; COG3206 1104321007559 Chain length determinant protein; Region: Wzz; cl15801 1104321007560 AAA domain; Region: AAA_31; pfam13614 1104321007561 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cl17170 1104321007562 G3 box; other site 1104321007563 Switch II region; other site 1104321007564 G4 box; other site 1104321007565 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 1104321007566 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 1104321007567 DNA binding residues [nucleotide binding] 1104321007568 dimerization interface [polypeptide binding]; other site 1104321007569 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 1104321007570 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 1104321007571 ligand binding site [chemical binding]; other site 1104321007572 flexible hinge region; other site 1104321007573 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 1104321007574 putative switch regulator; other site 1104321007575 non-specific DNA interactions [nucleotide binding]; other site 1104321007576 DNA binding site [nucleotide binding] 1104321007577 sequence specific DNA binding site [nucleotide binding]; other site 1104321007578 putative cAMP binding site [chemical binding]; other site 1104321007579 N-acetylneuraminic acid mutarotase; Provisional; Region: PRK14131 1104321007580 Putative N-acetylmannosamine-6-phosphate epimerase [Carbohydrate transport and metabolism]; Region: NanE; COG3010 1104321007581 N-acetylmannosamine-6-phosphate epimerase (NanE) converts N-acetylmannosamine-6-phosphate to N-acetylglucosamine-6-phosphate. This reaction is part of the pathway that allows the usage of sialic acid as a carbohydrate source. Sialic acids are a family of...; Region: NanE; cd04729 1104321007582 putative active site cavity [active] 1104321007583 N-acetylmannosamine kinase; Provisional; Region: PRK05082 1104321007584 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 1104321007585 nucleotide binding site [chemical binding]; other site 1104321007586 Transcriptional regulators [Transcription]; Region: FadR; COG2186 1104321007587 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1104321007588 DNA-binding site [nucleotide binding]; DNA binding site 1104321007589 FCD domain; Region: FCD; pfam07729 1104321007590 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 1104321007591 The substrate-binding domain of an ABC-type nickel/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like; cd00995 1104321007592 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 1104321007593 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 1104321007594 dimer interface [polypeptide binding]; other site 1104321007595 conserved gate region; other site 1104321007596 putative PBP binding loops; other site 1104321007597 ABC-ATPase subunit interface; other site 1104321007598 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 1104321007599 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 1104321007600 dimer interface [polypeptide binding]; other site 1104321007601 conserved gate region; other site 1104321007602 putative PBP binding loops; other site 1104321007603 ABC-ATPase subunit interface; other site 1104321007604 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 1104321007605 Dihydrodipicolinate synthase family; Region: DHDPS-like; cd00408 1104321007606 inhibitor site; inhibition site 1104321007607 active site 1104321007608 dimer interface [polypeptide binding]; other site 1104321007609 catalytic residue [active] 1104321007610 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 1104321007611 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1104321007612 Walker A/P-loop; other site 1104321007613 ATP binding site [chemical binding]; other site 1104321007614 Q-loop/lid; other site 1104321007615 ABC transporter signature motif; other site 1104321007616 Walker B; other site 1104321007617 D-loop; other site 1104321007618 H-loop/switch region; other site 1104321007619 oligopeptide/dipeptide ABC transporter, ATP-binding protein, C-terminal domain; Region: oligo_HPY; TIGR01727 1104321007620 ABC-type oligopeptide transport system, ATPase component [Amino acid transport and metabolism]; Region: AppF; COG4608 1104321007621 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1104321007622 Walker A/P-loop; other site 1104321007623 ATP binding site [chemical binding]; other site 1104321007624 Q-loop/lid; other site 1104321007625 ABC transporter signature motif; other site 1104321007626 Walker B; other site 1104321007627 D-loop; other site 1104321007628 H-loop/switch region; other site 1104321007629 oligopeptide/dipeptide ABC transporter, ATP-binding protein, C-terminal domain; Region: oligo_HPY; TIGR01727 1104321007630 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 1104321007631 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 1104321007632 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 1104321007633 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 1104321007634 Zn-dependent alcohol dehydrogenases, class III [Energy production and conversion]; Region: AdhC; COG1062 1104321007635 Zinc-dependent alcohol dehydrogenases (ADH) and class III ADG (AKA formaldehyde dehydrogenase); Region: liver_ADH_like1; cd08281 1104321007636 NAD binding site [chemical binding]; other site 1104321007637 catalytic Zn binding site [ion binding]; other site 1104321007638 substrate binding site [chemical binding]; other site 1104321007639 structural Zn binding site [ion binding]; other site 1104321007640 potential frameshift: common BLAST hit: gi|256015184|ref|YP_003105193.1| branched-chain amino acid ABC transporter substrate-binding protein 1104321007641 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 1104321007642 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 1104321007643 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 1104321007644 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 1104321007645 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 1104321007646 Mitochondrial succinate-semialdehyde dehydrogenase and ALDH family members 5A1 and 5F1-like; Region: ALDH_F5_SSADH_GabD; cd07103 1104321007647 tetramerization interface [polypeptide binding]; other site 1104321007648 NAD(P) binding site [chemical binding]; other site 1104321007649 catalytic residues [active] 1104321007650 choline dehydrogenase; Validated; Region: PRK02106 1104321007651 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 1104321007652 Shikimate 5-dehydrogenase [Amino acid transport and metabolism]; Region: AroE; COG0169 1104321007653 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 1104321007654 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 1104321007655 shikimate binding site; other site 1104321007656 NAD(P) binding site [chemical binding]; other site 1104321007657 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 1104321007658 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1104321007659 NAD(P) binding site [chemical binding]; other site 1104321007660 active site 1104321007661 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 1104321007662 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 1104321007663 Walker A/P-loop; other site 1104321007664 ATP binding site [chemical binding]; other site 1104321007665 Q-loop/lid; other site 1104321007666 ABC transporter signature motif; other site 1104321007667 Walker B; other site 1104321007668 D-loop; other site 1104321007669 H-loop/switch region; other site 1104321007670 potential frameshift: common BLAST hit: gi|340792128|ref|YP_004757592.1| branched-chain amino acid ABC transporter permease and ATP-binding 1104321007671 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 1104321007672 Transmembrane subunit (TM) of Escherichia coli LivM and related proteins. LivM is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivM_like; cd06581 1104321007673 TM-ABC transporter signature motif; other site 1104321007674 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 1104321007675 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 1104321007676 Walker A/P-loop; other site 1104321007677 ATP binding site [chemical binding]; other site 1104321007678 Q-loop/lid; other site 1104321007679 ABC transporter signature motif; other site 1104321007680 Walker B; other site 1104321007681 D-loop; other site 1104321007682 H-loop/switch region; other site 1104321007683 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 1104321007684 Transmembrane subunit (TM) of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which are involved in the uptake of branched-chain amino acids (AAs), as well as TMs of transporters involved in the uptake of...; Region: TM_PBP1_branched-chain-AA_like; cl00454 1104321007685 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1104321007686 Transmembrane subunit (TM) of Escherichia coli LivH and related proteins. LivH is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivH_like; cd06582 1104321007687 TM-ABC transporter signature motif; other site 1104321007688 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 1104321007689 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 1104321007690 putative NAD(P)H quinone oxidoreductase, PIG3 family; Region: quinone_pig3; TIGR02824 1104321007691 PIG3 p53-inducible quinone oxidoreductase; Region: p53_inducible_oxidoreductase; cd05276 1104321007692 NAD(P) binding site [chemical binding]; other site 1104321007693 Transcriptional regulators [Transcription]; Region: GntR; COG1802 1104321007694 FCD domain; Region: FCD; pfam07729 1104321007695 Cytochrome P450 [Secondary metabolites biosynthesis, transport, and catabolism]; Region: CypX; COG2124 1104321007696 Cytochrome P450; Region: p450; cl12078 1104321007697 acetate kinase; Provisional; Region: PRK07058 1104321007698 propionate/acetate kinase; Provisional; Region: PRK12379 1104321007699 putative phosphoketolase; Provisional; Region: PRK05261 1104321007700 Thiamine pyrophosphate (TPP) family, Phosphoketolase (PK) subfamily, TPP-binding module; PK catalyzes the conversion of D-xylulose 5-phosphate and phosphate to acetyl phosphate, D-glyceraldehyde-3-phosphate and H2O. This enzyme requires divalent...; Region: TPP_PK; cd02011 1104321007701 TPP-binding site; other site 1104321007702 XFP C-terminal domain; Region: XFP_C; pfam09363 1104321007703 Polyferredoxin [Energy production and conversion]; Region: NapH; COG0348 1104321007704 4Fe-4S binding domain; Region: Fer4_5; pfam12801 1104321007705 High-affinity Fe2+/Pb2+ permease [Inorganic ion transport and metabolism]; Region: FTR1; COG0672 1104321007706 Cupredoxin-like domain; Region: Cupredoxin_1; pfam13473 1104321007707 Uncharacterized protein probably involved in high-affinity Fe2+ transport [Inorganic ion transport and metabolism]; Region: Tpd; COG3470 1104321007708 DNA-damage-inducible protein J [DNA replication, recombination, and repair]; Region: RelB; COG3077 1104321007709 Predicted ATPase [General function prediction only]; Region: COG5293 1104321007710 Uncharacterized protein conserved in bacteria (DUF2326); Region: DUF2326; pfam10088 1104321007711 Relaxase/Mobilisation nuclease domain; Region: Relaxase; pfam03432 1104321007712 conjugal transfer relaxase TraI; Provisional; Region: PRK13878 1104321007713 TraC-like protein; Region: TraC; cl06725 1104321007714 P-type conjugative transfer protein TrbJ; Region: TrbJ_Ti; TIGR02780 1104321007715 P-type conjugative transfer protein TrbL; Region: TrbL_P; TIGR02783 1104321007716 Replication initiator protein A; Region: RPA; pfam10134 1104321007717 Prophage CP4-57 regulatory protein (AlpA); Region: Phage_AlpA; pfam05930 1104321007718 integrase; Provisional; Region: PRK09692 1104321007719 Bacteriophage P4 integrase. P4-like integrases are found in temperate bacteriophages, integrative plasmids, pathogenicity and symbiosis islands, and other mobile genetic elements. They share the same fold in their catalytic domain and the overall...; Region: INT_P4; cd00801 1104321007720 active site 1104321007721 Int/Topo IB signature motif; other site 1104321007722 GMP synthase; Reviewed; Region: guaA; PRK00074 1104321007723 Type 1 glutamine amidotransferase (GATase1) domain found in GMP synthetase; Region: GATase1_GMP_Synthase; cd01742 1104321007724 AMP/PPi binding site [chemical binding]; other site 1104321007725 candidate oxyanion hole; other site 1104321007726 catalytic triad [active] 1104321007727 potential glutamine specificity residues [chemical binding]; other site 1104321007728 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 1104321007729 ATP Binding subdomain [chemical binding]; other site 1104321007730 Ligand Binding sites [chemical binding]; other site 1104321007731 Dimerization subdomain; other site 1104321007732 5'-methylthioadenosine/S-adenosylhomocysteine nucleosidase; Validated; Region: PRK06026 1104321007733 5'-methylthioadenosine/S-adenosylhomocysteine nucleosidase, putative; Region: MTA/SAH-nuc-hyp; TIGR01705 1104321007734 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 1104321007735 CoenzymeA binding site [chemical binding]; other site 1104321007736 subunit interaction site [polypeptide binding]; other site 1104321007737 PHB binding site; other site 1104321007738 tRNA and rRNA cytosine-C5-methylases [Translation, ribosomal structure and biogenesis]; Region: Sun; COG0144 1104321007739 NOL1/NOP2/sun family putative RNA methylase; Region: nop2p; TIGR00446 1104321007740 Disulfide bond formation protein DsbB [Posttranslational modification, protein turnover, chaperones]; Region: DsbB; COG1495 1104321007741 Catalase [Inorganic ion transport and metabolism]; Region: KatE; COG0753 1104321007742 Clade 3 of the heme-binding enzyme catalase; Region: catalase_clade_3; cd08156 1104321007743 tetramer interface [polypeptide binding]; other site 1104321007744 heme binding pocket [chemical binding]; other site 1104321007745 NADPH binding site [chemical binding]; other site 1104321007746 DNA-binding transcriptional regulator OxyR; Provisional; Region: PRK11151 1104321007747 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1104321007748 The C-terminal substrate-binding domain of the LysR-type transcriptional regulator OxyR, a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_OxyR; cd08411 1104321007749 dimerization interface [polypeptide binding]; other site 1104321007750 Cytochrome c [Energy production and conversion]; Region: COG3258 1104321007751 Cytochrome c; Region: Cytochrom_C; pfam00034 1104321007752 inosine 5'-monophosphate dehydrogenase; Reviewed; Region: PRK05567 1104321007753 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 1104321007754 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 1104321007755 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 1104321007756 active site 1104321007757 Chloride channel protein EriC [Inorganic ion transport and metabolism]; Region: EriC; COG0038 1104321007758 ClC chloride channel family. These protein sequences, closely related to the ClC Eric family, are putative halogen ion (Cl-, Br- and I-) transport proteins found in eubacteria. They belong to the ClC superfamily of chloride ion channels, which share a...; Region: EriC_like; cd01034 1104321007759 putative ion selectivity filter; other site 1104321007760 putative pore gating glutamate residue; other site 1104321007761 putative H+/Cl- coupling transport residue; other site 1104321007762 nylC-like family; composed of proteins with similarity to Flavobacterium endo-type 6-aminohexanoate-oligomer hydrolase (EIII), the product of the nylon oligomer degradation gene, nylC. EIII is an amide hydrolase that catalyzes the degradation of...; Region: nylC_like; cd02252 1104321007763 putative active site pocket [active] 1104321007764 cleavage site 1104321007765 Phosphomannomutase [Carbohydrate transport and metabolism]; Region: {ManB}; COG1109 1104321007766 ManB is a bacterial phosphomannomutase (PMM) that catalyzes the conversion of mannose 6-phosphate to mannose-1-phosphate in the second of three steps in the GDP-mannose pathway, in which GDP-D-mannose is synthesized from fructose-6-phosphate. In...; Region: ManB; cd03088 1104321007767 active site 1104321007768 substrate binding site [chemical binding]; other site 1104321007769 metal binding site [ion binding]; metal-binding site 1104321007770 mannose-1-phosphate guanylyltransferase/mannose-6-phosphate isomerase; Region: GMP_PMI; TIGR01479 1104321007771 GDP-M1P_Guanylyltransferase catalyzes the formation of GDP-Mannose; Region: GDP-M1P_Guanylyltransferase; cd02509 1104321007772 Substrate binding site; other site 1104321007773 Mannose-6-phosphate isomerase; Region: MannoseP_isomer; pfam01050 1104321007774 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1104321007775 LysR substrate binding domain; Region: LysR_substrate; pfam03466 1104321007776 Predicted signal transduction protein containing sensor and EAL domains [Signal transduction mechanisms]; Region: COG4943 1104321007777 CSS motif domain associated with EAL; Region: CSS-motif; pfam12792 1104321007778 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 1104321007779 acid-resistance protein; Provisional; Region: PRK10208 1104321007780 glutaminase; Reviewed; Region: PRK12356 1104321007781 Glutaminase [Amino acid transport and metabolism]; Region: GlsA; COG2066 1104321007782 putative glutamate/gamma-aminobutyrate antiporter; Region: put_Glu_GABA_T; TIGR03813 1104321007783 potential frameshift: common BLAST hit: gi|256015121|ref|YP_003105130.1| glutamate decarboxylase beta 1104321007784 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 1104321007785 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 1104321007786 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1104321007787 catalytic residue [active] 1104321007788 Predicted membrane protein [Function unknown]; Region: COG4803 1104321007789 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 1104321007790 HlyD family secretion protein; Region: HlyD_3; pfam13437 1104321007791 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 1104321007792 IclR helix-turn-helix domain; Region: HTH_IclR; cl17605 1104321007793 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 1104321007794 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 1104321007795 dimer interface [polypeptide binding]; other site 1104321007796 conserved gate region; other site 1104321007797 putative PBP binding loops; other site 1104321007798 ABC-ATPase subunit interface; other site 1104321007799 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 1104321007800 dimer interface [polypeptide binding]; other site 1104321007801 conserved gate region; other site 1104321007802 putative PBP binding loops; other site 1104321007803 ABC-ATPase subunit interface; other site 1104321007804 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 1104321007805 ATP-binding cassette domain of the polyamine transporter; Region: ABC_PotA_N; cd03300 1104321007806 Walker A/P-loop; other site 1104321007807 ATP binding site [chemical binding]; other site 1104321007808 Q-loop/lid; other site 1104321007809 ABC transporter signature motif; other site 1104321007810 Walker B; other site 1104321007811 D-loop; other site 1104321007812 H-loop/switch region; other site 1104321007813 TOBE domain; Region: TOBE_2; pfam08402 1104321007814 Spermidine/putrescine-binding periplasmic protein [Amino acid transport and metabolism]; Region: PotD; COG0687 1104321007815 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 1104321007816 Domain of unknown function (DUF3597); Region: DUF3597; pfam12200 1104321007817 cell division topological specificity factor MinE; Reviewed; Region: minE; PRK00296 1104321007818 Septum formation inhibitor-activating ATPase [Cell division and chromosome partitioning]; Region: MinD; COG2894 1104321007819 Bacterial cell division requires the formation of a septum at mid-cell. The site is determined by the min operon products MinC, MinD and MinE. MinC is a nonspecific inhibitor of the septum protein FtsZ. MinE is the supressor of MinC. MinD plays a pivotal...; Region: MinD; cd02036 1104321007820 Switch I; other site 1104321007821 Switch II; other site 1104321007822 septum formation inhibitor; Reviewed; Region: minC; PRK05177 1104321007823 Septum formation inhibitor MinC, C-terminal domain; Region: MinC_C; pfam03775 1104321007824 ribonucleotide-diphosphate reductase subunit beta; Provisional; Region: nrdF2; PRK13966 1104321007825 Ribonucleotide Reductase, R2/beta subunit, ferritin-like diiron-binding domain; Region: RNRR2; cd01049 1104321007826 dimer interface [polypeptide binding]; other site 1104321007827 putative radical transfer pathway; other site 1104321007828 diiron center [ion binding]; other site 1104321007829 tyrosyl radical; other site 1104321007830 ribonucleotide-diphosphate reductase subunit alpha; Validated; Region: PRK08188 1104321007831 Ribonucleotide reductase N-terminal; Region: RNR_N; pfam08343 1104321007832 Class I ribonucleotide reductase; Region: RNR_I; cd01679 1104321007833 active site 1104321007834 dimer interface [polypeptide binding]; other site 1104321007835 catalytic residues [active] 1104321007836 effector binding site; other site 1104321007837 R2 peptide binding site; other site 1104321007838 ribonucleotide reductase stimulatory protein; Reviewed; Region: nrdI; PRK03600 1104321007839 NrdH-redoxin (NrdH) family; NrdH is a small monomeric protein with a conserved redox active CXXC motif within a TRX fold, characterized by a glutaredoxin (GRX)-like sequence and TRX-like activity profile. In vitro, it displays protein disulfide reductase...; Region: NrdH; cd02976 1104321007840 catalytic residues [active] 1104321007841 Transmembrane secretion effector; Region: MFS_3; pfam05977 1104321007842 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 1104321007843 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 1104321007844 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 1104321007845 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 1104321007846 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 1104321007847 Trehalose utilization protein [Carbohydrate transport and metabolism]; Region: ThuA; COG4813 1104321007848 conserved cys residue [active] 1104321007849 ABC-type sugar transport systems, ATPase components [Carbohydrate transport and metabolism]; Region: MalK; COG3839 1104321007850 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 1104321007851 Walker A/P-loop; other site 1104321007852 ATP binding site [chemical binding]; other site 1104321007853 Q-loop/lid; other site 1104321007854 ABC transporter signature motif; other site 1104321007855 Walker B; other site 1104321007856 D-loop; other site 1104321007857 H-loop/switch region; other site 1104321007858 TOBE domain; Region: TOBE_2; pfam08402 1104321007859 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 1104321007860 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 1104321007861 dimer interface [polypeptide binding]; other site 1104321007862 conserved gate region; other site 1104321007863 putative PBP binding loops; other site 1104321007864 ABC-ATPase subunit interface; other site 1104321007865 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 1104321007866 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 1104321007867 dimer interface [polypeptide binding]; other site 1104321007868 conserved gate region; other site 1104321007869 putative PBP binding loops; other site 1104321007870 ABC-ATPase subunit interface; other site 1104321007871 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 1104321007872 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 1104321007873 Transcriptional regulators [Transcription]; Region: PurR; COG1609 1104321007874 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 1104321007875 DNA binding site [nucleotide binding] 1104321007876 domain linker motif; other site 1104321007877 Ligand-binding domain of DNA transcription repressors specific for raffinose (RafR) and alpha-glucosides (AglR) which are members of the LacI-GalR family of bacterial transcription regulators; Region: PBP1_AglR_RafR_like; cd06271 1104321007878 ligand binding site [chemical binding]; other site 1104321007879 transcriptional activator FtrB; Provisional; Region: ftrB; PRK09392 1104321007880 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 1104321007881 ligand binding site [chemical binding]; other site 1104321007882 flexible hinge region; other site 1104321007883 helix_turn_helix, cAMP Regulatory protein; Region: HTH_CRP; smart00419 1104321007884 Nitrate/nitrite transporter [Inorganic ion transport and metabolism]; Region: NarK; COG2223 1104321007885 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 1104321007886 putative substrate translocation pore; other site 1104321007887 nitrate/nitrite transport protein NarU; Provisional; Region: PRK15034 1104321007888 Nitrate reductase alpha subunit [Energy production and conversion]; Region: NarG; COG5013 1104321007889 Respiratory nitrate reductase A (NarGHI), alpha chain (NarG) and related proteins. Under anaerobic conditions in the presence of nitrate, E. coli synthesizes the cytoplasmic membrane-bound quinol-nitrate oxidoreductase (NarGHI), which reduces nitrate to...; Region: MopB_Nitrate-R-NarG-like; cd02750 1104321007890 [4Fe-4S] binding site [ion binding]; other site 1104321007891 Molybdopterin-Binding (MopB) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum- and...; Region: Molybdopterin-Binding; cl09928 1104321007892 Molybdopterin-Binding (MopB) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum- and...; Region: Molybdopterin-Binding; cl09928 1104321007893 Molybdopterin-Binding (MopB) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum- and...; Region: Molybdopterin-Binding; cl09928 1104321007894 Respiratory nitrate reductase A (NarGHI), alpha chain (NarG) and related proteins. Under anaerobic conditions in the presence of nitrate, E. coli synthesizes the cytoplasmic membrane-bound quinol-nitrate oxidoreductase (NarGHI), which reduces nitrate to...; Region: MopB_CT_Nitrate-R-NarG-like; cd02776 1104321007895 molybdopterin cofactor binding site; other site 1104321007896 Nitrate reductase beta subunit [Energy production and conversion]; Region: NarY; COG1140 1104321007897 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; cl00470 1104321007898 Nitrate reductase delta subunit [Energy production and conversion]; Region: NarJ; COG2180 1104321007899 Nitrate reductase gamma subunit; Region: Nitrate_red_gam; pfam02665 1104321007900 potential frameshift: common BLAST hit: gi|340792045|ref|YP_004757509.1| peptidyl-prolyl cis-trans isomerase 1104321007901 Parvulin-like peptidyl-prolyl isomerase [Posttranslational modification, protein turnover, chaperones]; Region: SurA; COG0760 1104321007902 PPIC-type PPIASE domain; Region: Rotamase_2; cl08278 1104321007903 Protein of unknown function (DUF2478); Region: DUF2478; pfam10649 1104321007904 3-octaprenyl-4-hydroxybenzoate carboxy-lyase; Provisional; Region: PRK06029 1104321007905 Flavoprotein; Region: Flavoprotein; pfam02441 1104321007906 3-polyprenyl-4-hydroxybenzoate decarboxylase and related decarboxylases [Coenzyme metabolism]; Region: UbiD; COG0043 1104321007907 Putative lipid carrier protein [Lipid metabolism]; Region: COG3154 1104321007908 Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]; Region: COG0826 1104321007909 Peptidase family U32; Region: Peptidase_U32; pfam01136 1104321007910 Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]; Region: COG0826 1104321007911 putative protease; Provisional; Region: PRK15447 1104321007912 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 1104321007913 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 1104321007914 Walker A/P-loop; other site 1104321007915 ATP binding site [chemical binding]; other site 1104321007916 Q-loop/lid; other site 1104321007917 ABC transporter signature motif; other site 1104321007918 Walker B; other site 1104321007919 D-loop; other site 1104321007920 H-loop/switch region; other site 1104321007921 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 1104321007922 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 1104321007923 dimer interface [polypeptide binding]; other site 1104321007924 conserved gate region; other site 1104321007925 putative PBP binding loops; other site 1104321007926 ABC-ATPase subunit interface; other site 1104321007927 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 1104321007928 NMT1-like family; Region: NMT1_2; pfam13379 1104321007929 Uncharacterized protein involved in response to NO [Inorganic ion transport and metabolism]; Region: NnrS; COG3213 1104321007930 Plastocyanin [Energy production and conversion]; Region: PetE; COG3794 1104321007931 pseudoazurin; Region: pseudoazurin; TIGR02375 1104321007932 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 1104321007933 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 1104321007934 ligand binding site [chemical binding]; other site 1104321007935 flexible hinge region; other site 1104321007936 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 1104321007937 putative switch regulator; other site 1104321007938 non-specific DNA interactions [nucleotide binding]; other site 1104321007939 DNA binding site [nucleotide binding] 1104321007940 sequence specific DNA binding site [nucleotide binding]; other site 1104321007941 putative cAMP binding site [chemical binding]; other site 1104321007942 thiamine biosynthesis lipoprotein ApbE; Provisional; Region: PRK10461 1104321007943 ApbE family; Region: ApbE; pfam02424 1104321007944 Predicted lipoprotein involved in nitrous oxide reduction [Energy production and conversion]; Region: NosL; COG4314 1104321007945 ABC-2 family transporter protein; Region: ABC2_membrane_2; pfam12679 1104321007946 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 1104321007947 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 1104321007948 Walker A/P-loop; other site 1104321007949 ATP binding site [chemical binding]; other site 1104321007950 Q-loop/lid; other site 1104321007951 ABC transporter signature motif; other site 1104321007952 Walker B; other site 1104321007953 D-loop; other site 1104321007954 H-loop/switch region; other site 1104321007955 Nitrous oxidase accessory protein [Inorganic ion transport and metabolism]; Region: NosD; COG3420 1104321007956 parallel beta-helix repeat (two copies); Region: para_beta_helix; TIGR03804 1104321007957 parallel beta-helix repeat (two copies); Region: para_beta_helix; TIGR03804 1104321007958 nitrous-oxide reductase; Validated; Region: PRK02888 1104321007959 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; pfam00116 1104321007960 Regulator of nitric oxide reductase transcription [Transcription]; Region: NosR; COG3901 1104321007961 ferredoxin-type protein, NapH/MauN family; Region: napH_; TIGR02163 1104321007962 4Fe-4S binding domain; Region: Fer4_5; pfam12801 1104321007963 4Fe-4S binding domain; Region: Fer4_5; pfam12801 1104321007964 ABC-type uncharacterized transport system, permease and ATPase components [General function prediction only]; Region: COG4178 1104321007965 ABC transporter transmembrane region 2; Region: ABC_membrane_2; cl00549 1104321007966 ATP-binding cassette domain of peroxisomal transporter, subfamily D; Region: ABCD_peroxisomal_ALDP; cd03223 1104321007967 Protein of unknown function (DUF2384); Region: DUF2384; pfam09722 1104321007968 RES domain; Region: RES; smart00953 1104321007969 Ribulose kinase [Energy production and conversion]; Region: AraB; COG1069 1104321007970 Yersinia Pseudotuberculosis carbohydrate kinase-like subgroup; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_YpCarbK_like; cd07782 1104321007971 N- and C-terminal domain interface [polypeptide binding]; other site 1104321007972 active site 1104321007973 MgATP binding site [chemical binding]; other site 1104321007974 catalytic site [active] 1104321007975 metal binding site [ion binding]; metal-binding site 1104321007976 carbohydrate binding site [chemical binding]; other site 1104321007977 putative homodimer interface [polypeptide binding]; other site 1104321007978 short chain dehydrogenase; Provisional; Region: PRK08219 1104321007979 classical (c) SDRs; Region: SDR_c; cd05233 1104321007980 NAD(P) binding site [chemical binding]; other site 1104321007981 active site 1104321007982 Transmembrane subunit (TM) of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which are involved in the uptake of branched-chain amino acids (AAs), as well as TMs of transporters involved in the uptake of...; Region: TM_PBP1_branched-chain-AA_like; cl00454 1104321007983 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1104321007984 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 1104321007985 TM-ABC transporter signature motif; other site 1104321007986 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 1104321007987 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1104321007988 Walker A/P-loop; other site 1104321007989 ATP binding site [chemical binding]; other site 1104321007990 Q-loop/lid; other site 1104321007991 ABC transporter signature motif; other site 1104321007992 Walker B; other site 1104321007993 D-loop; other site 1104321007994 H-loop/switch region; other site 1104321007995 ABC-type xylose transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: XylF; COG4213 1104321007996 Periplasmic xylose-binding component of the ABC-type transport systems that belong to a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein (PBP1) superfamily; Region: PBP1_ABC_xylose_binding; cd01538 1104321007997 putative ligand binding site [chemical binding]; other site 1104321007998 Transcriptional regulators [Transcription]; Region: PurR; COG1609 1104321007999 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 1104321008000 DNA binding site [nucleotide binding] 1104321008001 domain linker motif; other site 1104321008002 Ligand binding domain of DNA transcription repressor specific for fructose (FruR) and its close homologs; Region: PBP1_FruR; cd06274 1104321008003 dimerization interface [polypeptide binding]; other site 1104321008004 ligand binding site [chemical binding]; other site 1104321008005 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 1104321008006 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 1104321008007 ligand binding site [chemical binding]; other site 1104321008008 flexible hinge region; other site 1104321008009 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 1104321008010 putative switch regulator; other site 1104321008011 non-specific DNA interactions [nucleotide binding]; other site 1104321008012 DNA binding site [nucleotide binding] 1104321008013 sequence specific DNA binding site [nucleotide binding]; other site 1104321008014 putative cAMP binding site [chemical binding]; other site 1104321008015 Uncharacterized conserved protein [Function unknown]; Region: COG1262 1104321008016 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; pfam03781 1104321008017 nitrite reductase, copper-containing; Region: Cu_nitrite_red; TIGR02376 1104321008018 Multicopper oxidase; Region: Cu-oxidase_3; pfam07732 1104321008019 Multicopper oxidase; Region: Cu-oxidase; pfam00394 1104321008020 Thioesterase domains of type I polyketide synthases or non-ribosomal peptide synthetases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3319 1104321008021 Putative protein-S-isoprenylcysteine methyltransferase [Posttranslational modification, protein turnover, chaperones]; Region: STE14; COG2020 1104321008022 Predicted metal-sulfur cluster biosynthetic enzyme [General function prediction only]; Region: PaaD; COG2151 1104321008023 Uncharacterized conserved protein (DUF2249); Region: DUF2249; pfam10006 1104321008024 SirA, YedF, and YeeD. Two-layered alpha/beta sandwich domain. SirA (also known as UvrY, and YhhP) belongs to a family of bacterial two-component response regulators that controls secondary metabolism and virulence. The other member of this...; Region: SirA_YedF_YeeD; cd00291 1104321008025 CPxP motif; other site 1104321008026 Uncharacterized conserved protein [Function unknown]; Region: COG4309 1104321008027 Nitric oxide reductase activation protein [Inorganic ion transport and metabolism]; Region: NorD; COG4548 1104321008028 norD type: Denitrifying bacteria contain both membrane bound and periplasmic nitrate reductases. Denitrification plays a major role in completing the nitrogen cycle by converting nitrate or nitrite to nitrogen gas. The pathway for microbial...; Region: vWA_norD_type; cd01454 1104321008029 metal ion-dependent adhesion site (MIDAS); other site 1104321008030 MoxR-like ATPases [General function prediction only]; Region: COG0714 1104321008031 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 1104321008032 Walker A motif; other site 1104321008033 ATP binding site [chemical binding]; other site 1104321008034 Walker B motif; other site 1104321008035 CbbQ/NirQ/NorQ C-terminal; Region: CbbQ_C; pfam08406 1104321008036 Cytochrome C and Quinol oxidase polypeptide I; Region: COX1; pfam00115 1104321008037 Heme-copper oxidase subunit I. Heme-copper oxidases are transmembrane protein complexes in the respiratory chains of prokaryotes and mitochondria which catalyze the reduction of O2 and simultaneously pump protons across the membrane. The superfamily is...; Region: Heme_Cu_Oxidase_I; cl00275 1104321008038 Binuclear center (active site) [active] 1104321008039 K-pathway; other site 1104321008040 Putative proton exit pathway; other site 1104321008041 Cytochrome c; Region: Cytochrom_C; pfam00034 1104321008042 NorE_like subfamily of heme-copper oxidase subunit III. Heme-copper oxidases include cytochrome c and ubiquinol oxidases. Alcaligenes faecalis norE is found in a gene cluster containing norCB. norCB encodes the cytochrome c and cytochrome b subunits of...; Region: NorE_like; cd02862 1104321008043 Hemerythrin HHE cation binding domain; Region: Hemerythrin; pfam01814 1104321008044 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 1104321008045 Polysaccharide biosynthesis protein; Region: Polysacc_synt_3; pfam13440 1104321008046 Malate/L-lactate dehydrogenases [Energy production and conversion]; Region: COG2055 1104321008047 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 1104321008048 Dihydrodipicolinate synthase family; Region: DHDPS-like; cd00408 1104321008049 inhibitor site; inhibition site 1104321008050 active site 1104321008051 dimer interface [polypeptide binding]; other site 1104321008052 catalytic residue [active] 1104321008053 Transcriptional regulators [Transcription]; Region: GntR; COG1802 1104321008054 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1104321008055 DNA-binding site [nucleotide binding]; DNA binding site 1104321008056 FCD domain; Region: FCD; pfam07729 1104321008057 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 1104321008058 EamA-like transporter family; Region: EamA; pfam00892 1104321008059 EamA-like transporter family; Region: EamA; cl17759 1104321008060 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 1104321008061 GAF domain; Region: GAF; pfam01590 1104321008062 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1104321008063 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1104321008064 metal binding site [ion binding]; metal-binding site 1104321008065 active site 1104321008066 I-site; other site 1104321008067 Membrane-associated lipoprotein involved in thiamine biosynthesis [Coenzyme metabolism]; Region: ApbE; COG1477 1104321008068 ApbE family; Region: ApbE; pfam02424 1104321008069 Sulfite reductase, alpha subunit (flavoprotein) [Inorganic ion transport and metabolism]; Region: CysJ; COG0369 1104321008070 PepSY-associated TM helix; Region: PepSY_TM_2; pfam13703 1104321008071 Flavodoxin; Region: Flavodoxin_1; pfam00258 1104321008072 Cytochrome p450- like alpha subunits of E. coli sulfite reductase (SiR) multimerize with beta subunits to catalyze the NADPH dependent reduction of sulfite to sulfide. Beta subunits have an Fe4S4 cluster and a siroheme, while the alpha subunits (cysJ...; Region: SiR_like2; cd06201 1104321008073 FAD binding pocket [chemical binding]; other site 1104321008074 FAD binding motif [chemical binding]; other site 1104321008075 catalytic residues [active] 1104321008076 NAD binding pocket [chemical binding]; other site 1104321008077 phosphate binding motif [ion binding]; other site 1104321008078 beta-alpha-beta structure motif; other site 1104321008079 Predicted periplasmic protein (DUF2271); Region: DUF2271; pfam10029 1104321008080 Uncharacterized conserved protein [Function unknown]; Region: COG5591 1104321008081 Response regulator receiver domain; Region: Response_reg; pfam00072 1104321008082 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1104321008083 active site 1104321008084 phosphorylation site [posttranslational modification] 1104321008085 intermolecular recognition site; other site 1104321008086 dimerization interface [polypeptide binding]; other site 1104321008087 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cl17355 1104321008088 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 1104321008089 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1104321008090 DNA binding site [nucleotide binding] 1104321008091 sensor protein QseC; Provisional; Region: PRK10337 1104321008092 HAMP domain; Region: HAMP; pfam00672 1104321008093 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 1104321008094 dimer interface [polypeptide binding]; other site 1104321008095 phosphorylation site [posttranslational modification] 1104321008096 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 1104321008097 Mg2+ binding site [ion binding]; other site 1104321008098 G-X-G motif; other site 1104321008099 Type 1 glutamine amidotransferase (GATase1)-like domain found in proteins similar to Escherichia coli Hsp31 protein; Region: GATase1_Hsp31_like; cd03141 1104321008100 Putative intracellular protease/amidase [General function prediction only]; Region: ThiJ; COG0693 1104321008101 potential catalytic triad [active] 1104321008102 conserved cys residue [active] 1104321008103 Helix-Turn-Helix DNA binding domain of putative transcription regulators from the MerR superfamily; Region: HTH_MerR-like_sg7; cd04786 1104321008104 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 1104321008105 DNA binding residues [nucleotide binding] 1104321008106 putative dimer interface [polypeptide binding]; other site 1104321008107 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 1104321008108 Old yellow enzyme (OYE)-related FMN binding domain, group 2. Each monomer of OYE contains FMN as a non-covalently bound cofactor, uses NADPH as a reducing agent with oxygens, quinones, and alpha,beta-unsaturated aldehydes and ketones, and can act as...; Region: OYE_like_2_FMN; cd04733 1104321008109 putative active site [active] 1104321008110 putative FMN binding site [chemical binding]; other site 1104321008111 putative substrate binding site [chemical binding]; other site 1104321008112 putative catalytic residue [active] 1104321008113 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 1104321008114 CoA-transferase family III; Region: CoA_transf_3; pfam02515 1104321008115 3-hydroxy-acyl-CoA dehydrogenase; Validated; Region: PRK08268 1104321008116 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 1104321008117 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 1104321008118 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 1104321008119 enoyl-CoA hydratase; Provisional; Region: PRK08138 1104321008120 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 1104321008121 substrate binding site [chemical binding]; other site 1104321008122 oxyanion hole (OAH) forming residues; other site 1104321008123 trimer interface [polypeptide binding]; other site 1104321008124 Transcriptional regulator [Transcription]; Region: IclR; COG1414 1104321008125 IclR helix-turn-helix domain; Region: HTH_IclR; cl17605 1104321008126 Bacterial transcriptional regulator; Region: IclR; pfam01614 1104321008127 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 1104321008128 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 1104321008129 active site 1104321008130 potential frameshift: common BLAST hit: gi|189022425|ref|YP_001932166.1| MucK, cis,cis-muconate transport protein 1104321008131 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 1104321008132 putative substrate translocation pore; other site 1104321008133 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 1104321008134 DNA mismatch repair protein; Reviewed; Region: mutL; PRK00095 1104321008135 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 1104321008136 ATP binding site [chemical binding]; other site 1104321008137 Mg2+ binding site [ion binding]; other site 1104321008138 G-X-G motif; other site 1104321008139 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 1104321008140 ATP binding site [chemical binding]; other site 1104321008141 MutL C terminal dimerisation domain; Region: MutL_C; pfam08676 1104321008142 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3908 1104321008143 Tetraacyldisaccharide-1-P 4'-kinase [Cell envelope biogenesis, outer membrane]; Region: LpxK; COG1663 1104321008144 tetraacyldisaccharide 4'-kinase; Reviewed; Region: lpxK; PRK00652 1104321008145 3-deoxy-D-manno-octulosonic-acid transferase [Cell envelope biogenesis, outer membrane]; Region: KdtA; COG1519 1104321008146 3-Deoxy-D-manno-octulosonic-acid transferase (kdotransferase); Region: Glycos_transf_N; pfam04413 1104321008147 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 1104321008148 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: DUF374; Region: LPLAT_DUF374-like; cd07983 1104321008149 putative acyl-acceptor binding pocket; other site 1104321008150 Domain of unknown function (DUF4170); Region: DUF4170; pfam13773 1104321008151 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 1104321008152 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 1104321008153 active site 1104321008154 Predicted Zn-dependent proteases and their inactivated homologs [General function prediction only]; Region: TldD; COG0312 1104321008155 glutathione-regulated potassium-efflux system protein KefB; Provisional; Region: PRK03659 1104321008156 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; COG0475 1104321008157 TrkA-N domain; Region: TrkA_N; pfam02254 1104321008158 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: RssA; COG1752 1104321008159 Patatins and Phospholipases; Region: Patatin_and_cPLA2; cl11396 1104321008160 potential frameshift: common BLAST hit: gi|340791965|ref|YP_004757429.1| zinc protease 1104321008161 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 1104321008162 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 1104321008163 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 1104321008164 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 1104321008165 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 1104321008166 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 1104321008167 N6-adenine-specific methylase [DNA replication, recombination, and repair]; Region: COG0742 1104321008168 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 1104321008169 S-adenosylmethionine binding site [chemical binding]; other site 1104321008170 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 1104321008171 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 1104321008172 RNA binding surface [nucleotide binding]; other site 1104321008173 Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi); Region: PseudoU_synth; cl00130 1104321008174 active site 1104321008175 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 1104321008176 nucleoside/Zn binding site; other site 1104321008177 dimer interface [polypeptide binding]; other site 1104321008178 catalytic motif [active] 1104321008179 Cytochrome B561 [Energy production and conversion]; Region: CybB; COG3038 1104321008180 isoleucyl-tRNA synthetase; Provisional; Region: ileS; PRK13804 1104321008181 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 1104321008182 active site 1104321008183 HIGH motif; other site 1104321008184 nucleotide binding site [chemical binding]; other site 1104321008185 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 1104321008186 active site 1104321008187 KMSKS motif; other site 1104321008188 Anticodon-binding domain of bacterial and eukaryotic mitochondrial isoleucyl tRNA synthetases; Region: Anticodon_Ia_Ile_BEm; cd07960 1104321008189 tRNA binding surface [nucleotide binding]; other site 1104321008190 anticodon binding site; other site 1104321008191 bifunctional riboflavin kinase/FMN adenylyltransferase; Reviewed; Region: PRK05627 1104321008192 FAD synthetase, N-terminal domain of the bifunctional enzyme; Region: FAD_synthetase_N; cd02064 1104321008193 active site 1104321008194 Riboflavin kinase; Region: Flavokinase; smart00904 1104321008195 Predicted sugar phosphatases of the HAD superfamily [Carbohydrate transport and metabolism]; Region: NagD; COG0647 1104321008196 Haloacid dehalogenase-like hydrolase; Region: Hydrolase_6; pfam13344 1104321008197 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 1104321008198 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 1104321008199 oligomerisation interface [polypeptide binding]; other site 1104321008200 mobile loop; other site 1104321008201 roof hairpin; other site 1104321008202 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 1104321008203 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 1104321008204 ring oligomerisation interface [polypeptide binding]; other site 1104321008205 ATP/Mg binding site [chemical binding]; other site 1104321008206 stacking interactions; other site 1104321008207 hinge regions; other site 1104321008208 fumarate hydratase; Reviewed; Region: fumC; PRK00485 1104321008209 Class II fumarases; Region: Fumarase_classII; cd01362 1104321008210 active site 1104321008211 tetramer interface [polypeptide binding]; other site 1104321008212 Predicted membrane protein [Function unknown]; Region: COG2259 1104321008213 potential frameshift: common BLAST hit: gi|256014976|ref|YP_003104985.1| glucose/galactose transporter 1104321008214 L-fucose transporter; Provisional; Region: PRK10133; cl17665 1104321008215 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 1104321008216 glucose/galactose transporter; Region: gluP; TIGR01272 1104321008217 putative substrate translocation pore; other site 1104321008218 ATP phosphoribosyltransferase catalytic subunit; Provisional; Region: hisG; PRK13583 1104321008219 ATP phosphoribosyltransferase [Amino acid transport and metabolism]; Region: HisG; COG0040 1104321008220 ATP phosphoribosyltransferase regulatory subunit; Provisional; Region: hisZ; PRK12295 1104321008221 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 1104321008222 motif 1; other site 1104321008223 dimer interface [polypeptide binding]; other site 1104321008224 active site 1104321008225 motif 2; other site 1104321008226 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 1104321008227 active site 1104321008228 motif 3; other site 1104321008229 Histidyl-tRNA synthetase [Translation, ribosomal structure and biogenesis]; Region: HisS; COG0124 1104321008230 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 1104321008231 dimer interface [polypeptide binding]; other site 1104321008232 motif 1; other site 1104321008233 motif 2; other site 1104321008234 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 1104321008235 active site 1104321008236 motif 3; other site 1104321008237 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 1104321008238 anticodon binding site; other site 1104321008239 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 1104321008240 Methyladenine glycosylase; Region: Adenine_glyco; pfam03352 1104321008241 Uncharacterized protein conserved in bacteria [Function unknown]; Region: ErfK; COG1376 1104321008242 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 1104321008243 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 1104321008244 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 1104321008245 active site 1104321008246 catalytic tetrad [active] 1104321008247 glycolate oxidase iron-sulfur subunit; Provisional; Region: glcF; PRK11274 1104321008248 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 1104321008249 Cysteine-rich domain; Region: CCG; pfam02754 1104321008250 Cysteine-rich domain; Region: CCG; pfam02754 1104321008251 FAD binding domain; Region: FAD_binding_4; pfam01565 1104321008252 glycolate oxidase FAD binding subunit; Provisional; Region: glcE; PRK11282 1104321008253 glycolate oxidase subunit GlcD; Provisional; Region: PRK11230 1104321008254 FAD binding domain; Region: FAD_binding_4; pfam01565 1104321008255 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1104321008256 transcriptional activator TtdR; Provisional; Region: PRK09801 1104321008257 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 1104321008258 putative effector binding pocket; other site 1104321008259 dimerization interface [polypeptide binding]; other site 1104321008260 transcriptional regulator PdhR; Reviewed; Region: pdhR; PRK09464 1104321008261 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1104321008262 DNA-binding site [nucleotide binding]; DNA binding site 1104321008263 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 1104321008264 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2841 1104321008265 Cytochrome c2 [Energy production and conversion]; Region: COG3474 1104321008266 Type V secretory pathway, adhesin AidA [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: AidA; COG3468 1104321008267 Autotransporter-associated beta strand repeat; Region: Autotrns_rpt; pfam12951 1104321008268 Autotransporter-associated beta strand repeat; Region: Autotrns_rpt; pfam12951 1104321008269 Pertactin-like passenger domains (virulence factors), C-terminal, subgroup 2, of autotransporter proteins of the type V secretion system of Gram-negative bacteria. This subgroup includes the passenger domains of the nonprotease autotransporters, Ag43; Region: PL2_Passenger_AT; cd01344 1104321008270 Autotransporter beta-domain; Region: Autotransporter; smart00869 1104321008271 Cytochrome B561 [Energy production and conversion]; Region: CybB; COG3038 1104321008272 Citrate lyase beta subunit [Carbohydrate transport and metabolism]; Region: CitE; COG2301 1104321008273 Uncharacterized conserved protein [Function unknown]; Region: COG3777 1104321008274 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 1104321008275 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 1104321008276 active site 2 [active] 1104321008277 active site 1 [active] 1104321008278 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 1104321008279 CoA-transferase family III; Region: CoA_transf_3; pfam02515 1104321008280 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1104321008281 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1104321008282 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator, contains the type 2 periplasmic binding fold; Region: PBP2_LTTR_like_1; cd08421 1104321008283 putative dimerization interface [polypeptide binding]; other site 1104321008284 Uncharacterized protein conserved in bacteria (DUF2195); Region: DUF2195; cl02042 1104321008285 FliP family; Region: FliP; cl00593 1104321008286 Flagellar basal body-associated protein FliL; Region: FliL; pfam03748 1104321008287 flagellar basal body L-ring protein; Reviewed; Region: flgH; PRK00249 1104321008288 Flagellar basal body L-ring protein [Cell motility and secretion]; Region: FlgH; COG2063 1104321008289 Uncharacterized conserved protein [Function unknown]; Region: COG3334 1104321008290 flagellar basal body P-ring protein; Provisional; Region: flgI; PRK05303 1104321008291 flagellar basal body P-ring protein; Reviewed; Region: flgI; cl14622 1104321008292 flagellar basal body P-ring biosynthesis protein FlgA; Reviewed; Region: flgA; PRK06005 1104321008293 Flagellar basal body P-ring biosynthesis protein [Cell motility and secretion / Posttranslational modification, protein turnover, chaperones]; Region: FlgA; COG1261 1104321008294 flagellar basal body rod protein FlgG; Reviewed; Region: flgG; PRK12691 1104321008295 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 1104321008296 flagellar hook-basal body protein FliE; Reviewed; Region: fliE; PRK00790 1104321008297 flagellar basal body rod protein FlgC; Reviewed; Region: flgC; PRK12782 1104321008298 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 1104321008299 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 1104321008300 flagellar basal body rod protein FlgB; Reviewed; Region: flgB; PRK06003 1104321008301 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 1104321008302 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3395 1104321008303 Hydroxypyruvate isomerase [Carbohydrate transport and metabolism]; Region: Hfi; COG3622 1104321008304 AP endonuclease family 2; These endonucleases play a role in DNA repair. Cleave phosphodiester bonds at apurinic or apyrimidinic sites; the alignment also contains hexulose-6-phosphate isomerases, enzymes that catalyze the epimerization of...; Region: AP2Ec; cl12060 1104321008305 Metal-binding active site; metal-binding site 1104321008306 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 1104321008307 helix_turn_helix, Deoxyribose operon repressor; Region: HTH_DEOR; smart00420 1104321008308 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 1104321008309 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 1104321008310 Escherichia coli Gne (a nucleoside-diphosphate-sugar 4-epimerase)-like, extended (e) SDRs; Region: Gne_like_SDR_e; cd05238 1104321008311 putative NAD(P) binding site [chemical binding]; other site 1104321008312 active site 1104321008313 putative substrate binding site [chemical binding]; other site 1104321008314 putative aldolase; Validated; Region: PRK08130 1104321008315 intersubunit interface [polypeptide binding]; other site 1104321008316 active site 1104321008317 Zn2+ binding site [ion binding]; other site 1104321008318 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 1104321008319 D-galactonate transporter; Region: 2A0114; TIGR00893 1104321008320 putative substrate translocation pore; other site 1104321008321 Transposase; Region: HTH_Tnp_1; cl17663 1104321008322 Helix-turn-helix domain; Region: HTH_18; pfam12833 1104321008323 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1104321008324 4-amino-4-deoxy-L-arabinose transferase and related glycosyltransferases of PMT family [Cell envelope biogenesis, outer membrane]; Region: ArnT; COG1807 1104321008325 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; cl17364 1104321008326 uncharacterized YdjC-like family proteins from bacteria; Region: YdjC_like_3; cd10807 1104321008327 putative active site [active] 1104321008328 YdjC motif; other site 1104321008329 Mg binding site [ion binding]; other site 1104321008330 putative homodimer interface [polypeptide binding]; other site 1104321008331 undecaprenyl phosphate 4-deoxy-4-formamido-L-arabinose transferase; Provisional; Region: PRK10714 1104321008332 Bacterial DPM1_like enzymes are related to eukaryotic DPM1; Region: DPM1_like_bac; cd04187 1104321008333 Ligand binding site; other site 1104321008334 Putative Catalytic site; other site 1104321008335 DXD motif; other site 1104321008336 Peptidase family M48; Region: Peptidase_M48; cl12018 1104321008337 GtrA-like protein; Region: GtrA; pfam04138 1104321008338 PAP2_like proteins, Lipid A 1-phosphatase subfamily. Lipid A 1-phosphatase, or LpxE from Francisella novicida selectively dephosphorylates lipid A at the 1-position. Lipid A is the membrane-anchor component of lipopolysaccharides (LPS), the major...; Region: PAP2_lipid_A_1_phosphatase; cd03389 1104321008339 active site 1104321008340 flagellum-specific ATP synthase; Validated; Region: fliI; PRK06002 1104321008341 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 1104321008342 Walker A motif; other site 1104321008343 ATP binding site [chemical binding]; other site 1104321008344 Walker B motif; other site 1104321008345 flagellar basal body rod protein FlgF; Reviewed; Region: flgF; PRK12642 1104321008346 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 1104321008347 flagellar basal-body rod protein FlgF; Region: flgF; TIGR02490 1104321008348 Protein of unknown function (DUF1217); Region: DUF1217; pfam06748 1104321008349 Protein of unknown function (DUF1217); Region: DUF1217; pfam06748 1104321008350 Flagellar motor component [Cell motility and secretion]; Region: MotA; COG1291 1104321008351 flagellar motor protein MotA; Validated; Region: PRK09110 1104321008352 Flagellar motor switch protein [Cell motility and secretion]; Region: FliM; COG1868 1104321008353 Surface presentation of antigens (SPOA); Region: SpoA; pfam01052 1104321008354 Flagellar motor switch/type III secretory pathway protein [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FliN; COG1886 1104321008355 potential frameshift: common BLAST hit: gi|256014912|ref|YP_003104921.1| flagellar motor switch protein G 1104321008356 Flagellar motor switch protein [Cell motility and secretion]; Region: FliG; COG1536 1104321008357 flagellar motor switch protein G; Validated; Region: fliG; PRK05686 1104321008358 FliG C-terminal domain; Region: FliG_C; pfam01706 1104321008359 Flagellar biosynthesis pathway, component FlhB [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FlhB; COG1377 1104321008360 Uncharacterized homolog of the cytoplasmic domain of flagellar protein FhlB [Function unknown]; Region: COG2257; cl15822 1104321008361 Autoinducer binding domain; Region: Autoind_bind; pfam03472 1104321008362 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 1104321008363 DNA binding residues [nucleotide binding] 1104321008364 dimerization interface [polypeptide binding]; other site 1104321008365 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1104321008366 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1104321008367 AefR-like transcriptional repressor, C-terminal region; Region: TetR_C_7; pfam14246 1104321008368 efflux pump membrane protein (multidrug resistance protein A); Region: 8a0101; TIGR00998 1104321008369 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1104321008370 HlyD family secretion protein; Region: HlyD_3; pfam13437 1104321008371 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 1104321008372 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 1104321008373 putative substrate translocation pore; other site 1104321008374 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 1104321008375 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 1104321008376 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 1104321008377 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 1104321008378 dimer interface [polypeptide binding]; other site 1104321008379 conserved gate region; other site 1104321008380 putative PBP binding loops; other site 1104321008381 ABC-ATPase subunit interface; other site 1104321008382 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 1104321008383 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 1104321008384 dimer interface [polypeptide binding]; other site 1104321008385 conserved gate region; other site 1104321008386 putative PBP binding loops; other site 1104321008387 ABC-ATPase subunit interface; other site 1104321008388 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 1104321008389 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1104321008390 Walker A/P-loop; other site 1104321008391 ATP binding site [chemical binding]; other site 1104321008392 Q-loop/lid; other site 1104321008393 ABC transporter signature motif; other site 1104321008394 Walker B; other site 1104321008395 D-loop; other site 1104321008396 H-loop/switch region; other site 1104321008397 TOBE domain; Region: TOBE_2; pfam08402 1104321008398 6-phosphogluconate dehydrogenase [Carbohydrate transport and metabolism]; Region: Gnd; COG0362 1104321008399 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 1104321008400 6-phosphogluconate dehydrogenase, C-terminal domain; Region: 6PGD; pfam00393 1104321008401 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 1104321008402 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 1104321008403 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 1104321008404 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 1104321008405 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 1104321008406 Lipid A core - O-antigen ligase and related enzymes [Cell envelope biogenesis, outer membrane]; Region: RfaL; COG3307 1104321008407 O-Antigen ligase; Region: Wzy_C; pfam04932 1104321008408 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 1104321008409 Glycosyl transferase family 2; Region: Glycos_transf_2; pfam00535 1104321008410 active site 1104321008411 Glycosyl transferases group 1; Region: Glyco_trans_1_4; pfam13692 1104321008412 Teichoic acid biosynthesis proteins [Cell envelope biogenesis, outer membrane]; Region: WecG; COG1922 1104321008413 The glycosyltransferase WecG/TagA superfamily contains Escherichia coli WecG, Bacillus subtilis TagA and related proteins. E. coli WecG is believed to be a UDP-N-acetyl-D-mannosaminuronic acid transferase, and is involved in enterobacterial common...; Region: Glyco_transf_WecG_TagA; cd06533 1104321008414 Uncharacterized protein involved in exopolysaccharide biosynthesis [Cell envelope biogenesis, outer membrane]; Region: GumC; COG3206 1104321008415 Chain length determinant protein; Region: Wzz; pfam02706 1104321008416 Diaminopimelate decarboxylase [Amino acid transport and metabolism]; Region: LysA; COG0019 1104321008417 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Ornithine Decarboxylase; Region: PLPDE_III_ODC; cd00622 1104321008418 dimer interface [polypeptide binding]; other site 1104321008419 active site 1104321008420 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 1104321008421 catalytic residues [active] 1104321008422 substrate binding site [chemical binding]; other site 1104321008423 amidase; Provisional; Region: PRK08310 1104321008424 indole-3-acetamide amidohydrolase; Region: PLN02722 1104321008425 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1104321008426 LysR family transcriptional regulator; Provisional; Region: PRK14997 1104321008427 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 1104321008428 putative effector binding pocket; other site 1104321008429 dimerization interface [polypeptide binding]; other site 1104321008430 ABC-type uncharacterized transport system, periplasmic component [General function prediction only]; Region: COG3683 1104321008431 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG2215 1104321008432 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 1104321008433 ABC-type molybdate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: ModC; COG4148 1104321008434 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1104321008435 Walker A/P-loop; other site 1104321008436 ATP binding site [chemical binding]; other site 1104321008437 Q-loop/lid; other site 1104321008438 ABC transporter signature motif; other site 1104321008439 Walker B; other site 1104321008440 D-loop; other site 1104321008441 H-loop/switch region; other site 1104321008442 TOBE domain; Region: TOBE; cl01440 1104321008443 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 1104321008444 dimer interface [polypeptide binding]; other site 1104321008445 conserved gate region; other site 1104321008446 putative PBP binding loops; other site 1104321008447 ABC-ATPase subunit interface; other site 1104321008448 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 1104321008449 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 1104321008450 Predicted sulfurtransferase [General function prediction only]; Region: COG1054 1104321008451 Member of the Rhodanese Homology Domain superfamily. This CD includes Escherichia coli YceA, Bacillus subtilis YbfQ, and similar uncharacterized proteins; Region: RHOD_YceA; cd01518 1104321008452 active site residue [active] 1104321008453 Protein of unknown function (DUF3380); Region: DUF3380; pfam11860 1104321008454 Protein of unknown function (DUF3380); Region: DUF3380; pfam11860 1104321008455 2-keto-3-deoxy-6-phosphogluconate aldolase [Carbohydrate transport and metabolism]; Region: Eda; COG0800 1104321008456 KDPG and KHG aldolase; Region: KDPG_aldolase; cd00452 1104321008457 active site 1104321008458 intersubunit interface [polypeptide binding]; other site 1104321008459 catalytic residue [active] 1104321008460 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3108 1104321008461 Bacterial protein of unknown function (DUF882); Region: Peptidase_M15_2; pfam05951 1104321008462 potential frameshift: common BLAST hit: gi|340791848|ref|YP_004757312.1| sigma-54 dependent DNA-binding response regulator 1104321008463 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 1104321008464 Response regulator receiver domain; Region: Response_reg; pfam00072 1104321008465 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1104321008466 active site 1104321008467 phosphorylation site [posttranslational modification] 1104321008468 intermolecular recognition site; other site 1104321008469 dimerization interface [polypeptide binding]; other site 1104321008470 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 1104321008471 Walker A motif; other site 1104321008472 ATP binding site [chemical binding]; other site 1104321008473 Walker B motif; other site 1104321008474 oligoendopeptidase, pepF/M3 family; Region: M3_fam_3; TIGR02290 1104321008475 Peptidase family M3B Oligopeptidase F (PepF); Region: M3B_PepF_5; cd09610 1104321008476 active site 1104321008477 Zn binding site [ion binding]; other site 1104321008478 aminodeoxychorismate synthase; Provisional; Region: PRK07508 1104321008479 chorismate binding enzyme; Region: Chorismate_bind; cl10555 1104321008480 hypothetical protein; Provisional; Region: PRK07546 1104321008481 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 1104321008482 substrate-cofactor binding pocket; other site 1104321008483 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1104321008484 homodimer interface [polypeptide binding]; other site 1104321008485 catalytic residue [active] 1104321008486 Homospermidine synthase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG5310 1104321008487 Saccharopine dehydrogenase; Region: Saccharop_dh; pfam03435 1104321008488 ferrochelatase; Reviewed; Region: hemH; PRK00035 1104321008489 Ferrochelatase, N-terminal domain: Ferrochelatase (protoheme ferrolyase or HemH) is the terminal enzyme of the heme biosynthetic pathway. It catalyzes the insertion of ferrous iron into the protoporphyrin IX ring yielding protoheme. This enzyme is...; Region: Ferrochelatase_N; cd03411 1104321008490 C-terminal domain interface [polypeptide binding]; other site 1104321008491 active site 1104321008492 Ferrochelatase, C-terminal domain: Ferrochelatase (protoheme ferrolyase or HemH) is the terminal enzyme of the heme biosynthetic pathway. It catalyzes the insertion of ferrous iron into the protoporphyrin IX ring yielding protoheme. This enzyme is...; Region: Ferrochelatase_C; cd00419 1104321008493 active site 1104321008494 N-terminal domain interface [polypeptide binding]; other site 1104321008495 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 1104321008496 Band_7_stomatin_like: A subgroup of the band 7 domain of flotillin (reggie) like proteins similar to stomatin and podicin (two lipid raft-associated integral membrane proteins). Individual proteins of this band 7 domain family may cluster to form...; Region: Band_7_stomatin_like; cd03403 1104321008497 Membrane protein implicated in regulation of membrane protease activity [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: COG1585 1104321008498 D-arabinose 5-phosphate isomerase; Provisional; Region: PRK10892 1104321008499 KpsF-like protein. KpsF is an arabinose-5-phosphate isomerase which contains SIS (Sugar ISomerase) domains. SIS domains are found in many phosphosugar isomerases and phosphosugar binding proteins. KpsF catalyzes the reversible reaction of ribulose...; Region: SIS_Kpsf; cd05014 1104321008500 putative active site [active] 1104321008501 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains associated with KpsF/GutQ domains in the API [A5P (D-arabinose 5-phosphate) isomerase] protein. These APIs catalyze the conversion of the pentose pathway...; Region: CBS_pair_KpsF_GutQ_assoc; cd04604 1104321008502 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5338 1104321008503 Uncharacterized protein conserved in bacteria (DUF2320); Region: DUF2320; pfam10082 1104321008504 Prokaryotic UGPase catalyses the synthesis of UDP-glucose; Region: UGPase_prokaryotic; cd02541 1104321008505 active site 1104321008506 tetramer interface; other site 1104321008507 lytic murein transglycosylase; Region: MltB_2; TIGR02283 1104321008508 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 1104321008509 N-acetyl-D-glucosamine binding site [chemical binding]; other site 1104321008510 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 1104321008511 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 1104321008512 N-acetyl-D-glucosamine binding site [chemical binding]; other site 1104321008513 catalytic residue [active] 1104321008514 TrbC/VIRB2 family; Region: TrbC; cl01583 1104321008515 Type IV secretory pathway, VirB3-like protein; Region: VirB3; cl01501 1104321008516 Type IV secretory pathway, VirB4 components [Intracellular trafficking and secretion]; Region: VirB4; COG3451 1104321008517 CagE, TrbE, VirB family, component of type IV transporter system; Region: CagE_TrbE_VirB; pfam03135 1104321008518 P-type DNA transfer protein VirB5; Region: VirB5; TIGR02791 1104321008519 Type IV secretion system proteins; Region: T4SS; pfam07996 1104321008520 Type IV secretory pathway, VirB6 components [Intracellular trafficking and secretion]; Region: VirB6; COG3704 1104321008521 Type IV secretory pathway, component VirB8 [Intracellular trafficking and secretion]; Region: VirB8; COG3736 1104321008522 VirB9/CagX/TrbG, a component of the type IV secretion system; Region: VirB9_CagX_TrbG; cl11423 1104321008523 VirB9/CagX/TrbG, a component of the type IV secretion system; Region: VirB9_CagX_TrbG; cd06911 1104321008524 VirB7 interaction site; other site 1104321008525 Type IV secretory pathway, VirB10 components [Intracellular trafficking and secretion]; Region: VirB10; COG2948 1104321008526 P-type DNA transfer ATPase VirB11; Region: VirB11; TIGR02788 1104321008527 Type IV secretory pathway component VirB11, and related ATPases. The homohexamer, VirB11 is one of eleven Vir proteins, which are required for T-pilus biogenesis and virulence in the transfer of T-DNA from the Ti (tumor-inducing) plasmid of bacterial to...; Region: VirB11-like_ATPase; cd01130 1104321008528 ATP binding site [chemical binding]; other site 1104321008529 Walker A motif; other site 1104321008530 hexamer interface [polypeptide binding]; other site 1104321008531 Walker B motif; other site 1104321008532 SGNH_peri2; 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_peri2; cd01829 1104321008533 active site 1104321008534 catalytic triad [active] 1104321008535 oxyanion hole [active] 1104321008536 D-alanine/D-serine/glycine permease; Provisional; Region: PRK11049 1104321008537 glutamate synthase subunit beta; Reviewed; Region: gltD; PRK12810 1104321008538 glutamate synthase subunit alpha; Provisional; Region: gltB; PRK11750 1104321008539 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 1104321008540 active site 1104321008541 dimer interface [polypeptide binding]; other site 1104321008542 Glutamate synthase central domain; Region: Glu_syn_central; pfam04898 1104321008543 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 1104321008544 active site 1104321008545 FMN binding site [chemical binding]; other site 1104321008546 substrate binding site [chemical binding]; other site 1104321008547 3Fe-4S cluster binding site [ion binding]; other site 1104321008548 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 1104321008549 domain interface; other site 1104321008550 Threonine aldolase [Amino acid transport and metabolism]; Region: GLY1; COG2008 1104321008551 Low-specificity threonine aldolase (TA). This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). TA catalyzes the conversion of L-threonine or L-allo-threonine to glycine and acetaldehyde in a...; Region: TA_like; cd06502 1104321008552 tetramer interface [polypeptide binding]; other site 1104321008553 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1104321008554 catalytic residue [active] 1104321008555 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 1104321008556 Alpha-crystallin domain (ACD) found in Escherichia coli inclusion body-associated proteins IbpA and IbpB, and similar proteins. IbpA and IbpB are 16 kDa small heat shock proteins (sHsps). sHsps are molecular chaperones that suppress protein aggregation...; Region: ACD_IbpA-B_like; cd06470 1104321008557 putative dimer interface [polypeptide binding]; other site 1104321008558 Peptidase propeptide and YPEB domain; Region: PepSY_2; pfam13670 1104321008559 Lysophospholipase [Lipid metabolism]; Region: PldB; COG2267 1104321008560 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 1104321008561 Predominantly bacterial family of Mg++ dependend phosphatases, related to inositol monophosphatases. These enzymes may dephosphorylate fructose-1,6-bisphosphate, inositol monophospate, 3'-phosphoadenosine-5'-phosphate, or similar substrates; Region: Bacterial_IMPase_like_1; cd01641 1104321008562 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 1104321008563 active site 1104321008564 N-formylglutamate amidohydrolase [Amino acid transport and metabolism]; Region: HutG; COG3741 1104321008565 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1104321008566 Response regulator receiver domain; Region: Response_reg; pfam00072 1104321008567 active site 1104321008568 phosphorylation site [posttranslational modification] 1104321008569 intermolecular recognition site; other site 1104321008570 dimerization interface [polypeptide binding]; other site 1104321008571 Response regulator [Signal transduction mechanisms]; Region: TtrR; COG4566 1104321008572 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1104321008573 active site 1104321008574 phosphorylation site [posttranslational modification] 1104321008575 intermolecular recognition site; other site 1104321008576 dimerization interface [polypeptide binding]; other site 1104321008577 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 1104321008578 dimerization interface [polypeptide binding]; other site 1104321008579 DNA binding residues [nucleotide binding] 1104321008580 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 1104321008581 ATP binding site [chemical binding]; other site 1104321008582 Mg2+ binding site [ion binding]; other site 1104321008583 G-X-G motif; other site 1104321008584 Uncharacterized membrane protein [Function unknown]; Region: SapB; COG1285 1104321008585 MgtC family; Region: MgtC; pfam02308 1104321008586 magnesium-transporting ATPase; Provisional; Region: PRK15122 1104321008587 Cation transporter/ATPase, N-terminus; Region: Cation_ATPase_N; smart00831 1104321008588 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 1104321008589 Soluble P-type ATPase [General function prediction only]; Region: COG4087 1104321008590 Cation transporting ATPase, C-terminus; Region: Cation_ATPase_C; pfam00689 1104321008591 Shikimate 5-dehydrogenase [Amino acid transport and metabolism]; Region: AroE; COG0169 1104321008592 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 1104321008593 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 1104321008594 shikimate binding site; other site 1104321008595 NAD(P) binding site [chemical binding]; other site 1104321008596 branched-chain alpha-keto acid dehydrogenase subunit E2; Reviewed; Region: PRK11856 1104321008597 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 1104321008598 E3 interaction surface; other site 1104321008599 lipoyl attachment site [posttranslational modification]; other site 1104321008600 e3 binding domain; Region: E3_binding; pfam02817 1104321008601 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 1104321008602 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, alpha subunit [Energy production and conversion]; Region: AcoA; COG1071 1104321008603 Thiamine pyrophosphate (TPP) family, E1 of PDC_ADC_BCADC subfamily, TPP-binding module; composed of proteins similar to the E1 components of the human pyruvate dehydrogenase complex (PDC), the acetoin dehydrogenase complex (ADC) and the branched chain...; Region: TPP_E1_PDC_ADC_BCADC; cd02000 1104321008604 tetramer interface [polypeptide binding]; other site 1104321008605 TPP-binding site [chemical binding]; other site 1104321008606 heterodimer interface [polypeptide binding]; other site 1104321008607 phosphorylation loop region [posttranslational modification] 1104321008608 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, beta subunit [Energy production and conversion]; Region: AcoB; COG0022 1104321008609 Pyrimidine (PYR) binding domain of the beta subunits of the E1 components of human pyruvate dehydrogenase complex (E1- PDHc) and related proteins; Region: TPP_PYR_E1-PDHc-beta_like; cd07036 1104321008610 alpha subunit interface [polypeptide binding]; other site 1104321008611 TPP binding site [chemical binding]; other site 1104321008612 heterodimer interface [polypeptide binding]; other site 1104321008613 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 1104321008614 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 1104321008615 classical (c) SDRs; Region: SDR_c; cd05233 1104321008616 NAD(P) binding site [chemical binding]; other site 1104321008617 active site 1104321008618 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 1104321008619 classical (c) SDRs; Region: SDR_c; cd05233 1104321008620 NAD(P) binding site [chemical binding]; other site 1104321008621 active site 1104321008622 This domain superfamily is found in a variety of structurally related metalloproteins, including the type I extradiol dioxygenases, glyoxalase I and a group of antibiotic resistance proteins; Region: Glo_EDI_BRP_like; cd06587 1104321008623 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 1104321008624 active site 1104321008625 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 1104321008626 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 1104321008627 Walker A/P-loop; other site 1104321008628 ATP binding site [chemical binding]; other site 1104321008629 Q-loop/lid; other site 1104321008630 ABC transporter signature motif; other site 1104321008631 Walker B; other site 1104321008632 D-loop; other site 1104321008633 H-loop/switch region; other site 1104321008634 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 1104321008635 Walker A/P-loop; other site 1104321008636 ATP binding site [chemical binding]; other site 1104321008637 ABC transporter; Region: ABC_tran; pfam00005 1104321008638 Q-loop/lid; other site 1104321008639 ABC transporter signature motif; other site 1104321008640 Walker B; other site 1104321008641 D-loop; other site 1104321008642 H-loop/switch region; other site 1104321008643 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 1104321008644 Transmembrane subunit (TM) of Escherichia coli LivM and related proteins. LivM is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivM_like; cd06581 1104321008645 TM-ABC transporter signature motif; other site 1104321008646 Transmembrane subunit (TM) of Escherichia coli LivH and related proteins. LivH is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivH_like; cd06582 1104321008647 TM-ABC transporter signature motif; other site 1104321008648 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 1104321008649 Periplasmic solute-binding domain of active transport proteins; Region: PBP1_SBP_like_3; cd06329 1104321008650 putative ligand binding site [chemical binding]; other site 1104321008651 Transcriptional regulators [Transcription]; Region: FadR; COG2186 1104321008652 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1104321008653 DNA-binding site [nucleotide binding]; DNA binding site 1104321008654 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 1104321008655 potential frameshift: common BLAST hit: gi|340791789|ref|YP_004757253.1| extracytoplasmic function alternative sigma factor 1104321008656 Protein of unknown function (DUF1109); Region: DUF1109; cl02071 1104321008657 Protein of unknown function (DUF1109); Region: DUF1109; cl02071 1104321008658 RNA polymerase sigma factor; Provisional; Region: PRK12539 1104321008659 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1104321008660 Sigma-70, region 4; Region: Sigma70_r4_2; pfam08281 1104321008661 pentapeptide MXKDX repeat protein; Region: penta_MxKDx; TIGR02953 1104321008662 Thiosulfate reductase cytochrome B subunit (membrane anchoring protein) [Energy production and conversion]; Region: COG4117 1104321008663 Cytochrome b(N-terminal)/b6/petB; Region: Cytochrom_B_N; pfam00033 1104321008664 Sulfite oxidase and related enzymes [General function prediction only]; Region: COG2041 1104321008665 bacterial subgroup of the sulfite oxidase (SO) family of molybdopterin binding domains. This domain is found in a variety of oxidoreductases. Common features of all known members of this family, like sulfite oxidase and nitrite reductase, are that they...; Region: bact_SO_family_Moco; cd02108 1104321008666 Moco binding site; other site 1104321008667 metal coordination site [ion binding]; other site 1104321008668 Condensation domain; Region: Condensation; pfam00668 1104321008669 potential frameshift: common BLAST hit: gi|189022248|ref|YP_001931989.1| Isochorismate synthase 1104321008670 chorismate binding enzyme; Region: Chorismate_bind; cl10555 1104321008671 chorismate binding enzyme; Region: Chorismate_bind; cl10555 1104321008672 enterobactin synthase subunit E; Provisional; Region: entE; PRK10946 1104321008673 2,3-dihydroxybenzoate-AMP ligase; Region: 23DHB-AMP_lg; cd05920 1104321008674 acyl-activating enzyme (AAE) consensus motif; other site 1104321008675 active site 1104321008676 AMP binding site [chemical binding]; other site 1104321008677 substrate binding site [chemical binding]; other site 1104321008678 Isochorismatase, also known as 2,3 dihydro-2,3 dihydroxybenzoate synthase, catalyses the conversion of isochorismate, in the presence of water, to 2,3-dihydroxybenzoate and pyruvate, via the hydrolysis of a vinyl ether, an uncommon reaction in biological...; Region: isochorismatase; cd01013 1104321008679 hydrophobic substrate binding pocket; other site 1104321008680 Isochorismatase family; Region: Isochorismatase; pfam00857 1104321008681 active site 1104321008682 conserved cis-peptide bond; other site 1104321008683 Aryl carrier domain [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3433 1104321008684 2,3-dihydroxybenzoate-2,3-dehydrogenase; Validated; Region: PRK08220 1104321008685 2,3 dihydro-2,3 dihydrozybenzoate dehydrogenases, classical (c) SDRs; Region: DH-DHB-DH_SDR_c; cd05331 1104321008686 putative NAD(P) binding site [chemical binding]; other site 1104321008687 active site 1104321008688 Phosphopantetheinyl transferase component of siderophore synthetase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntD; COG2977 1104321008689 4'-phosphopantetheinyl transferase superfamily; Region: ACPS; pfam01648 1104321008690 Predicted secreted Zn-dependent protease [Posttranslational modification, protein turnover, chaperones]; Region: COG5664 1104321008691 Uncharacterized ABC-type transport system, periplasmic component/surface lipoprotein [General function prediction only]; Region: Med; COG1744 1104321008692 Periplasmic binding domain of basic membrane lipoprotein, PnrA, in Treponema pallidum and its homologs from other bacteria and Archaea; Region: PBP1_BmpA_PnrA_like; cd06354 1104321008693 ligand binding site [chemical binding]; other site 1104321008694 potential frameshift: common BLAST hit: gi|340791776|ref|YP_004757240.1| ABC transporter ATP-binding protein 1104321008695 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 1104321008696 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 1104321008697 Walker A/P-loop; other site 1104321008698 ATP binding site [chemical binding]; other site 1104321008699 Q-loop/lid; other site 1104321008700 ABC transporter signature motif; other site 1104321008701 Walker B; other site 1104321008702 D-loop; other site 1104321008703 H-loop/switch region; other site 1104321008704 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1104321008705 Walker A/P-loop; other site 1104321008706 ATP binding site [chemical binding]; other site 1104321008707 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 1104321008708 potential frameshift: common BLAST hit: gi|340791775|ref|YP_004757239.1| ABC transporter permease 1104321008709 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4603 1104321008710 Transmembrane subunit (TM) of Treponema pallidum (Tp) RbsC-1, RbsC-2 and related proteins. This is a functionally uncharacterized subgroup of TMs which belong to a larger group of TMs of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette; Region: TM_PBP1_transp_TpRbsC_like; cd06580 1104321008711 TM-ABC transporter signature motif; other site 1104321008712 Transmembrane subunit (TM) of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which are involved in the uptake of branched-chain amino acids (AAs), as well as TMs of transporters involved in the uptake of...; Region: TM_PBP1_branched-chain-AA_like; cl00454 1104321008713 Transmembrane subunit (TM) of Treponema pallidum (Tp) RbsC-1, RbsC-2 and related proteins. This is a functionally uncharacterized subgroup of TMs which belong to a larger group of TMs of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette; Region: TM_PBP1_transp_TpRbsC_like; cd06580 1104321008714 TM-ABC transporter signature motif; other site 1104321008715 nuc_hydro_IU_UC_XIUA: inosine-uridine preferring, xanthosine-inosine-uridine-adenosine-preferring and, uridine-cytidine preferring nucleoside hydrolases. Nucleoside hydrolases cleave the N-glycosidic bond in nucleosides generating ribose and the...; Region: nuc_hydro_IU_UC_XIUA; cd02651 1104321008716 active site 1104321008717 tetramer interface [polypeptide binding]; other site 1104321008718 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 1104321008719 Ribokinase catalyses the phosphorylation of ribose to ribose-5-phosphate using ATP. This reaction is the first step in the ribose metabolism. It traps ribose within the cell after uptake and also prepares the sugar for use in the synthesis of nucleotides...; Region: ribokinase; cd01174 1104321008720 substrate binding site [chemical binding]; other site 1104321008721 dimer interface [polypeptide binding]; other site 1104321008722 ATP binding site [chemical binding]; other site 1104321008723 replication initiation protein RepC; Provisional; Region: PRK13824 1104321008724 Replication protein C N-terminal domain; Region: RP-C; pfam03428 1104321008725 Replication protein C C-terminal region; Region: RP-C_C; pfam11800 1104321008726 plasmid partitioning protein RepB; Region: partition_RepB; TIGR03454 1104321008727 ParB-like nuclease domain; Region: ParB; smart00470 1104321008728 plasmid partitioning protein RepA; Region: partition_RepA; TIGR03453 1104321008729 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 1104321008730 P-loop; other site 1104321008731 Magnesium ion binding site [ion binding]; other site 1104321008732 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 1104321008733 P-loop; other site 1104321008734 Magnesium ion binding site [ion binding]; other site 1104321008735 coproporphyrinogen III oxidase; Provisional; Region: PRK09249 1104321008736 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 1104321008737 FeS/SAM binding site; other site 1104321008738 HemN C-terminal domain; Region: HemN_C; pfam06969 1104321008739 potential frameshift: common BLAST hit: gi|23500910|ref|NP_700350.1| cadmium-translocating P-type ATPase 1104321008740 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 1104321008741 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 1104321008742 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 1104321008743 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: MgtA; COG0474 1104321008744 haloacid dehalogenase-like hydrolase; Region: Hydrolase; pfam00702 1104321008745 Soluble P-type ATPase [General function prediction only]; Region: COG4087 1104321008746 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 1104321008747 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 1104321008748 Walker A/P-loop; other site 1104321008749 ATP binding site [chemical binding]; other site 1104321008750 Q-loop/lid; other site 1104321008751 ABC transporter signature motif; other site 1104321008752 Walker B; other site 1104321008753 D-loop; other site 1104321008754 H-loop/switch region; other site 1104321008755 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 1104321008756 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 1104321008757 Walker A/P-loop; other site 1104321008758 ATP binding site [chemical binding]; other site 1104321008759 Q-loop/lid; other site 1104321008760 ABC transporter signature motif; other site 1104321008761 Walker B; other site 1104321008762 D-loop; other site 1104321008763 H-loop/switch region; other site 1104321008764 potential frameshift: common BLAST hit: gi|256015954|ref|YP_003105963.1| high-affinity branched-chain amino acid transport system permease 1104321008765 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 1104321008766 Transmembrane subunit (TM) of Escherichia coli LivM and related proteins. LivM is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivM_like; cd06581 1104321008767 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 1104321008768 Transmembrane subunit (TM) of Escherichia coli LivM and related proteins. LivM is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivM_like; cd06581 1104321008769 TM-ABC transporter signature motif; other site 1104321008770 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1104321008771 Transmembrane subunit (TM) of Escherichia coli LivH and related proteins. LivH is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivH_like; cd06582 1104321008772 TM-ABC transporter signature motif; other site 1104321008773 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 1104321008774 Type I periplasmic ligand-binding domain of uncharacterized ABC (ATPase Binding Cassette)-type active transport systems that are predicted to be involved in transport of amino acids, peptides, or inorganic ions; Region: PBP1_ABC_ligand_binding_like_5; cd06338 1104321008775 putative ligand binding site [chemical binding]; other site 1104321008776 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 1104321008777 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1104321008778 TonB-dependent heme/hemoglobin receptor family protein; Region: TonB-hemin; TIGR01785 1104321008779 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 1104321008780 N-terminal plug; other site 1104321008781 ligand-binding site [chemical binding]; other site 1104321008782 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 1104321008783 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 1104321008784 nucleotide binding site [chemical binding]; other site 1104321008785 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 1104321008786 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 1104321008787 dimer interface [polypeptide binding]; other site 1104321008788 conserved gate region; other site 1104321008789 putative PBP binding loops; other site 1104321008790 ABC-ATPase subunit interface; other site 1104321008791 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 1104321008792 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 1104321008793 Walker A/P-loop; other site 1104321008794 ATP binding site [chemical binding]; other site 1104321008795 Q-loop/lid; other site 1104321008796 ABC transporter signature motif; other site 1104321008797 Walker B; other site 1104321008798 D-loop; other site 1104321008799 H-loop/switch region; other site 1104321008800 ABC transporter, substrate-binding protein, aliphatic sulfonates family; Region: SsuA_fam; TIGR01728 1104321008801 NMT1-like family; Region: NMT1_2; pfam13379 1104321008802 substrate binding pocket [chemical binding]; other site 1104321008803 membrane-bound complex binding site; other site 1104321008804 hinge residues; other site 1104321008805 Arylsulfatase A and related enzymes [Inorganic ion transport and metabolism]; Region: AslA; COG3119 1104321008806 Sulfatase; Region: Sulfatase; cl17466 1104321008807 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 1104321008808 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 1104321008809 active site 1104321008810 metal binding site [ion binding]; metal-binding site 1104321008811 ABC-type sugar transport systems, ATPase components [Carbohydrate transport and metabolism]; Region: MalK; COG3839 1104321008812 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1104321008813 Walker A/P-loop; other site 1104321008814 ATP binding site [chemical binding]; other site 1104321008815 Q-loop/lid; other site 1104321008816 ABC transporter signature motif; other site 1104321008817 Walker B; other site 1104321008818 D-loop; other site 1104321008819 H-loop/switch region; other site 1104321008820 TOBE domain; Region: TOBE_2; pfam08402 1104321008821 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 1104321008822 dimer interface [polypeptide binding]; other site 1104321008823 conserved gate region; other site 1104321008824 putative PBP binding loops; other site 1104321008825 ABC-ATPase subunit interface; other site 1104321008826 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 1104321008827 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 1104321008828 dimer interface [polypeptide binding]; other site 1104321008829 conserved gate region; other site 1104321008830 putative PBP binding loops; other site 1104321008831 ABC-ATPase subunit interface; other site 1104321008832 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 1104321008833 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 1104321008834 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 1104321008835 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1104321008836 DNA-binding site [nucleotide binding]; DNA binding site 1104321008837 UTRA domain; Region: UTRA; pfam07702 1104321008838 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 1104321008839 Protein of unknown function (DUF1634); Region: DUF1634; pfam07843 1104321008840 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 1104321008841 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 1104321008842 Walker A/P-loop; other site 1104321008843 ATP binding site [chemical binding]; other site 1104321008844 Q-loop/lid; other site 1104321008845 ABC transporter signature motif; other site 1104321008846 Walker B; other site 1104321008847 D-loop; other site 1104321008848 H-loop/switch region; other site 1104321008849 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 1104321008850 Transmembrane subunit (TM) of Escherichia coli LivM and related proteins. LivM is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivM_like; cd06581 1104321008851 TM-ABC transporter signature motif; other site 1104321008852 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 1104321008853 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 1104321008854 Walker A/P-loop; other site 1104321008855 ATP binding site [chemical binding]; other site 1104321008856 Q-loop/lid; other site 1104321008857 ABC transporter signature motif; other site 1104321008858 Walker B; other site 1104321008859 D-loop; other site 1104321008860 H-loop/switch region; other site 1104321008861 Transmembrane subunit (TM) of Escherichia coli LivH and related proteins. LivH is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivH_like; cd06582 1104321008862 TM-ABC transporter signature motif; other site 1104321008863 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 1104321008864 Type I periplasmic ligand-binding domain of uncharacterized ABC (ATPase Binding Cassette)-type active transport systems that are predicted to be involved in transport of amino acids, peptides, or inorganic ions; Region: PBP1_ABC_ligand_binding_like_7; cd06341 1104321008865 putative ligand binding site [chemical binding]; other site 1104321008866 Predicted metal-dependent hydrolase with the TIM-barrel fold [General function prediction only]; Region: COG1574 1104321008867 YtcJ_like metal dependent amidohydrolases. YtcJ is a Bacillus subtilis ORF of unknown function. The Arabidopsis homolog LAF3 has been identified as a factor required for photochrome A signalling; Region: YtcJ_like; cd01300 1104321008868 active site 1104321008869 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 1104321008870 Escherichia coli NADP+-dependent gamma-glutamyl-gamma-aminobutyraldehyde dehydrogenase PuuC-like; Region: ALDH_GABALDH-PuuC; cd07112 1104321008871 NAD(P) binding site [chemical binding]; other site 1104321008872 catalytic residues [active] 1104321008873 Amino acid transporters [Amino acid transport and metabolism]; Region: PotE; COG0531 1104321008874 IclR helix-turn-helix domain; Region: HTH_IclR; cl17605 1104321008875 Transcriptional regulator [Transcription]; Region: IclR; COG1414 1104321008876 Bacterial transcriptional regulator; Region: IclR; pfam01614 1104321008877 Uncharacterized conserved protein [Function unknown]; Region: COG5441; cl02262 1104321008878 Uncharacterized protein family (UPF0261); Region: UPF0261; pfam06792 1104321008879 Haloacid dehalogenase-like hydrolase; Region: HAD_2; pfam13419 1104321008880 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 1104321008881 motif II; other site 1104321008882 hypothetical protein; Provisional; Region: PRK07481 1104321008883 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 1104321008884 inhibitor-cofactor binding pocket; inhibition site 1104321008885 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1104321008886 catalytic residue [active] 1104321008887 4-aminobutyrate aminotransferase and related aminotransferases [Amino acid transport and metabolism]; Region: GabT; COG0160 1104321008888 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 1104321008889 inhibitor-cofactor binding pocket; inhibition site 1104321008890 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1104321008891 catalytic residue [active] 1104321008892 Putative homoserine kinase type II (protein kinase fold) [General function prediction only]; Region: COG2334 1104321008893 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 1104321008894 active site 1104321008895 ATP binding site [chemical binding]; other site 1104321008896 substrate binding site [chemical binding]; other site 1104321008897 homoprotocatechuate degradation operon regulator, HpaR; Region: HpaR; TIGR02337 1104321008898 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 1104321008899 5-carboxymethyl-2-hydroxymuconate isomerase (CHMI) is a trimeric enzyme catalyzing the isomerization of the unsaturated ketone 5-(carboxymethyl)-2-hydroxymuconate to 5-(carboxymethyl)-2-oxo-3-hexene-1,6-dionate. This is one step in the...; Region: CHMI; cd00580 1104321008900 putative substrate binding pocket [chemical binding]; other site 1104321008901 trimer interface [polypeptide binding]; other site 1104321008902 5-carboxymethyl-2-hydroxymuconate semialdehyde dehydrogenase; Region: HpaE; TIGR02299 1104321008903 Human aldehyde dehydrogenase family 8 member A1-like; Region: ALDH_F8_HMSADH; cd07093 1104321008904 NAD binding site [chemical binding]; other site 1104321008905 catalytic residues [active] 1104321008906 potential frameshift: common BLAST hit: gi|340792915|ref|YP_004758379.1| homoprotocatechuate 2,3-dioxygenase 1104321008907 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 1104321008908 active site 1104321008909 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 1104321008910 C-terminal domain of 3,4-dihydroxyphenylacetate 2,3-dioxygenase (HPCD), which catalyses the second step in the degradation of 4-hydroxyphenylacetate to succinate and pyruvate; belongs to the type I class II family of extradiol dioxygenases; Region: HPCD_C_class_II; cd07256 1104321008911 tetramer interface [polypeptide binding]; other site 1104321008912 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 1104321008913 active site 1104321008914 metal binding site [ion binding]; metal-binding site 1104321008915 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 1104321008916 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 1104321008917 2-oxo-hepta-3-ene-1,7-dioic acid hydratase; Region: HpaH; TIGR02312 1104321008918 2,4-dihydroxyhept-2-ene-1,7-dioic acid aldolase; Region: HpaI; TIGR02311 1104321008919 choline dehydrogenase; Validated; Region: PRK02106 1104321008920 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 1104321008921 Streptomyces aureofaciens putative aldehyde dehydrogenase AldA (AAD23400)-like; Region: ALDH_AldA-AAD23400; cd07106 1104321008922 NAD(P) binding site [chemical binding]; other site 1104321008923 catalytic residues [active] 1104321008924 DNA-binding transcriptional activator FeaR; Provisional; Region: PRK09685 1104321008925 HTH domain; Region: HTH_11; cl17392 1104321008926 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1104321008927 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1104321008928 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 1104321008929 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 1104321008930 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1104321008931 TM-ABC transporter signature motif; other site 1104321008932 xylose transporter ATP-binding subunit; Provisional; Region: PRK13549 1104321008933 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 1104321008934 Walker A/P-loop; other site 1104321008935 ATP binding site [chemical binding]; other site 1104321008936 Q-loop/lid; other site 1104321008937 ABC transporter signature motif; other site 1104321008938 Walker B; other site 1104321008939 D-loop; other site 1104321008940 H-loop/switch region; other site 1104321008941 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 1104321008942 Periplasmic xylose-binding component of the ABC-type transport systems that belong to a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein (PBP1) superfamily; Region: PBP1_ABC_xylose_binding; cd01538 1104321008943 D-xylose ABC transporter, substrate-binding protein; Region: xylF; TIGR02634 1104321008944 putative ligand binding site [chemical binding]; other site 1104321008945 Uncharacterized conserved protein [Function unknown]; Region: COG3268 1104321008946 Autotransporter-associated beta strand repeat; Region: Autotrns_rpt; pfam12951 1104321008947 Autotransporter-associated beta strand repeat; Region: Autotrns_rpt; pfam12951 1104321008948 Autotransporter-associated beta strand repeat; Region: Autotrns_rpt; pfam12951 1104321008949 Autotransporter-associated beta strand repeat; Region: Autotrns_rpt; cl15373 1104321008950 Autotransporter-associated beta strand repeat; Region: Autotrns_rpt; pfam12951 1104321008951 Autotransporter-associated beta strand repeat; Region: Autotrns_rpt; pfam12951 1104321008952 Autotransporter-associated beta strand repeat; Region: Autotrns_rpt; pfam12951 1104321008953 Autotransporter-associated beta strand repeat; Region: Autotrns_rpt; pfam12951 1104321008954 Pertactin-like passenger domains (virulence factors), C-terminal, subgroup 2, of autotransporter proteins of the type V secretion system of Gram-negative bacteria. This subgroup includes the passenger domains of the nonprotease autotransporters, Ag43; Region: PL2_Passenger_AT; cd01344 1104321008955 outer membrane autotransporter barrel domain; Region: autotrans_barl; TIGR01414 1104321008956 Autotransporter beta-domain; Region: Autotransporter; smart00869 1104321008957 flagellin; Reviewed; Region: PRK12687 1104321008958 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 1104321008959 flagellar MS-ring protein; Reviewed; Region: fliF; PRK06007 1104321008960 Secretory protein of YscJ/FliF family; Region: YscJ_FliF; pfam01514 1104321008961 Flagellar M-ring protein C-terminal; Region: YscJ_FliF_C; pfam08345 1104321008962 flagellar motor protein MotB; Validated; Region: motB; PRK05996 1104321008963 Membrane MotB of proton-channel complex MotA/MotB; Region: MotB_plug; pfam13677 1104321008964 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 1104321008965 ligand binding site [chemical binding]; other site 1104321008966 chemotaxis protein; Reviewed; Region: PRK12798 1104321008967 Flagellar hook-length control protein FliK; Region: Flg_hook; pfam02120 1104321008968 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 1104321008969 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 1104321008970 N-acetyl-D-glucosamine binding site [chemical binding]; other site 1104321008971 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1104321008972 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 1104321008973 DNA binding site [nucleotide binding] 1104321008974 flagellar hook protein FlgE; Validated; Region: flgE; PRK05682 1104321008975 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 1104321008976 Flagellar basal body protein FlaE; Region: FlaE; pfam07559 1104321008977 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 1104321008978 flagellar hook-associated protein FlgK; Validated; Region: flgK; PRK07521 1104321008979 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 1104321008980 flagellar hook-associated protein FlgL; Validated; Region: flgL; PRK06008 1104321008981 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 1104321008982 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 1104321008983 Flagellar biosynthesis regulator FlaF [Cell motility and secretion]; Region: FlaF; COG5442 1104321008984 flagellar biosynthesis regulatory protein FlaF; Reviewed; Region: flaF; PRK12793 1104321008985 Flagellar biosynthesis regulator FlbT [Cell motility and secretion]; Region: FlbT; COG5443 1104321008986 flagellar basal body rod modification protein; Reviewed; Region: flgD; PRK06009 1104321008987 Flagellar hook capping protein - N-terminal region; Region: FlgD; pfam03963 1104321008988 flagellar biosynthesis protein FliQ; Reviewed; Region: fliQ; PRK06010 1104321008989 flagellar biosynthesis protein FlhA; Reviewed; Region: flhA; PRK12792 1104321008990 FHIPEP family; Region: FHIPEP; pfam00771 1104321008991 Bacterial export proteins, family 1; Region: Bac_export_1; cl00734 1104321008992 Rod binding protein; Region: Rod-binding; pfam10135 1104321008993 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 1104321008994 metal binding site 2 [ion binding]; metal-binding site 1104321008995 putative DNA binding helix; other site 1104321008996 metal binding site 1 [ion binding]; metal-binding site 1104321008997 dimer interface [polypeptide binding]; other site 1104321008998 structural Zn2+ binding site [ion binding]; other site 1104321008999 ABC-type Mn2+/Zn2+ transport systems, permease components [Inorganic ion transport and metabolism]; Region: ZnuB; COG1108 1104321009000 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 1104321009001 ABC-ATPase subunit interface; other site 1104321009002 dimer interface [polypeptide binding]; other site 1104321009003 putative PBP binding regions; other site 1104321009004 ABC-type Mn/Zn transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: ZnuC; COG1121 1104321009005 ATP-binding cassette domain of the metal-type transporters; Region: ABC_Metallic_Cations; cd03235 1104321009006 ABC-type Zn2+ transport system, periplasmic component/surface adhesin [Inorganic ion transport and metabolism]; Region: ZnuA; COG4531 1104321009007 Zinc binding protein ZnuA. These proteins have been shown to function as initial receptors in the ABC uptake of Zn2+. They belong to the TroA superfamily of periplasmic metal binding proteins that share a distinct fold and ligand binding mechanism; Region: ZnuA; cd01019 1104321009008 metal binding site [ion binding]; metal-binding site 1104321009009 Putative GTPases (G3E family) [General function prediction only]; Region: COG0523 1104321009010 CobW/HypB/UreG, nucleotide-binding domain; Region: cobW; pfam02492 1104321009011 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; smart00833 1104321009012 Rrf2 family protein; Region: rrf2_super; TIGR00738 1104321009013 Transcriptional regulator; Region: Rrf2; pfam02082 1104321009014 Predicted N-acetylglucosamine kinase [Carbohydrate transport and metabolism]; Region: COG2971 1104321009015 putative transposase OrfB; Reviewed; Region: PHA02517 1104321009016 HTH-like domain; Region: HTH_21; pfam13276 1104321009017 Integrase core domain; Region: rve; pfam00665 1104321009018 Integrase core domain; Region: rve_3; pfam13683 1104321009019 D-lactate dehydrogenase, membrane binding; Region: Lact-deh-memb; pfam09330 1104321009020 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3395 1104321009021 Ribulose-5-phosphate 4-epimerase and related epimerases and aldolases [Carbohydrate transport and metabolism]; Region: AraD; COG0235 1104321009022 intersubunit interface [polypeptide binding]; other site 1104321009023 active site 1104321009024 Zn2+ binding site [ion binding]; other site 1104321009025 Glutamate-1-semialdehyde aminotransferase [Coenzyme metabolism]; Region: HemL; COG0001 1104321009026 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 1104321009027 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1104321009028 catalytic residue [active] 1104321009029 potential frameshift: common BLAST hit: gi|256015869|ref|YP_003105878.1| spermidine/putrescine transport ATP-binding protein PotA 1104321009030 sulfate ABC transporter, ATP-binding protein; Region: 3a0106s01; TIGR00968 1104321009031 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1104321009032 Walker A/P-loop; other site 1104321009033 ATP binding site [chemical binding]; other site 1104321009034 Q-loop/lid; other site 1104321009035 ABC transporter signature motif; other site 1104321009036 Walker B; other site 1104321009037 D-loop; other site 1104321009038 H-loop/switch region; other site 1104321009039 TOBE domain; Region: TOBE_2; pfam08402 1104321009040 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 1104321009041 dimer interface [polypeptide binding]; other site 1104321009042 conserved gate region; other site 1104321009043 putative PBP binding loops; other site 1104321009044 ABC-ATPase subunit interface; other site 1104321009045 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 1104321009046 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 1104321009047 dimer interface [polypeptide binding]; other site 1104321009048 conserved gate region; other site 1104321009049 putative PBP binding loops; other site 1104321009050 ABC-ATPase subunit interface; other site 1104321009051 Spermidine/putrescine-binding periplasmic protein [Amino acid transport and metabolism]; Region: PotD; COG0687 1104321009052 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 1104321009053 amidase; Provisional; Region: PRK07486 1104321009054 Amidase; Region: Amidase; cl11426 1104321009055 Gluconolactonase [Carbohydrate transport and metabolism]; Region: COG3386 1104321009056 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 1104321009057 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1104321009058 Walker A/P-loop; other site 1104321009059 ATP binding site [chemical binding]; other site 1104321009060 Q-loop/lid; other site 1104321009061 ABC transporter signature motif; other site 1104321009062 Walker B; other site 1104321009063 D-loop; other site 1104321009064 H-loop/switch region; other site 1104321009065 oligopeptide/dipeptide ABC transporter, ATP-binding protein, C-terminal domain; Region: oligo_HPY; TIGR01727 1104321009066 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 1104321009067 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1104321009068 Walker A/P-loop; other site 1104321009069 ATP binding site [chemical binding]; other site 1104321009070 Q-loop/lid; other site 1104321009071 ABC transporter signature motif; other site 1104321009072 Walker B; other site 1104321009073 D-loop; other site 1104321009074 H-loop/switch region; other site 1104321009075 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 1104321009076 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 1104321009077 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 1104321009078 dimer interface [polypeptide binding]; other site 1104321009079 conserved gate region; other site 1104321009080 putative PBP binding loops; other site 1104321009081 ABC-ATPase subunit interface; other site 1104321009082 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 1104321009083 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 1104321009084 dimer interface [polypeptide binding]; other site 1104321009085 conserved gate region; other site 1104321009086 putative PBP binding loops; other site 1104321009087 ABC-ATPase subunit interface; other site 1104321009088 potential frameshift: common BLAST hit: gi|225686841|ref|YP_002734813.1| glutathione-binding protein GsiB 1104321009089 The substrate-binding domain of an ABC-type nickel/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like; cl01709 1104321009090 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 1104321009091 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 1104321009092 The substrate-binding domain of an ABC-type nickel/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like; cl01709 1104321009093 Transcriptional regulators [Transcription]; Region: GntR; COG1802 1104321009094 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1104321009095 DNA-binding site [nucleotide binding]; DNA binding site 1104321009096 FCD domain; Region: FCD; pfam07729 1104321009097 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 1104321009098 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1104321009099 Walker A/P-loop; other site 1104321009100 ATP binding site [chemical binding]; other site 1104321009101 Q-loop/lid; other site 1104321009102 ABC transporter signature motif; other site 1104321009103 Walker B; other site 1104321009104 D-loop; other site 1104321009105 H-loop/switch region; other site 1104321009106 oligopeptide/dipeptide ABC transporter, ATP-binding protein, C-terminal domain; Region: oligo_HPY; TIGR01727 1104321009107 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 1104321009108 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1104321009109 Walker A/P-loop; other site 1104321009110 ATP binding site [chemical binding]; other site 1104321009111 Q-loop/lid; other site 1104321009112 ABC transporter signature motif; other site 1104321009113 Walker B; other site 1104321009114 D-loop; other site 1104321009115 H-loop/switch region; other site 1104321009116 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 1104321009117 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 1104321009118 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 1104321009119 dimer interface [polypeptide binding]; other site 1104321009120 conserved gate region; other site 1104321009121 putative PBP binding loops; other site 1104321009122 ABC-ATPase subunit interface; other site 1104321009123 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 1104321009124 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 1104321009125 dimer interface [polypeptide binding]; other site 1104321009126 conserved gate region; other site 1104321009127 putative PBP binding loops; other site 1104321009128 ABC-ATPase subunit interface; other site 1104321009129 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 1104321009130 The substrate-binding component of an uncharacterized ABC-type nickel/dipeptide/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like_16; cd08502 1104321009131 Protein related to penicillin acylase [General function prediction only]; Region: COG2366 1104321009132 The Ntn hydrolases (N-terminal nucleophile) are a diverse superfamily of of enzymes that are activated autocatalytically via an N-terminally lcated nucleophilic amino acid. N-terminal nucleophile (NTN-) hydrolase superfamily, which contains a...; Region: Ntn_hydrolase; cl00467 1104321009133 Penicillin G acylase (PGA) belongs to a family of beta-lactam acylases that includes cephalosporin acylase (CA) and aculeacin A acylase. PGA and CA are crucial for the production of backbone chemicals like 6-aminopenicillanic acid and...; Region: Ntn_PGA_like; cd03747 1104321009134 active site 1104321009135 The Ntn hydrolases (N-terminal nucleophile) are a diverse superfamily of of enzymes that are activated autocatalytically via an N-terminally lcated nucleophilic amino acid. N-terminal nucleophile (NTN-) hydrolase superfamily, which contains a...; Region: Ntn_hydrolase; cl00467 1104321009136 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 1104321009137 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 1104321009138 active site 1104321009139 enoyl-CoA hydratase; Provisional; Region: PRK08138 1104321009140 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 1104321009141 substrate binding site [chemical binding]; other site 1104321009142 oxyanion hole (OAH) forming residues; other site 1104321009143 trimer interface [polypeptide binding]; other site 1104321009144 3-hydroxy-acyl-CoA dehydrogenase; Validated; Region: PRK08268 1104321009145 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 1104321009146 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 1104321009147 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 1104321009148 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, alpha subunit [Energy production and conversion]; Region: AcoA; COG1071 1104321009149 Thiamine pyrophosphate (TPP) family, E1 of PDC_ADC_BCADC subfamily, TPP-binding module; composed of proteins similar to the E1 components of the human pyruvate dehydrogenase complex (PDC), the acetoin dehydrogenase complex (ADC) and the branched chain...; Region: TPP_E1_PDC_ADC_BCADC; cd02000 1104321009150 tetramer interface [polypeptide binding]; other site 1104321009151 TPP-binding site [chemical binding]; other site 1104321009152 heterodimer interface [polypeptide binding]; other site 1104321009153 phosphorylation loop region [posttranslational modification] 1104321009154 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, beta subunit [Energy production and conversion]; Region: AcoB; COG0022 1104321009155 Pyrimidine (PYR) binding domain of the beta subunits of the E1 components of human pyruvate dehydrogenase complex (E1- PDHc) and related proteins; Region: TPP_PYR_E1-PDHc-beta_like; cd07036 1104321009156 alpha subunit interface [polypeptide binding]; other site 1104321009157 TPP binding site [chemical binding]; other site 1104321009158 heterodimer interface [polypeptide binding]; other site 1104321009159 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 1104321009160 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 1104321009161 The substrate-binding component of an uncharacterized ABC-type nickel/dipeptide/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like_7; cd08512 1104321009162 acetoin dehydrogenase E2 subunit dihydrolipoyllysine-residue acetyltransferase; Provisional; Region: PRK14875 1104321009163 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 1104321009164 E3 interaction surface; other site 1104321009165 lipoyl attachment site [posttranslational modification]; other site 1104321009166 e3 binding domain; Region: E3_binding; pfam02817 1104321009167 Serine hydrolase; Region: Ser_hydrolase; cl17834 1104321009168 Transcriptional regulator [Transcription]; Region: IclR; COG1414 1104321009169 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 1104321009170 Bacterial transcriptional regulator; Region: IclR; pfam01614 1104321009171 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 1104321009172 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 1104321009173 dimer interface [polypeptide binding]; other site 1104321009174 conserved gate region; other site 1104321009175 putative PBP binding loops; other site 1104321009176 ABC-ATPase subunit interface; other site 1104321009177 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 1104321009178 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 1104321009179 dimer interface [polypeptide binding]; other site 1104321009180 conserved gate region; other site 1104321009181 putative PBP binding loops; other site 1104321009182 ABC-ATPase subunit interface; other site 1104321009183 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 1104321009184 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1104321009185 Walker A/P-loop; other site 1104321009186 ATP binding site [chemical binding]; other site 1104321009187 Q-loop/lid; other site 1104321009188 ABC transporter signature motif; other site 1104321009189 Walker B; other site 1104321009190 D-loop; other site 1104321009191 H-loop/switch region; other site 1104321009192 oligopeptide/dipeptide ABC transporter, ATP-binding protein, C-terminal domain; Region: oligo_HPY; TIGR01727 1104321009193 dipeptide transporter ATP-binding subunit; Provisional; Region: dppF; PRK11308 1104321009194 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1104321009195 Walker A/P-loop; other site 1104321009196 ATP binding site [chemical binding]; other site 1104321009197 Q-loop/lid; other site 1104321009198 ABC transporter signature motif; other site 1104321009199 Walker B; other site 1104321009200 D-loop; other site 1104321009201 H-loop/switch region; other site 1104321009202 oligopeptide/dipeptide ABC transporter, ATP-binding protein, C-terminal domain; Region: oligo_HPY; TIGR01727 1104321009203 potential frameshift: common BLAST hit: gi|340792838|ref|YP_004758302.1| CaiB/BaiF family protein 1104321009204 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 1104321009205 CoA-transferase family III; Region: CoA_transf_3; pfam02515 1104321009206 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 1104321009207 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 1104321009208 Mitochondrial succinate-semialdehyde dehydrogenase and ALDH family members 5A1 and 5F1-like; Region: ALDH_F5_SSADH_GabD; cd07103 1104321009209 tetramerization interface [polypeptide binding]; other site 1104321009210 NAD(P) binding site [chemical binding]; other site 1104321009211 catalytic residues [active] 1104321009212 Transcriptional regulators [Transcription]; Region: GntR; COG1802 1104321009213 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1104321009214 DNA-binding site [nucleotide binding]; DNA binding site 1104321009215 FCD domain; Region: FCD; pfam07729 1104321009216 putative transposase OrfB; Reviewed; Region: PHA02517 1104321009217 HTH-like domain; Region: HTH_21; pfam13276 1104321009218 Integrase core domain; Region: rve; pfam00665 1104321009219 Integrase core domain; Region: rve_3; pfam13683 1104321009220 methionine sulfoxide reductase A; Provisional; Region: PRK00058 1104321009221 hypothetical protein; Provisional; Region: PRK00736 1104321009222 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1104321009223 active site 1104321009224 Methylase involved in ubiquinone/menaquinone biosynthesis [Coenzyme metabolism]; Region: UbiE; COG2226 1104321009225 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 1104321009226 S-adenosylmethionine binding site [chemical binding]; other site 1104321009227 2-polyprenylphenol 6-hydroxylase; Region: UbiB; TIGR01982 1104321009228 ABC1 family; Region: ABC1; pfam03109 1104321009229 Aminoglycoside 3'-phosphotransferase (APH) and Choline Kinase (ChoK) family. The APH/ChoK family is part of a larger superfamily that includes the catalytic domains of other kinases, such as the typical serine/threonine/tyrosine protein kinases (PKs)...; Region: APH_ChoK_like; cd05120 1104321009230 active site 1104321009231 ATP binding site [chemical binding]; other site 1104321009232 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 1104321009233 substrate binding site [chemical binding]; other site 1104321009234 activation loop (A-loop); other site 1104321009235 bifunctional phosphopantothenoylcysteine decarboxylase/phosphopantothenate synthase; Validated; Region: PRK05579 1104321009236 Flavoprotein; Region: Flavoprotein; pfam02441 1104321009237 DNA / pantothenate metabolism flavoprotein; Region: DFP; pfam04127 1104321009238 Peptide chain release factor RF-3 [Translation, ribosomal structure and biogenesis]; Region: PrfC; COG4108 1104321009239 Release Factor 3 (RF3) protein involved in the terminal step of translocation in bacteria; Region: RF3; cd04169 1104321009240 G1 box; other site 1104321009241 putative GEF interaction site [polypeptide binding]; other site 1104321009242 GTP/Mg2+ binding site [chemical binding]; other site 1104321009243 Switch I region; other site 1104321009244 G2 box; other site 1104321009245 G3 box; other site 1104321009246 Switch II region; other site 1104321009247 G4 box; other site 1104321009248 G5 box; other site 1104321009249 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 1104321009250 Uncharacterized conserved protein [Function unknown]; Region: HdeD; COG3247 1104321009251 Phosphatidylserine/phosphatidylglycerophosphate/car diolipin synthases and related enzymes [Lipid metabolism]; Region: Cls; COG1502 1104321009252 Putative catalytic domain, repeat 1, of uncharacterized proteins similar to bacterial cardiolipin synthase; Region: PLDc_CLS_unchar2_1; cd09157 1104321009253 putative active site [active] 1104321009254 catalytic site [active] 1104321009255 Putative catalytic domain, repeat 2, of uncharacterized proteins similar to bacterial cardiolipin synthase; Region: PLDc_CLS_unchar2_2; cd09163 1104321009256 putative active site [active] 1104321009257 catalytic site [active] 1104321009258 Metal-dependent hydrolase [General function prediction only]; Region: ElsH; COG3568 1104321009259 putative catalytic site [active] 1104321009260 putative metal binding site [ion binding]; other site 1104321009261 putative phosphate binding site [ion binding]; other site 1104321009262 aldehyde dehydrogenase family protein; Provisional; Region: PTZ00381 1104321009263 Coniferyl aldehyde dehydrogenase-like; Region: ALDH_CALDH_CalB; cd07133 1104321009264 NAD(P) binding site [chemical binding]; other site 1104321009265 catalytic residues [active] 1104321009266 Predicted membrane protein [Function unknown]; Region: COG3714 1104321009267 Subfamily of the nitroreductase family that includes BluB protein in Rhodobacter capsulatus is involved in the conversion of cobinamide to cobalamin in Cobalamin (vitamin B12) biosynthesis. Nitroreductases typically reduce their substrates by using NAD(P)...; Region: BluB; cd02145 1104321009268 putative FMN binding site [chemical binding]; other site 1104321009269 YtcJ_like metal dependent amidohydrolases. YtcJ is a Bacillus subtilis ORF of unknown function. The Arabidopsis homolog LAF3 has been identified as a factor required for photochrome A signalling; Region: YtcJ_like; cd01300 1104321009270 Predicted metal-dependent hydrolase with the TIM-barrel fold [General function prediction only]; Region: COG1574 1104321009271 active site 1104321009272 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 1104321009273 catalytic core [active] 1104321009274 Dihydrodipicolinate reductase [Amino acid transport and metabolism]; Region: DapB; COG0289 1104321009275 Dihydrodipicolinate reductase, N-terminus; Region: DapB_N; pfam01113 1104321009276 Dihydrodipicolinate reductase, C-terminus; Region: DapB_C; pfam05173 1104321009277 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 1104321009278 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 1104321009279 ATP-binding cassette domain of the bacterial lipid flippase and related proteins, subfamily C; Region: ABCC_MsbA; cd03251 1104321009280 Walker A/P-loop; other site 1104321009281 ATP binding site [chemical binding]; other site 1104321009282 Q-loop/lid; other site 1104321009283 ABC transporter signature motif; other site 1104321009284 Walker B; other site 1104321009285 D-loop; other site 1104321009286 H-loop/switch region; other site 1104321009287 Glucokinase [Carbohydrate transport and metabolism]; Region: Glk; COG0837 1104321009288 glucokinase, proteobacterial type; Region: glk; TIGR00749 1104321009289 Methylglyoxal synthase catalyzes the enolization of dihydroxyacetone phosphate (DHAP) to produce methylglyoxal. The first part of the catalytic mechanism is believed to be similar to TIM (triosephosphate isomerase) in that both enzymes utilize DHAP to...; Region: MGS; cd01422 1104321009290 active site 1104321009291 dimer interfaces [polypeptide binding]; other site 1104321009292 catalytic residues [active] 1104321009293 penicillin-insensitive murein endopeptidase; Reviewed; Region: mepA; PRK09429 1104321009294 Murein endopeptidase [Cell envelope biogenesis, outer membrane]; Region: MepA; COG3770 1104321009295 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 1104321009296 atypical (a) SDRs, subgroup 4; Region: SDR_a4; cd05266 1104321009297 putative NAD(P) binding site [chemical binding]; other site 1104321009298 epoxyqueuosine reductase; Region: TIGR00276 1104321009299 Domain of unknown function (DUF1730); Region: DUF1730; pfam08331 1104321009300 HEAT repeat; Region: HEAT; pfam02985 1104321009301 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 1104321009302 Glutathione S-transferase (GST) family, N-terminal domain; a large, diverse group of cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with a wide range of endogenous and xenobiotic...; Region: GST_N_family; cd00570 1104321009303 C-terminal domain interface [polypeptide binding]; other site 1104321009304 GSH binding site (G-site) [chemical binding]; other site 1104321009305 dimer interface [polypeptide binding]; other site 1104321009306 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cd00299 1104321009307 N-terminal domain interface [polypeptide binding]; other site 1104321009308 dimer interface [polypeptide binding]; other site 1104321009309 substrate binding pocket (H-site) [chemical binding]; other site 1104321009310 Undecaprenyl pyrophosphate phosphatase [Lipid transport and metabolism]; Region: BacA; COG1968 1104321009311 Predicted nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG0702 1104321009312 NADH dehydrogenase (ubiquinone) 1 alpha subcomplex, subunit 9, 39 kDa, (NDUFA9) -like, atypical (a) SDRs; Region: NDUFA9_like_SDR_a; cd05271 1104321009313 putative NAD(P) binding site [chemical binding]; other site 1104321009314 active site 1104321009315 GTP-binding protein LepA; Provisional; Region: PRK05433 1104321009316 LepA also known as Elongation Factor 4 (EF4); Region: LepA; cd01890 1104321009317 G1 box; other site 1104321009318 putative GEF interaction site [polypeptide binding]; other site 1104321009319 GTP/Mg2+ binding site [chemical binding]; other site 1104321009320 Switch I region; other site 1104321009321 G2 box; other site 1104321009322 G3 box; other site 1104321009323 Switch II region; other site 1104321009324 G4 box; other site 1104321009325 G5 box; other site 1104321009326 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 1104321009327 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 1104321009328 GTP-binding protein LepA C-terminus; Region: LepA_C; pfam06421 1104321009329 GIY-YIG nuclease domain superfamily; Region: GIY-YIG_SF; cl15257 1104321009330 catalytic site [active] 1104321009331 metal binding site [ion binding]; metal-binding site 1104321009332 Rdx family; Region: Rdx; cl01407 1104321009333 Predicted nuclease of restriction endonuclease-like fold, RmuC family [General function prediction only]; Region: COG1322 1104321009334 RmuC family; Region: RmuC; pfam02646 1104321009335 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 1104321009336 active site 1104321009337 catalytic residues [active] 1104321009338 metal binding site [ion binding]; metal-binding site 1104321009339 methionyl-tRNA formyltransferase; Reviewed; Region: fmt; PRK00005 1104321009340 Methionyl-tRNA formyltransferase, N-terminal hydrolase domain; Region: FMT_core_Met-tRNA-FMT_N; cd08646 1104321009341 putative active site [active] 1104321009342 substrate binding site [chemical binding]; other site 1104321009343 putative cosubstrate binding site; other site 1104321009344 catalytic site [active] 1104321009345 C-terminal domain of Formyltransferase and other enzymes; Region: Met_tRNA_FMT_C; cd08704 1104321009346 substrate binding site [chemical binding]; other site 1104321009347 tRNA pseudouridine synthase A; Validated; Region: truA; PRK00021 1104321009348 Eukaryotic and bacterial pseudouridine synthases similar to E. coli TruA; Region: PseudoU_synth_EcTruA; cd02570 1104321009349 dimerization interface 3.5A [polypeptide binding]; other site 1104321009350 active site 1104321009351 succinyl-diaminopimelate desuccinylase; Reviewed; Region: PRK13009 1104321009352 M20 Peptidase proteobacterial DapE encoded N-succinyl-L,L-diaminopimelic acid desuccinylase; Region: M20_DapE_proteobac; cd03891 1104321009353 metal binding site [ion binding]; metal-binding site 1104321009354 dimer interface [polypeptide binding]; other site 1104321009355 Predicted transglutaminase-like cysteine proteinase [General function prediction only]; Region: COG3672 1104321009356 2,3,4,5-tetrahydropyridine-2,6-carboxylate N-succinyltransferase; Provisional; Region: dapD; PRK11830 1104321009357 2,3,4,5-tetrahydropyridine-2,6-dicarboxylate (THDP) N-succinyltransferase (also called THP succinyltransferase): THDP N-succinyltransferase catalyzes the conversion of tetrahydrodipicolinate and succinyl-CoA to N-succinyltetrahydrodipicolinate and CoA; Region: LbH_THP_succinylT; cd03350 1104321009358 trimer interface [polypeptide binding]; other site 1104321009359 active site 1104321009360 substrate binding site [chemical binding]; other site 1104321009361 CoA binding site [chemical binding]; other site 1104321009362 Predicted Rossmann fold nucleotide-binding protein [General function prediction only]; Region: COG1611 1104321009363 pyrimidine 5'-nucleotidase; Region: Pyr-5-nucltdase; TIGR01993 1104321009364 ?-D-glucose-1-phosphatase; Provisional; Region: PRK09456 1104321009365 AAK_NAGK-C: N-Acetyl-L-glutamate kinase - cyclic (NAGK-C) catalyzes the phosphorylation of the gamma-COOH group of N-acetyl-L-glutamate (NAG) by ATP in the second step of arginine biosynthesis found in some bacteria and photosynthetic organisms using the...; Region: AAK_NAGK-C; cd04250 1104321009366 homohexameric interface [polypeptide binding]; other site 1104321009367 feedback inhibition sensing region; other site 1104321009368 nucleotide binding site [chemical binding]; other site 1104321009369 N-acetyl-L-glutamate binding site [chemical binding]; other site 1104321009370 YihA (EngB) GTPase family; Region: YihA_EngB; cd01876 1104321009371 G1 box; other site 1104321009372 GTP/Mg2+ binding site [chemical binding]; other site 1104321009373 Switch I region; other site 1104321009374 G2 box; other site 1104321009375 G3 box; other site 1104321009376 Switch II region; other site 1104321009377 G4 box; other site 1104321009378 G5 box; other site 1104321009379 membrane protein insertase; Provisional; Region: PRK01318 1104321009380 membrane protein insertase, YidC/Oxa1 family, C-terminal domain; Region: yidC_oxa1_cterm; TIGR03592 1104321009381 ribonuclease P; Reviewed; Region: rnpA; PRK01313 1104321009382 50S ribosomal protein L34; Reviewed; Region: rpmH; PRK00399 1104321009383 This group of proteins belong to a large family of YjgF/YER057c/UK114-like proteins present in bacteria, archaea, and eukaryotes with no definitive function. The conserved domain is similar in structure to chorismate mutase but there is no sequence...; Region: YjgF_YER057c_UK114_like_2; cd06150 1104321009384 homotrimer interaction site [polypeptide binding]; other site 1104321009385 putative active site [active] 1104321009386 Domain of unknown function (DUF4105); Region: DUF4105; pfam13387 1104321009387 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 1104321009388 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1104321009389 putative substrate translocation pore; other site 1104321009390 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 1104321009391 Transcriptional regulators [Transcription]; Region: GntR; COG1802 1104321009392 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1104321009393 DNA-binding site [nucleotide binding]; DNA binding site 1104321009394 FCD domain; Region: FCD; pfam07729 1104321009395 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 1104321009396 Uncharacterized Saccharopolyspora spinosa aldehyde dehydrogenase (AAS00426)-like; Region: ALDH_AAS00426; cd07109 1104321009397 NAD(P) binding site [chemical binding]; other site 1104321009398 catalytic residues [active] 1104321009399 catalytic residues [active] 1104321009400 putative beta-ketoacyl acyl carrier protein [ACP] reductase (BKR), subgroup 3, classical (c) SDR; Region: BKR_3_SDR_c; cd05345 1104321009401 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK07231 1104321009402 putative NAD(P) binding site [chemical binding]; other site 1104321009403 active site 1104321009404 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 1104321009405 The substrate-binding component of an uncharacterized ABC-type nickel/dipeptide/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like_6; cd08494 1104321009406 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 1104321009407 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 1104321009408 dimer interface [polypeptide binding]; other site 1104321009409 conserved gate region; other site 1104321009410 putative PBP binding loops; other site 1104321009411 ABC-ATPase subunit interface; other site 1104321009412 nickel ABC transporter, permease subunit NikC; Region: nickel_nikC; TIGR02790 1104321009413 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 1104321009414 dimer interface [polypeptide binding]; other site 1104321009415 conserved gate region; other site 1104321009416 putative PBP binding loops; other site 1104321009417 ABC-ATPase subunit interface; other site 1104321009418 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 1104321009419 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1104321009420 Walker A/P-loop; other site 1104321009421 ATP binding site [chemical binding]; other site 1104321009422 Q-loop/lid; other site 1104321009423 ABC transporter signature motif; other site 1104321009424 Walker B; other site 1104321009425 D-loop; other site 1104321009426 H-loop/switch region; other site 1104321009427 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 1104321009428 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppF; COG1124 1104321009429 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1104321009430 Walker A/P-loop; other site 1104321009431 ATP binding site [chemical binding]; other site 1104321009432 Q-loop/lid; other site 1104321009433 ABC transporter signature motif; other site 1104321009434 Walker B; other site 1104321009435 D-loop; other site 1104321009436 H-loop/switch region; other site 1104321009437 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; pfam08352 1104321009438 amidase; Provisional; Region: PRK07042 1104321009439 Amidase; Region: Amidase; cl11426 1104321009440 DnaQ-like (or DEDD) 3'-5' exonuclease domain superfamily; Region: DnaQ_like_exo; cl10012 1104321009441 DNA polymerase III subunit epsilon; Validated; Region: PRK09182 1104321009442 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 1104321009443 active site 1104321009444 catalytic site [active] 1104321009445 substrate binding site [chemical binding]; other site 1104321009446 Predicted dehydrogenase [General function prediction only]; Region: COG0579 1104321009447 hydroxyglutarate oxidase; Provisional; Region: PRK11728 1104321009448 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1104321009449 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1104321009450 metal binding site [ion binding]; metal-binding site 1104321009451 active site 1104321009452 I-site; other site 1104321009453 Protein of unknown function (DUF2778); Region: DUF2778; pfam10908 1104321009454 glutathionine S-transferase; Provisional; Region: PRK10542 1104321009455 GST_N family, Class Beta subfamily; GSTs are cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with a wide range of endogenous and xenobiotic alkylating agents, including carcinogens; Region: GST_N_Beta; cd03057 1104321009456 C-terminal domain interface [polypeptide binding]; other site 1104321009457 GSH binding site (G-site) [chemical binding]; other site 1104321009458 dimer interface [polypeptide binding]; other site 1104321009459 C-terminal, alpha helical domain of Class Beta Glutathione S-transferases; Region: GST_C_Beta; cd03188 1104321009460 dimer interface [polypeptide binding]; other site 1104321009461 N-terminal domain interface [polypeptide binding]; other site 1104321009462 substrate binding pocket (H-site) [chemical binding]; other site 1104321009463 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases; Region: Glo_EDI_BRP_like_2; cd07253 1104321009464 dimer interface [polypeptide binding]; other site 1104321009465 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 1104321009466 metal binding site [ion binding]; metal-binding site 1104321009467 potential frameshift: common BLAST hit: gi|256015759|ref|YP_003105768.1| nosA protein 1104321009468 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 1104321009469 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 1104321009470 Transcriptional regulator [Transcription]; Region: IclR; COG1414 1104321009471 IclR helix-turn-helix domain; Region: HTH_IclR; cl17605 1104321009472 Bacterial transcriptional regulator; Region: IclR; pfam01614 1104321009473 Periplasmic sugar-binding component of uncharacterized ABC-type transport systems that are members of the pentose/hexose sugar-binding protein family of the type I periplasmic binding protein superfamily; Region: PBP1_ABC_sugar_binding_like_1; cd06300 1104321009474 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 1104321009475 putative ligand binding site [chemical binding]; other site 1104321009476 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 1104321009477 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 1104321009478 Walker A/P-loop; other site 1104321009479 ATP binding site [chemical binding]; other site 1104321009480 Q-loop/lid; other site 1104321009481 ABC transporter signature motif; other site 1104321009482 Walker B; other site 1104321009483 D-loop; other site 1104321009484 H-loop/switch region; other site 1104321009485 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 1104321009486 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 1104321009487 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1104321009488 TM-ABC transporter signature motif; other site 1104321009489 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1104321009490 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 1104321009491 TM-ABC transporter signature motif; other site 1104321009492 This group of proteins belong to a large family of YjgF/YER057c/UK114-like proteins present in bacteria, archaea, and eukaryotes with no definitive function. The conserved domain is similar in structure to chorismate mutase but there is no sequence...; Region: YjgF_YER057c_UK114_like_2; cd06150 1104321009493 homotrimer interaction site [polypeptide binding]; other site 1104321009494 putative active site [active] 1104321009495 putative sulfite oxidase subunit YedZ; Reviewed; Region: PRK05419 1104321009496 TMAO/DMSO reductase; Reviewed; Region: PRK05363 1104321009497 YedY_like molybdopterin cofactor (Moco) binding domain, a subgroup of the sulfite oxidase (SO) family of molybdopterin binding domains. Escherichia coli YedY has been propsed to form a heterodimer, consisting of a soluble catalytic subunit termed YedY; Region: YedY_like_Moco; cd02107 1104321009498 Moco binding site; other site 1104321009499 metal coordination site [ion binding]; other site 1104321009500 Predicted esterase [General function prediction only]; Region: COG0400 1104321009501 putative hydrolase; Provisional; Region: PRK11460 1104321009502 FOG: WD40 repeat [General function prediction only]; Region: COG2319 1104321009503 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 1104321009504 structural tetrad; other site 1104321009505 Putative GTPases (G3E family) [General function prediction only]; Region: COG0523 1104321009506 The function of this protein family is unkown. The amino acid sequence of YjiA protein in E. coli contains several conserved motifs that characterizes it as a P-loop GTPase. YijA gene is among the genes significantly induced in response to DNA-damage...; Region: CobW_like; cd03112 1104321009507 P-loop, Walker A motif; other site 1104321009508 Base recognition motif; other site 1104321009509 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; pfam07683 1104321009510 Uncharacterized protein, putative amidase [General function prediction only]; Region: COG1402 1104321009511 MarR family; Region: MarR_2; cl17246 1104321009512 transcriptional regulator SlyA; Provisional; Region: PRK03573 1104321009513 Transcriptional regulators [Transcription]; Region: PurR; COG1609 1104321009514 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 1104321009515 DNA binding site [nucleotide binding] 1104321009516 domain linker motif; other site 1104321009517 Ligand-binding domain of MalI, a transcription regulator of the maltose system of Escherichia coli and its close homologs from other bacteria; Region: PBP1_MalI_like; cd06289 1104321009518 putative dimerization interface [polypeptide binding]; other site 1104321009519 putative ligand binding site [chemical binding]; other site 1104321009520 Hydroxy(phenyl)pyruvate Reductase, D-isomer-specific 2-hydroxyacid-related dehydrogenase; Region: HPPR; cd12156 1104321009521 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 1104321009522 putative ligand binding site [chemical binding]; other site 1104321009523 NAD binding site [chemical binding]; other site 1104321009524 catalytic site [active] 1104321009525 Predicted glutamine amidotransferases [General function prediction only]; Region: COG2071 1104321009526 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_2; cd01745 1104321009527 catalytic triad [active] 1104321009528 gluconate 5-dehydrogenase; Provisional; Region: PRK08213 1104321009529 classical (c) SDRs; Region: SDR_c; cd05233 1104321009530 NAD(P) binding site [chemical binding]; other site 1104321009531 active site 1104321009532 PAS fold; Region: PAS_7; pfam12860 1104321009533 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1104321009534 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1104321009535 metal binding site [ion binding]; metal-binding site 1104321009536 active site 1104321009537 I-site; other site 1104321009538 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 1104321009539 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 1104321009540 Beta-lactamase; Region: Beta-lactamase; pfam00144 1104321009541 Acetyltransferase (GNAT) domain; Region: Acetyltransf_5; pfam13444 1104321009542 Bacterial aa3 type cytochrome c oxidase subunit IV; Region: COX4_pro_2; pfam07835 1104321009543 NAD/NADP transhydrogenase alpha subunit [Energy production and conversion]; Region: PntA; COG3288 1104321009544 Rubrum transdehydrogenase NAD-binding and catalytic domains; Region: Rubrum_tdh; cd05304 1104321009545 ligand binding site [chemical binding]; other site 1104321009546 homodimer interface [polypeptide binding]; other site 1104321009547 NAD(P) binding site [chemical binding]; other site 1104321009548 trimer interface B [polypeptide binding]; other site 1104321009549 trimer interface A [polypeptide binding]; other site 1104321009550 Domain of unknown function (DUF3814); Region: DUF3814; pfam12769 1104321009551 NAD/NADP transhydrogenase beta subunit [Energy production and conversion]; Region: PntB; COG1282 1104321009552 NAD(P) transhydrogenase beta subunit; Region: PNTB; pfam02233 1104321009553 Predicted homoserine dehydrogenase [Amino acid transport and metabolism]; Region: COG4091 1104321009554 Homoserine dehydrogenase, NAD binding domain; Region: NAD_binding_3; pfam03447 1104321009555 SAF domain of putative dehydrogenases or oxidoreductases; Region: SAF_DH_OX_like; cd11616 1104321009556 Predicted phosphatase/phosphohexomutase [General function prediction only]; Region: COG0637 1104321009557 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 1104321009558 motif II; other site 1104321009559 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 1104321009560 putative active site [active] 1104321009561 putative catalytic site [active] 1104321009562 Alpha/beta hydrolase of unknown function (DUF900); Region: DUF900; pfam05990 1104321009563 30S ribosomal protein S21; Reviewed; Region: rpsU; PRK00270 1104321009564 type IV pilus biogenesis/stability protein PilW; Region: type_IV_pilW; TIGR02521 1104321009565 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 1104321009566 TPR motif; other site 1104321009567 binding surface 1104321009568 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 1104321009569 binding surface 1104321009570 TPR motif; other site 1104321009571 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 1104321009572 binding surface 1104321009573 TPR motif; other site 1104321009574 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases; Region: Glo_EDI_BRP_like_19; cd07262 1104321009575 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 1104321009576 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 1104321009577 dimer interface [polypeptide binding]; other site 1104321009578 conserved gate region; other site 1104321009579 ABC-ATPase subunit interface; other site 1104321009580 ABC-type metal ion transport system, ATPase component [Inorganic ion transport and metabolism]; Region: AbcC; COG1135 1104321009581 ATP-binding cassette domain of methionine transporter; Region: ABC_MetN_methionine_transporter; cd03258 1104321009582 Walker A/P-loop; other site 1104321009583 ATP binding site [chemical binding]; other site 1104321009584 Q-loop/lid; other site 1104321009585 ABC transporter signature motif; other site 1104321009586 Walker B; other site 1104321009587 D-loop; other site 1104321009588 H-loop/switch region; other site 1104321009589 This domain is found at the C-terminus of ABC transporter proteins involved in D-methionine transport as well as a number of ferredoxin-like proteins; Region: NIL; smart00930 1104321009590 ABC-type metal ion transport system, periplasmic component/surface antigen [Inorganic ion transport and metabolism]; Region: NlpA; COG1464 1104321009591 NLPA lipoprotein; Region: Lipoprotein_9; pfam03180 1104321009592 choline dehydrogenase; Validated; Region: PRK02106 1104321009593 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 1104321009594 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 1104321009595 Transmembrane subunit (TM) of Escherichia coli LivM and related proteins. LivM is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivM_like; cd06581 1104321009596 TM-ABC transporter signature motif; other site 1104321009597 Transmembrane subunit (TM) of Escherichia coli LivH and related proteins. LivH is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivH_like; cd06582 1104321009598 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1104321009599 TM-ABC transporter signature motif; other site 1104321009600 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 1104321009601 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 1104321009602 Walker A/P-loop; other site 1104321009603 ATP binding site [chemical binding]; other site 1104321009604 Q-loop/lid; other site 1104321009605 ABC transporter signature motif; other site 1104321009606 Walker B; other site 1104321009607 D-loop; other site 1104321009608 H-loop/switch region; other site 1104321009609 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 1104321009610 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 1104321009611 Walker A/P-loop; other site 1104321009612 ATP binding site [chemical binding]; other site 1104321009613 Q-loop/lid; other site 1104321009614 ABC transporter signature motif; other site 1104321009615 Walker B; other site 1104321009616 D-loop; other site 1104321009617 H-loop/switch region; other site 1104321009618 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 1104321009619 Periplasmic solute-binding domain of active transport proteins that belong to the type I periplasmic binding fold protein family; Region: PBP1_SBP_like_1; cd06327 1104321009620 putative ligand binding site [chemical binding]; other site 1104321009621 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1104321009622 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1104321009623 LysR substrate binding domain; Region: LysR_substrate; pfam03466 1104321009624 dimerization interface [polypeptide binding]; other site 1104321009625 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 1104321009626 Winged helix-turn-helix DNA-binding; Region: HTH_24; pfam13412 1104321009627 AsnC family; Region: AsnC_trans_reg; pfam01037 1104321009628 hypothetical protein; Provisional; Region: PRK06148 1104321009629 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 1104321009630 active site 1104321009631 substrate binding site [chemical binding]; other site 1104321009632 ATP binding site [chemical binding]; other site 1104321009633 Peptidase family M23; Region: Peptidase_M23; pfam01551 1104321009634 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 1104321009635 inhibitor-cofactor binding pocket; inhibition site 1104321009636 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1104321009637 catalytic residue [active] 1104321009638 lysine-arginine-ornithine-binding periplasmic protein; Region: 3A0103s03R; TIGR01096 1104321009639 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 1104321009640 substrate binding pocket [chemical binding]; other site 1104321009641 membrane-bound complex binding site; other site 1104321009642 hinge residues; other site 1104321009643 D-aminopeptidase; Reviewed; Region: PRK13128 1104321009644 Beta-lactamase; Region: Beta-lactamase; pfam00144 1104321009645 D-aminopeptidase, domain B; Region: DAP_B; pfam07930 1104321009646 D-aminopeptidase, domain C; Region: DAP_C; pfam07932 1104321009647 thiamine pyrophosphate protein; Validated; Region: PRK08199 1104321009648 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 1104321009649 PYR/PP interface [polypeptide binding]; other site 1104321009650 dimer interface [polypeptide binding]; other site 1104321009651 TPP binding site [chemical binding]; other site 1104321009652 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 1104321009653 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 1104321009654 TPP-binding site [chemical binding]; other site 1104321009655 Transcriptional regulators [Transcription]; Region: FadR; COG2186 1104321009656 FCD domain; Region: FCD; pfam07729 1104321009657 Uncharacterized protein conserved in bacteria [Function unknown]; Region: GguC; COG3802 1104321009658 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 1104321009659 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 1104321009660 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 1104321009661 dihydroxy-acid dehydratase; Provisional; Region: PRK13017 1104321009662 2-keto-3-deoxy-galactonokinase [Carbohydrate transport and metabolism]; Region: DgoK; COG3734 1104321009663 2-keto-3-deoxy-galactonokinase; Region: DGOK; pfam05035 1104321009664 2-dehydro-3-deoxy-6-phosphogalactonate aldolase; Reviewed; Region: PRK09140 1104321009665 KDPG and KHG aldolase; Region: KDPG_aldolase; cd00452 1104321009666 active site 1104321009667 intersubunit interface [polypeptide binding]; other site 1104321009668 catalytic residue [active] 1104321009669 ABC-type xylose transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: XylF; COG4213 1104321009670 Periplasmic xylose-binding component of the ABC-type transport systems that belong to a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein (PBP1) superfamily; Region: PBP1_ABC_xylose_binding; cd01538 1104321009671 putative ligand binding site [chemical binding]; other site 1104321009672 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 1104321009673 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 1104321009674 Walker A/P-loop; other site 1104321009675 ATP binding site [chemical binding]; other site 1104321009676 Q-loop/lid; other site 1104321009677 ABC transporter signature motif; other site 1104321009678 Walker B; other site 1104321009679 D-loop; other site 1104321009680 H-loop/switch region; other site 1104321009681 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 1104321009682 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 1104321009683 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 1104321009684 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1104321009685 TM-ABC transporter signature motif; other site 1104321009686 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 1104321009687 D-Alanine aminotransferase (D-AAT_like): D-amino acid aminotransferase catalyzes transamination between D-amino acids and their respective alpha-keto acids. It plays a major role in the synthesis of bacterial cell wall components like D-alanine and...; Region: D-AAT_like; cd01558 1104321009688 homodimer interface [polypeptide binding]; other site 1104321009689 substrate-cofactor binding pocket; other site 1104321009690 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1104321009691 catalytic residue [active] 1104321009692 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3758 1104321009693 urocanate hydratase; Provisional; Region: PRK05414 1104321009694 N-formylglutamate amidohydrolase; Region: hutG_amidohyd; TIGR02017 1104321009695 Phenylalanine ammonia-lyase (PAL) and histidine ammonia-lyase (HAL); Region: PAL-HAL; cd00332 1104321009696 active sites [active] 1104321009697 tetramer interface [polypeptide binding]; other site 1104321009698 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 1104321009699 imidazolonepropionase; Validated; Region: PRK09356 1104321009700 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 1104321009701 active site 1104321009702 N-formimino-L-glutamate deiminase; Validated; Region: PRK09229 1104321009703 Metallo-dependent hydrolases, subgroup D is part of the superfamily of metallo-dependent hydrolases, a large group of proteins that show conservation in their 3-dimensional fold (TIM barrel) and in details of their active site. The vast majority of the...; Region: Met_dep_hydrolase_E; cd01313 1104321009704 active site 1104321009705 histidine utilization repressor, proteobacterial; Region: his_ut_repres; TIGR02018 1104321009706 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1104321009707 DNA-binding site [nucleotide binding]; DNA binding site 1104321009708 UTRA domain; Region: UTRA; pfam07702 1104321009709 beta alanine--pyruvate transaminase; Provisional; Region: PRK09221 1104321009710 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 1104321009711 inhibitor-cofactor binding pocket; inhibition site 1104321009712 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1104321009713 catalytic residue [active] 1104321009714 DNA-binding transcriptional repressor PuuR; Provisional; Region: PRK09943 1104321009715 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 1104321009716 non-specific DNA binding site [nucleotide binding]; other site 1104321009717 salt bridge; other site 1104321009718 sequence-specific DNA binding site [nucleotide binding]; other site 1104321009719 Cupin domain; Region: Cupin_2; pfam07883 1104321009720 D-amino acid dehydrogenase small subunit; Validated; Region: PRK00711 1104321009721 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1104321009722 hydroxyglutarate oxidase; Provisional; Region: PRK11728 1104321009723 Alanine racemase [Cell envelope biogenesis, outer membrane]; Region: Alr; COG0787 1104321009724 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Alanine Racemase; Region: PLPDE_III_AR; cd00430 1104321009725 active site 1104321009726 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 1104321009727 dimer interface [polypeptide binding]; other site 1104321009728 substrate binding site [chemical binding]; other site 1104321009729 catalytic residues [active] 1104321009730 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 1104321009731 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cd00090 1104321009732 putative DNA binding site [nucleotide binding]; other site 1104321009733 putative Zn2+ binding site [ion binding]; other site 1104321009734 AsnC family; Region: AsnC_trans_reg; pfam01037 1104321009735 Opacity protein and related surface antigens [Cell envelope biogenesis, outer membrane]; Region: COG3637 1104321009736 Isopentenyl diphosphate isomerase (BS_ypgA, MTH48 and related proteins) [Coenzyme transport and metabolism]; Region: idi; COG1304 1104321009737 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 1104321009738 phosphate binding site [ion binding]; other site 1104321009739 oxidoreductase alpha (molybdopterin) subunit; Region: Fdhalpha-like; TIGR01701 1104321009740 The MopB_ydeP CD includes a group of related uncharacterized bacterial molybdopterin-binding oxidoreductase-like domains with a putative molybdopterin cofactor binding site. These members belong to the molybdopterin_binding (MopB) superfamily of proteins; Region: MopB_ydeP; cd02767 1104321009741 putative molybdopterin cofactor binding site [chemical binding]; other site 1104321009742 The MopB_CT_ydeP CD includes a group of related uncharacterized bacterial molybdopterin-binding oxidoreductase-like domains with a putative molybdopterin cofactor binding site. This CD is of the conserved molybdopterin_binding C-terminal (MopB_CT) region...; Region: MopB_CT_ydeP; cd02787 1104321009743 putative molybdopterin cofactor binding site; other site 1104321009744 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 1104321009745 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1104321009746 HlyD family secretion protein; Region: HlyD_3; pfam13437 1104321009747 putative membrane fusion protein; Region: TIGR02828 1104321009748 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 1104321009749 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1104321009750 HlyD family secretion protein; Region: HlyD_3; pfam13437 1104321009751 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 1104321009752 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 1104321009753 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1104321009754 DNA-binding site [nucleotide binding]; DNA binding site 1104321009755 UTRA domain; Region: UTRA; pfam07702 1104321009756 Predicted phosphosugar isomerases [Cell envelope biogenesis, outer membrane]; Region: AgaS; COG2222 1104321009757 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 1104321009758 dimer interface [polypeptide binding]; other site 1104321009759 active site 1104321009760 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 1104321009761 dimer interface [polypeptide binding]; other site 1104321009762 active site 1104321009763 N-acetylglucosamine-6-phosphate deacetylase [Carbohydrate transport and metabolism]; Region: NagA; COG1820 1104321009764 N-acetylglucosamine-6-phosphate deacetylase, NagA, catalyzes the hydrolysis of the N-acetyl group of N-acetyl-glucosamine-6-phosphate (GlcNAc-6-P) to glucosamine 6-phosphate and acetate. This is the first committed step in the biosynthetic pathway to...; Region: NagA; cd00854 1104321009765 active site 1104321009766 dimer interface [polypeptide binding]; other site 1104321009767 hypothetical protein; Provisional; Region: PRK02947 1104321009768 RpiR-like protein. RpiR contains a SIS (Sugar ISomerase) domain, which is found in many phosphosugar isomerases and phosphosugar binding proteins. In E. coli, rpiR negatively regulates the expression of rpiB gene. Both rpiB and rpiA are ribose phosphate...; Region: SIS_RpiR; cd05013 1104321009769 putative active site [active] 1104321009770 formyltetrahydrofolate deformylase; Reviewed; Region: PRK13011 1104321009771 N-terminal ACT domain of formyltetrahydrofolate deformylase (F4HF-DF; formyltetrahydrofolate hydrolase); Region: ACT_F4HF-DF; cd04875 1104321009772 Formyltetrahydrofolate deformylase (Formyl-FH4 hydrolase), C-terminal hydrolase domain; Region: FMT_core_Formyl-FH4-Hydrolase_C; cd08648 1104321009773 putative active site [active] 1104321009774 putative substrate binding site [chemical binding]; other site 1104321009775 putative cosubstrate binding site; other site 1104321009776 catalytic site [active] 1104321009777 aldehyde dehydrogenase family 7 member; Region: PLN02315 1104321009778 NAD+-dependent alpha-aminoadipic semialdehyde dehydrogenase, ALDH family members 7A1 and 7B; Region: ALDH_F7_AASADH; cd07130 1104321009779 tetrameric interface [polypeptide binding]; other site 1104321009780 NAD binding site [chemical binding]; other site 1104321009781 catalytic residues [active] 1104321009782 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5383 1104321009783 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5383 1104321009784 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 1104321009785 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cd00090 1104321009786 putative Zn2+ binding site [ion binding]; other site 1104321009787 putative DNA binding site [nucleotide binding]; other site 1104321009788 dimerization interface [polypeptide binding]; other site 1104321009789 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 1104321009790 dimerization interface [polypeptide binding]; other site 1104321009791 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 1104321009792 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 1104321009793 Transcriptional accessory protein [Transcription]; Region: Tex; COG2183 1104321009794 Tex-like protein N-terminal domain; Region: Tex_N; pfam09371 1104321009795 Likely ribonuclease with RNase H fold; Region: YqgFc; smart00732 1104321009796 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 1104321009797 RNA binding site [nucleotide binding]; other site 1104321009798 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cd00090 1104321009799 dimerization interface [polypeptide binding]; other site 1104321009800 putative DNA binding site [nucleotide binding]; other site 1104321009801 putative Zn2+ binding site [ion binding]; other site 1104321009802 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 1104321009803 Old yellow enzyme (OYE)-like FMN binding domain. OYE was the first flavin-dependent enzyme identified, however its true physiological role remains elusive to this day. Each monomer of OYE contains FMN as a non-covalently bound cofactor, uses NADPH as a...; Region: OYE_like_FMN; cd02933 1104321009804 FMN binding site [chemical binding]; other site 1104321009805 active site 1104321009806 substrate binding site [chemical binding]; other site 1104321009807 catalytic residue [active] 1104321009808 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 1104321009809 AsnC-type helix-turn-helix domain; Region: HTH_AsnC-type; pfam13404 1104321009810 AsnC family; Region: AsnC_trans_reg; pfam01037 1104321009811 Arginase family; Region: Arginase; cd09989 1104321009812 agmatinase; Region: agmatinase; TIGR01230 1104321009813 active site 1104321009814 Mn binding site [ion binding]; other site 1104321009815 oligomer interface [polypeptide binding]; other site 1104321009816 ornithine cyclodeaminase; Validated; Region: PRK07589 1104321009817 ornithine cyclodeaminase; Validated; Region: PRK06823; cl17400 1104321009818 Truncated hemoglobins (trHbs) are a family of oxygen-binding heme proteins found in cyanobacteria, eubacteria, unicellular eukaryotes, and plants. The truncated hemoglobins have a characteristic two-over-two alpha helical folding pattern that is distinct...; Region: Trunc_globin; cd00454 1104321009819 apolar tunnel; other site 1104321009820 heme binding site [chemical binding]; other site 1104321009821 dimerization interface [polypeptide binding]; other site 1104321009822 This CD includes bacterial (Agrobacterium tumefaciens and Caulobacter crescentus ProX, and Clostridium sticklandii PrdX) and eukaryotic (Plasmodium falciparum N-terminal ProRS editing domain) sequences. The C. sticklandii PrdX protein, a homolog of the...; Region: PrdX_deacylase; cd04335 1104321009823 putative deacylase active site [active] 1104321009824 Thioredoxin domain-containing protein [Posttranslational modification, protein turnover, chaperones]; Region: COG3118 1104321009825 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 1104321009826 catalytic residues [active] 1104321009827 Uncharacterized protein, similar to the N-terminal domain of Lon protease [General function prediction only]; Region: COG2802 1104321009828 Uncharacterized conserved protein [Function unknown]; Region: COG2835 1104321009829 tartrate dehydrogenase; Region: TTC; TIGR02089 1104321009830 3-isopropylmalate dehydrogenase; Provisional; Region: PRK00772 1104321009831 Adenosine deaminase [Nucleotide transport and metabolism]; Region: Ada; COG2169 1104321009832 Metal binding domain of Ada; Region: Ada_Zn_binding; pfam02805 1104321009833 Methylated DNA-protein cysteine methyltransferase [DNA replication, recombination, and repair]; Region: Ada; COG0350 1104321009834 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 1104321009835 DNA binding site [nucleotide binding] 1104321009836 active site 1104321009837 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 1104321009838 putative substrate translocation pore; other site 1104321009839 aspartate-semialdehyde dehydrogenase; Provisional; Region: PRK14874 1104321009840 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 1104321009841 Transcriptional regulators [Transcription]; Region: MarR; COG1846 1104321009842 MarR family; Region: MarR; pfam01047 1104321009843 peroxiredoxin, Ohr subfamily; Region: organ_hyd_perox; TIGR03561 1104321009844 Minimal MMP-like domain found in Acidothermus cellulolyticus hypothetical protein ACEL2062 and similar protein; Region: MMP_ACEL2062; cd12952 1104321009845 isopropylmalate isomerase small subunit; Provisional; Region: leuD; PRK01641 1104321009846 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 1104321009847 substrate binding site [chemical binding]; other site 1104321009848 potential frameshift: common BLAST hit: gi|225686643|ref|YP_002734615.1| citrate lyase subunit beta 1104321009849 HpcH/HpaI aldolase/citrate lyase family; Region: HpcH_HpaI; cl17231 1104321009850 Citrate lyase beta subunit [Carbohydrate transport and metabolism]; Region: CitE; COG2301 1104321009851 Uncharacterized conserved small protein [Function unknown]; Region: COG5515 1104321009852 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_5; cd07238 1104321009853 dimer interface [polypeptide binding]; other site 1104321009854 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 1104321009855 Zn-dependent oligopeptidases [Amino acid transport and metabolism]; Region: Dcp; COG0339 1104321009856 Peptidase family M3 dipeptidyl carboxypeptidase (DCP); Region: M3A_DCP; cd06456 1104321009857 active site 1104321009858 Zn binding site [ion binding]; other site 1104321009859 Mg/Co/Ni transporter MgtE (contains CBS domain) [Inorganic ion transport and metabolism]; Region: MgtE; COG2239 1104321009860 MgtE intracellular N domain; Region: MgtE_N; pfam03448 1104321009861 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 1104321009862 Divalent cation transporter; Region: MgtE; pfam01769 1104321009863 Predicted membrane GTPase involved in stress response [Signal transduction mechanisms]; Region: TypA; COG1217 1104321009864 Tyrosine phosphorylated protein A (TypA)/BipA family belongs to ribosome-binding GTPases; Region: TypA_BipA; cd01891 1104321009865 G1 box; other site 1104321009866 putative GEF interaction site [polypeptide binding]; other site 1104321009867 GTP/Mg2+ binding site [chemical binding]; other site 1104321009868 Switch I region; other site 1104321009869 G2 box; other site 1104321009870 G3 box; other site 1104321009871 Switch II region; other site 1104321009872 G4 box; other site 1104321009873 G5 box; other site 1104321009874 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 1104321009875 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 1104321009876 Uncharacterized conserved protein [Function unknown]; Region: COG1739 1104321009877 Uncharacterized protein family UPF0029; Region: UPF0029; pfam01205 1104321009878 Domain of unknown function (DUF1949); Region: DUF1949; pfam09186 1104321009879 Fructose-1,6-bisphosphatase, an enzyme that catalyzes the hydrolysis of fructose-1,6-biphosphate into fructose-6-phosphate and is critical in gluconeogenesis pathway. The alignment model also includes chloroplastic FBPases and sedoheptulose-1; Region: FBPase; cd00354 1104321009880 AMP binding site [chemical binding]; other site 1104321009881 metal binding site [ion binding]; metal-binding site 1104321009882 active site 1104321009883 fructose-bisphosphate aldolase; Provisional; Region: PRK09197 1104321009884 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 1104321009885 intersubunit interface [polypeptide binding]; other site 1104321009886 active site 1104321009887 zinc binding site [ion binding]; other site 1104321009888 Na+ binding site [ion binding]; other site 1104321009889 ribose-5-phosphate isomerase B; Provisional; Region: PRK05571 1104321009890 triosephosphate isomerase; Provisional; Region: PRK14565 1104321009891 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 1104321009892 substrate binding site [chemical binding]; other site 1104321009893 dimer interface [polypeptide binding]; other site 1104321009894 catalytic triad [active] 1104321009895 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 1104321009896 helix_turn_helix, Deoxyribose operon repressor; Region: HTH_DEOR; smart00420 1104321009897 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 1104321009898 Transcriptional regulator, contains sigma factor-related N-terminal domain [Transcription]; Region: DeoR; COG2390 1104321009899 PCI domain; Region: PCI; cl02111 1104321009900 Putative sugar-binding domain; Region: Sugar-bind; pfam04198 1104321009901 Xylose isomerase-like TIM barrel; Region: AP_endonuc_2; pfam01261 1104321009902 glycerol-3-phosphate dehydrogenase; Provisional; Region: PRK13369 1104321009903 hydroxyglutarate oxidase; Provisional; Region: PRK11728 1104321009904 Sugar (pentulose and hexulose) kinases [Carbohydrate transport and metabolism]; Region: XylB; COG1070 1104321009905 L-xylulose kinases; a subfamily of the FGGY family of carbohydrate kinases; Region: FGGY_L-XK; cd07802 1104321009906 putative N- and C-terminal domain interface [polypeptide binding]; other site 1104321009907 putative active site [active] 1104321009908 MgATP binding site [chemical binding]; other site 1104321009909 catalytic site [active] 1104321009910 metal binding site [ion binding]; metal-binding site 1104321009911 putative xylulose binding site [chemical binding]; other site 1104321009912 Predicted periplasmic lipoprotein (DUF2291); Region: DUF2291; pfam10054 1104321009913 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 1104321009914 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 1104321009915 Walker A/P-loop; other site 1104321009916 ATP binding site [chemical binding]; other site 1104321009917 Q-loop/lid; other site 1104321009918 ABC transporter signature motif; other site 1104321009919 Walker B; other site 1104321009920 D-loop; other site 1104321009921 H-loop/switch region; other site 1104321009922 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 1104321009923 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 1104321009924 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1104321009925 TM-ABC transporter signature motif; other site 1104321009926 Periplasmic sugar-binding domain of the thermophilic Thermoanaerobacter tengcongensis ribose binding protein (ttRBP) and its mesophilic homologs; Region: PBP1_ribose_binding; cd06323 1104321009927 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 1104321009928 ligand binding site [chemical binding]; other site 1104321009929 dimerization interface [polypeptide binding]; other site 1104321009930 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 1104321009931 DeoR-like helix-turn-helix domain; Region: HTH_DeoR; cl17531 1104321009932 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 1104321009933 hypothetical protein; Validated; Region: PRK08238 1104321009934 haloacid dehalogenase-like hydrolase; Region: HAD; pfam12710 1104321009935 hypothetical protein; Validated; Region: PRK08238 1104321009936 phosphoribose diphosphate:decaprenyl-phosphate phosphoribosyltransferase; Provisional; Region: PRK12324 1104321009937 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 1104321009938 FAD binding domain; Region: FAD_binding_4; pfam01565 1104321009939 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 1104321009940 4-amino-4-deoxy-L-arabinose-phosphoundecaprenol flippase subunit ArnF; Provisional; Region: PRK02971 1104321009941 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 1104321009942 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1104321009943 NAD(P) binding site [chemical binding]; other site 1104321009944 active site 1104321009945 Ornithine/acetylornithine aminotransferase [Amino acid transport and metabolism]; Region: ArgD; COG4992 1104321009946 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 1104321009947 inhibitor-cofactor binding pocket; inhibition site 1104321009948 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1104321009949 catalytic residue [active] 1104321009950 Putative transposase of IS4/5 family (DUF4096); Region: DUF4096; pfam13340