-- dump date 20140620_134943 -- class Genbank::misc_feature -- table misc_feature_note -- id note 930944000001 ATPase involved in DNA replication initiation [DNA replication, recombination, and repair]; Region: DnaA; COG0593 930944000002 DNA replication initiation factor; Provisional; Region: PRK08084 930944000003 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 930944000004 ArsC family; Region: ArsC; pfam03960 930944000005 catalytic residues [active] 930944000006 Putative Zn-dependent protease, contains TPR repeats [General function prediction only]; Region: COG4783 930944000007 Peptidase family M48; Region: Peptidase_M48; pfam01435 930944000008 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 930944000009 Domain of unknown function DUF20; Region: UPF0118; pfam01594 930944000010 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 930944000011 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 930944000012 catalytic triad [active] 930944000013 glycine cleavage system transcriptional repressor; Provisional; Region: gcvR; PRK11589 930944000014 ACT domains that comprise the Glycine Cleavage System Transcriptional Repressor (GcvR) protein, and other related domains; Region: ACT_GcvR_1; cd04893 930944000015 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 930944000016 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 930944000017 dihydrodipicolinate synthase; Region: dapA; TIGR00674 930944000018 dimer interface [polypeptide binding]; other site 930944000019 active site 930944000020 catalytic residue [active] 930944000021 lipoprotein; Provisional; Region: PRK11679 930944000022 NlpB/DapX lipoprotein; Region: Lipoprotein_18; pfam06804 930944000023 phosphoribosylaminoimidazole-succinocarboxamide synthase; Reviewed; Region: PRK09362 930944000024 bacterial and archaeal 5-aminoimidazole-4-(N-succinylcarboxamide) ribonucleotide (SAICAR) synthase; Region: SAICAR_synt_PurC; cd01415 930944000025 ATP binding site [chemical binding]; other site 930944000026 active site 930944000027 substrate binding site [chemical binding]; other site 930944000028 Predicted metalloprotease [General function prediction only]; Region: COG2321 930944000029 Putative neutral zinc metallopeptidase; Region: Zn_peptidase; pfam04228 930944000030 Predicted membrane protein [Function unknown]; Region: COG2707 930944000031 Predicted P-loop ATPase fused to an acetyltransferase [General function prediction only]; Region: COG1444 930944000032 Helicase; Region: Helicase_RecD; pfam05127 930944000033 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 930944000034 Coenzyme A binding pocket [chemical binding]; other site 930944000035 Possible tRNA binding domain; Region: tRNA_bind_2; pfam13725 930944000036 putative hydrolase; Provisional; Region: PRK11460 930944000037 Phospholipase/Carboxylesterase; Region: Abhydrolase_2; pfam02230 930944000038 Bacteriophage lysis protein; Region: Phage_lysis; pfam03245 930944000039 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 930944000040 Transposase; Region: DEDD_Tnp_IS110; pfam01548 930944000041 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 930944000042 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 930944000043 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; cl17254 930944000044 Uncharacterized protein family (UPF0370); Region: UPF0370; pfam13980 930944000045 D-alanyl-D-alanine carboxypeptidase [Cell envelope biogenesis, outer membrane]; Region: VanY; COG1876 930944000046 D-alanyl-D-alanine carboxypeptidase; Region: VanY; pfam02557 930944000047 succinyl-diaminopimelate desuccinylase; Reviewed; Region: PRK13009 930944000048 M20 Peptidase proteobacterial DapE encoded N-succinyl-L,L-diaminopimelic acid desuccinylase; Region: M20_DapE_proteobac; cd03891 930944000049 metal binding site [ion binding]; metal-binding site 930944000050 dimer interface [polypeptide binding]; other site 930944000051 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 930944000052 ArsC family; Region: ArsC; pfam03960 930944000053 putative catalytic residues [active] 930944000054 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 930944000055 TPR motif; other site 930944000056 Tetratrico peptide repeat; Region: TPR_5; pfam12688 930944000057 binding surface 930944000058 YcaO-like family; Region: YcaO; pfam02624 930944000059 aminoglycoside/multidrug efflux system; Provisional; Region: PRK10555 930944000060 Protein export membrane protein; Region: SecD_SecF; cl14618 930944000061 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4519 930944000062 transcriptional regulator NarP; Provisional; Region: PRK10403 930944000063 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 930944000064 active site 930944000065 phosphorylation site [posttranslational modification] 930944000066 intermolecular recognition site; other site 930944000067 dimerization interface [polypeptide binding]; other site 930944000068 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 930944000069 DNA binding residues [nucleotide binding] 930944000070 dimerization interface [polypeptide binding]; other site 930944000071 ferredoxin-type protein; Provisional; Region: PRK10194 930944000072 assembly protein for periplasmic nitrate reductase; Provisional; Region: PRK10553 930944000073 nitrate reductase catalytic subunit; Provisional; Region: PRK13532 930944000074 Nitrate reductases, NapA (Nitrate-R-NapA), NasA, and NarB catalyze the reduction of nitrate to nitrite. Monomeric Nas is located in the cytoplasm and participates in nitrogen assimilation. Dimeric Nap is located in the periplasm and is coupled to quinol...; Region: MopB_Nitrate-R-NapA-like; cd02754 930944000075 [4Fe-4S] binding site [ion binding]; other site 930944000076 molybdopterin cofactor binding site; other site 930944000077 Nitrate reductases, NapA (Nitrate-R-NapA), NasA, and NarB catalyze the reduction of nitrate to nitrite. Monomeric Nas is located in the cytoplasm and participates in nitrogen assimilation. Dimeric Nap is located in the periplasm and is coupled to quinol...; Region: MopB_CT_Nitrate-R-NapA-like; cd02791 930944000078 molybdopterin cofactor binding site; other site 930944000079 nitrate reductase cytochrome C550 subunit; Provisional; Region: napB; PRK11586 930944000080 cytochrome c-type protein NapC; Provisional; Region: PRK10617 930944000081 Nitrate/TMAO reductases, membrane-bound tetraheme cytochrome c subunit [Energy production and conversion]; Region: TorC; COG3005 930944000082 GDP-mannose pyrophosphatase NudK; Provisional; Region: PRK15009 930944000083 ADP-ribose pyrophosphatase (ADPRase) catalyzes the hydrolysis of ADP-ribose and a variety of additional ADP-sugar conjugates to AMP and ribose-5-phosphate. Like other members of the Nudix hydrolase superfamily, it requires a divalent cation, such as Mg2+; Region: ADPRase_NUDT5; cd03424 930944000084 dimer interface [polypeptide binding]; other site 930944000085 ADP-ribose binding site [chemical binding]; other site 930944000086 active site 930944000087 nudix motif; other site 930944000088 metal binding site [ion binding]; metal-binding site 930944000089 bifunctional malic enzyme oxidoreductase/phosphotransacetylase; Reviewed; Region: PRK07232 930944000090 Malic enzyme, N-terminal domain; Region: malic; pfam00390 930944000091 NAD(P) binding domain of malic enzyme (ME), subgroup 2; Region: NAD_bind_2_malic_enz; cd05311 930944000092 putative NAD(P) binding site [chemical binding]; other site 930944000093 Phosphotransacetylase [Energy production and conversion]; Region: Pta; COG0280 930944000094 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 930944000095 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 930944000096 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 930944000097 Transposase; Region: DEDD_Tnp_IS110; pfam01548 930944000098 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 930944000099 hypothetical protein; Validated; Region: PRK00124 930944000100 coproporphyrinogen III oxidase; Provisional; Region: PRK05330 930944000101 Coproporphyrinogen III oxidase; Region: Coprogen_oxidas; pfam01218 930944000102 putative acetyltransferase; Provisional; Region: PRK03624 930944000103 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 930944000104 Coenzyme A binding pocket [chemical binding]; other site 930944000105 Periplasmic protein with OB-fold [Function unknown]; Region: COG3111 930944000106 RpoE-regulated lipoprotein; Provisional; Region: PRK10718 930944000107 Protein of unknown function (DUF1131); Region: DUF1131; pfam06572 930944000108 Dyp-type peroxidase family; Region: Dyp_perox; pfam04261 930944000109 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 930944000110 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 930944000111 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl17173 930944000112 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 930944000113 Transposase; Region: DEDD_Tnp_IS110; pfam01548 930944000114 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 930944000115 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 930944000116 Class I aldolases; Region: Aldolase_Class_I; cl17187 930944000117 catalytic residue [active] 930944000118 N-acetylmannosamine-6-phosphate 2-epimerase; Provisional; Region: PRK01130 930944000119 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 930944000120 putative active site cavity [active] 930944000121 N-acetylmannosamine kinase; Provisional; Region: PRK05082 930944000122 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 930944000123 nucleotide binding site [chemical binding]; other site 930944000124 Beta-galactosidase, beta subunit [Carbohydrate transport and metabolism]; Region: EbgC; COG2731 930944000125 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 930944000126 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 930944000127 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 930944000128 putative active site [active] 930944000129 putative sialic acid transporter; Provisional; Region: PRK03893 930944000130 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 930944000131 putative substrate translocation pore; other site 930944000132 thiosulfate transporter subunit; Provisional; Region: PRK10852 930944000133 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 930944000134 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 930944000135 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 930944000136 dimer interface [polypeptide binding]; other site 930944000137 conserved gate region; other site 930944000138 putative PBP binding loops; other site 930944000139 ABC-ATPase subunit interface; other site 930944000140 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 930944000141 dimer interface [polypeptide binding]; other site 930944000142 conserved gate region; other site 930944000143 putative PBP binding loops; other site 930944000144 ABC-ATPase subunit interface; other site 930944000145 sulfate/thiosulfate transporter subunit; Provisional; Region: PRK10851 930944000146 ATP-binding cassette domain of the sulfate transporter; Region: ABC_CysA_sulfate_importer; cd03296 930944000147 Walker A/P-loop; other site 930944000148 ATP binding site [chemical binding]; other site 930944000149 Q-loop/lid; other site 930944000150 ABC transporter signature motif; other site 930944000151 Walker B; other site 930944000152 D-loop; other site 930944000153 H-loop/switch region; other site 930944000154 TOBE-like domain; Region: TOBE_3; pfam12857 930944000155 cysteine synthase B; Region: cysM; TIGR01138 930944000156 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 930944000157 dimer interface [polypeptide binding]; other site 930944000158 pyridoxal 5'-phosphate binding site [chemical binding]; other site 930944000159 catalytic residue [active] 930944000160 potential frameshift: common BLAST hit: gi|332162531|ref|YP_004299108.1| putative ABC transporter ATP-binding protein 930944000161 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 930944000162 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 930944000163 FtsX-like permease family; Region: FtsX; pfam02687 930944000164 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 930944000165 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 930944000166 Walker A/P-loop; other site 930944000167 ATP binding site [chemical binding]; other site 930944000168 Q-loop/lid; other site 930944000169 ABC transporter signature motif; other site 930944000170 Walker B; other site 930944000171 D-loop; other site 930944000172 H-loop/switch region; other site 930944000173 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 930944000174 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 930944000175 HlyD family secretion protein; Region: HlyD_3; pfam13437 930944000176 potential frameshift: common BLAST hit: gi|332162529|ref|YP_004299106.1| putative two-component system response regulator 930944000177 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 930944000178 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 930944000179 active site 930944000180 phosphorylation site [posttranslational modification] 930944000181 intermolecular recognition site; other site 930944000182 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 930944000183 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cl17736 930944000184 active site 930944000185 dimerization interface [polypeptide binding]; other site 930944000186 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 930944000187 DNA binding site [nucleotide binding] 930944000188 Predicted permeases [General function prediction only]; Region: COG0795; cl12074 930944000189 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 930944000190 dimerization interface [polypeptide binding]; other site 930944000191 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 930944000192 dimer interface [polypeptide binding]; other site 930944000193 phosphorylation site [posttranslational modification] 930944000194 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 930944000195 ATP binding site [chemical binding]; other site 930944000196 Mg2+ binding site [ion binding]; other site 930944000197 G-X-G motif; other site 930944000198 PTS_IIA, PTS system, glucose/sucrose 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_glc; cd00210 930944000199 HPr interaction site; other site 930944000200 glycerol kinase (GK) interaction site [polypeptide binding]; other site 930944000201 active site 930944000202 phosphorylation site [posttranslational modification] 930944000203 phosphoenolpyruvate-protein phosphotransferase; Provisional; Region: PRK11177 930944000204 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 930944000205 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 930944000206 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 930944000207 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 930944000208 dimerization domain swap beta strand [polypeptide binding]; other site 930944000209 regulatory protein interface [polypeptide binding]; other site 930944000210 active site 930944000211 regulatory phosphorylation site [posttranslational modification]; other site 930944000212 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 930944000213 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 930944000214 dimer interface [polypeptide binding]; other site 930944000215 pyridoxal 5'-phosphate binding site [chemical binding]; other site 930944000216 catalytic residue [active] 930944000217 putative sulfate transport protein CysZ; Validated; Region: PRK04949 930944000218 cell division protein ZipA; Provisional; Region: PRK03427 930944000219 ZipA C-terminal domain. ZipA, a membrane-anchored protein, is one of at least nine essential gene products necessary for assembly of the septal ring which mediates cell division in E.coli. ZipA and FtsA directly bind FtsZ, a homolog of eukaryotic...; Region: ZipA; cl12038 930944000220 FtsZ protein binding site [polypeptide binding]; other site 930944000221 NAD-dependent DNA ligase LigA; Validated; Region: ligA; PRK07956 930944000222 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 930944000223 nucleotide binding pocket [chemical binding]; other site 930944000224 K-X-D-G motif; other site 930944000225 catalytic site [active] 930944000226 NAD-dependent DNA ligase OB-fold domain; Region: DNA_ligase_OB; pfam03120 930944000227 NAD-dependent DNA ligase C4 zinc finger domain; Region: DNA_ligase_ZBD; pfam03119 930944000228 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 930944000229 Dimer interface [polypeptide binding]; other site 930944000230 BRCT sequence motif; other site 930944000231 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3530 930944000232 Bacterial protein of unknown function (DUF925); Region: DUF925; pfam06042 930944000233 glutamyl-tRNA synthetase; Reviewed; Region: gltX; PRK01406 930944000234 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 930944000235 HIGH motif; other site 930944000236 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 930944000237 active site 930944000238 KMSKS motif; other site 930944000239 Nucleoside permease [Nucleotide transport and metabolism]; Region: NupC; COG1972 930944000240 Na+ dependent nucleoside transporter N-terminus; Region: Nucleos_tra2_N; pfam01773 930944000241 Nucleoside recognition; Region: Gate; pfam07670 930944000242 Na+ dependent nucleoside transporter C-terminus; Region: Nucleos_tra2_C; pfam07662 930944000243 manganese transport protein MntH; Reviewed; Region: PRK00701 930944000244 Natural resistance-associated macrophage protein; Region: Nramp; pfam01566 930944000245 Protein of unknown function (DUF2502); Region: DUF2502; pfam10697 930944000246 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 930944000247 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 930944000248 active site 930944000249 catalytic tetrad [active] 930944000250 indolepyruvate decarboxylase, Erwinia family; Region: indolpyr_decarb; TIGR03393 930944000251 Pyrimidine (PYR) binding domain of pyruvate decarboxylase (PDC), indolepyruvate decarboxylase (IPDC) and related proteins; Region: TPP_PYR_PDC_IPDC_like; cd07038 930944000252 dimer interface [polypeptide binding]; other site 930944000253 PYR/PP interface [polypeptide binding]; other site 930944000254 TPP binding site [chemical binding]; other site 930944000255 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 930944000256 Thiamine pyrophosphate (TPP) family, PDC_IPDC subfamily, TPP-binding module; composed of proteins similar to pyruvate decarboxylase (PDC) and indolepyruvate decarboxylase (IPDC). PDC, a key enzyme in alcoholic fermentation, catalyzes the conversion of...; Region: TPP_PDC_IPDC; cd02005 930944000257 TPP-binding site [chemical binding]; other site 930944000258 dimer interface [polypeptide binding]; other site 930944000259 Transcriptional regulator [Transcription]; Region: LysR; COG0583 930944000260 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 930944000261 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 930944000262 dimerization interface [polypeptide binding]; other site 930944000263 Predicted membrane protein [Function unknown]; Region: COG4125 930944000264 Bacterial Transmembrane Pair family; Region: BTP; pfam05232 930944000265 Bacterial Transmembrane Pair family; Region: BTP; pfam05232 930944000266 glucokinase, proteobacterial type; Region: glk; TIGR00749 930944000267 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 930944000268 nucleotide binding site [chemical binding]; other site 930944000269 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 930944000270 Transposase; Region: DEDD_Tnp_IS110; pfam01548 930944000271 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 930944000272 oxalate/formate antiporter family transporter; Region: 2A0111; TIGR00890 930944000273 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 930944000274 putative substrate translocation pore; other site 930944000275 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 930944000276 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 930944000277 active site 930944000278 phosphorylation site [posttranslational modification] 930944000279 intermolecular recognition site; other site 930944000280 dimerization interface [polypeptide binding]; other site 930944000281 LytTr DNA-binding domain; Region: LytTR; pfam04397 930944000282 Putative regulator of cell autolysis [Signal transduction mechanisms]; Region: LytS; COG3275 930944000283 5TMR of 5TMR-LYT; Region: 5TM-5TMR_LYT; pfam07694 930944000284 Histidine kinase; Region: His_kinase; pfam06580 930944000285 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 930944000286 ATP binding site [chemical binding]; other site 930944000287 Mg2+ binding site [ion binding]; other site 930944000288 G-X-G motif; other site 930944000289 Protein of unknown function (DUF1479); Region: DUF1479; pfam07350 930944000290 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 930944000291 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 930944000292 aminotransferase; Validated; Region: PRK08175 930944000293 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 930944000294 pyridoxal 5'-phosphate binding site [chemical binding]; other site 930944000295 homodimer interface [polypeptide binding]; other site 930944000296 catalytic residue [active] 930944000297 Cytochrome B561 [Energy production and conversion]; Region: CybB; COG3038 930944000298 Predicted nuclease of the RNAse H fold, HicB family [General function prediction only]; Region: COG1598 930944000299 Curli production assembly/transport component CsgG; Region: CsgG; cl17434 930944000300 Predicted membrane protein (DUF2127); Region: DUF2127; cl01785 930944000301 The Resistance to Homoserine/Threonine (RhtB) Family protein; Region: 2A76; TIGR00949 930944000302 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 930944000303 ATP-binding cassette domain of the carbohydrate and solute transporters-like; Region: ABC_Carb_Solutes_like; cd03259 930944000304 Walker A/P-loop; other site 930944000305 ATP binding site [chemical binding]; other site 930944000306 Q-loop/lid; other site 930944000307 ABC transporter signature motif; other site 930944000308 Walker B; other site 930944000309 D-loop; other site 930944000310 H-loop/switch region; other site 930944000311 ABC-type Fe3+ transport system, permease component [Inorganic ion transport and metabolism]; Region: ThiP; COG1178 930944000312 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 930944000313 dimer interface [polypeptide binding]; other site 930944000314 conserved gate region; other site 930944000315 putative PBP binding loops; other site 930944000316 ABC-ATPase subunit interface; other site 930944000317 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 930944000318 dimer interface [polypeptide binding]; other site 930944000319 conserved gate region; other site 930944000320 putative PBP binding loops; other site 930944000321 ABC-ATPase subunit interface; other site 930944000322 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 930944000323 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 930944000324 Membrane-bound lytic murein transglycosylase B [Cell envelope biogenesis, outer membrane]; Region: MltB; COG2951 930944000325 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 930944000326 N-acetyl-D-glucosamine binding site [chemical binding]; other site 930944000327 catalytic residue [active] 930944000328 Amino acid transporters [Amino acid transport and metabolism]; Region: PotE; COG0531 930944000329 Predicted metal-dependent hydrolase with the TIM-barrel fold [General function prediction only]; Region: COG1574 930944000330 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 930944000331 active site 930944000332 TetR family transcriptional regulator; Provisional; Region: PRK14996 930944000333 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 930944000334 Bacterial transcriptional repressor; Region: TetR_C_6; pfam13977 930944000335 methyl viologen resistance protein SmvA; Provisional; Region: PRK14995 930944000336 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 930944000337 putative substrate translocation pore; other site 930944000338 ABC-type transport system involved in resistance to organic solvents, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2B; COG0767 930944000339 Permease; Region: Permease; pfam02405 930944000340 ABC-type transport system involved in resistance to organic solvents, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2A; COG1127 930944000341 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 930944000342 Walker A/P-loop; other site 930944000343 ATP binding site [chemical binding]; other site 930944000344 Q-loop/lid; other site 930944000345 ABC transporter signature motif; other site 930944000346 Walker B; other site 930944000347 D-loop; other site 930944000348 H-loop/switch region; other site 930944000349 ABC-type transport system involved in resistance to organic solvents, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2C; COG1463 930944000350 mce related protein; Region: MCE; pfam02470 930944000351 Protein of unknown function (DUF3407); Region: DUF3407; pfam11887 930944000352 Protein of unknown function (DUF330); Region: DUF330; cl01135 930944000353 Esterase/lipase [Lipid metabolism]; Region: Aes; COG0657 930944000354 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cd00312 930944000355 Cytochrome B561 [Energy production and conversion]; Region: CybB; COG3038 930944000356 YceI-like domain; Region: YceI; cl01001 930944000357 YceI-like domain; Region: YceI; cl01001 930944000358 Transcriptional regulators [Transcription]; Region: PurR; COG1609 930944000359 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 930944000360 DNA binding site [nucleotide binding] 930944000361 domain linker motif; other site 930944000362 Ligand binding domain of DNA transcription iso-repressor GalS, which is one of two regulatory proteins involved in galactose transport and metabolism; Region: PBP1_GalS_like; cd06270 930944000363 dimerization interface (closed form) [polypeptide binding]; other site 930944000364 ligand binding site [chemical binding]; other site 930944000365 PTS system cellobiose/arbutin/salicin-specific transporter subunits IIBC; Provisional; Region: PRK09796 930944000366 PTS_IIB, PTS system, glucose/sucrose specific IIB subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIB_glc; cd00212 930944000367 active site turn [active] 930944000368 phosphorylation site [posttranslational modification] 930944000369 PTS system, maltose and glucose-specific subfamily, IIC component; Region: pts-Glc; TIGR00852 930944000370 cryptic 6-phospho-beta-glucosidase; Provisional; Region: PRK09852 930944000371 beta-galactosidase; Region: BGL; TIGR03356 930944000372 Domain of Unknown Function with PDB structure (DUF3861); Region: DUF3861; pfam12977 930944000373 Predicted transcriptional regulators [Transcription]; Region: COG1695 930944000374 Transcriptional regulator PadR-like family; Region: PadR; pfam03551 930944000375 Uncharacterized Zn-ribbon-containing protein involved in phosphonate metabolism [Inorganic ion transport and metabolism]; Region: PhnA; COG2824 930944000376 PhnA Zinc-Ribbon; Region: PhnA_Zn_Ribbon; pfam08274 930944000377 PhnA protein; Region: PhnA; pfam03831 930944000378 Domain of unknown function (DUF4102); Region: DUF4102; pfam13356 930944000379 Formate/nitrite transporter; Region: Form_Nir_trans; pfam01226 930944000380 cytochrome c biogenesis protein CcmA; Provisional; Region: PRK13538 930944000381 Cytochrome c biogenesis ATP-binding export protein; Region: ABC_CcmA_heme_exporter; cd03231 930944000382 Walker A/P-loop; other site 930944000383 ATP binding site [chemical binding]; other site 930944000384 Q-loop/lid; other site 930944000385 ABC transporter signature motif; other site 930944000386 Walker B; other site 930944000387 D-loop; other site 930944000388 H-loop/switch region; other site 930944000389 heme exporter protein CcmB; Region: ccmB; TIGR01190 930944000390 heme exporter protein CcmC; Region: ccmC; TIGR01191 930944000391 Heme exporter protein D (CcmD); Region: CcmD; cl11475 930944000392 cytochrome c-type biogenesis protein CcmE; Reviewed; Region: PRK13165 930944000393 Cytochrome c biogenesis factor [Posttranslational modification, protein turnover, chaperones]; Region: CcmF; COG1138 930944000394 thiol:disulfide interchange protein DsbE; Provisional; Region: PRK15412 930944000395 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 930944000396 catalytic residues [active] 930944000397 central insert; other site 930944000398 Cytochrome C biogenesis protein; Region: CcmH; pfam03918 930944000399 cytochrome c-type biogenesis protein CcmI; Region: cytochro_ccmI; TIGR03142 930944000400 Cytochrome c biogenesis factor [Posttranslational modification, protein turnover, chaperones]; Region: COG4235 930944000401 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 930944000402 binding surface 930944000403 TPR motif; other site 930944000404 ABC transporter outer membrane lipoprotein; Provisional; Region: PRK15091 930944000405 long-chain fatty acid outer membrane transporter; Provisional; Region: PRK10716 930944000406 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3691 930944000407 3-ketoacyl-CoA thiolase; Reviewed; Region: fadI; PRK08963 930944000408 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 930944000409 dimer interface [polypeptide binding]; other site 930944000410 active site 930944000411 multifunctional fatty acid oxidation complex subunit alpha; Reviewed; Region: fadJ; PRK11154 930944000412 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 930944000413 substrate binding site [chemical binding]; other site 930944000414 oxyanion hole (OAH) forming residues; other site 930944000415 trimer interface [polypeptide binding]; other site 930944000416 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 930944000417 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 930944000418 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 930944000419 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 930944000420 catalytic core [active] 930944000421 hypothetical protein; Provisional; Region: PRK04946 930944000422 Smr domain; Region: Smr; pfam01713 930944000423 HemK family putative methylases; Region: hemK_fam; TIGR00536 930944000424 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 930944000425 S-adenosylmethionine binding site [chemical binding]; other site 930944000426 Chorismate synthase [Amino acid transport and metabolism]; Region: AroC; COG0082 930944000427 Chorismase synthase, the enzyme catalyzing the final step of the shikimate pathway; Region: Chorismate_synthase; cd07304 930944000428 Tetramer interface [polypeptide binding]; other site 930944000429 active site 930944000430 FMN-binding site [chemical binding]; other site 930944000431 Murein endopeptidase [Cell envelope biogenesis, outer membrane]; Region: MepA; COG3770 930944000432 penicillin-insensitive murein endopeptidase; Reviewed; Region: mepA; PRK09429 930944000433 hypothetical protein; Provisional; Region: PRK10621 930944000434 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 930944000435 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3101 930944000436 YfcL protein; Region: YfcL; pfam08891 930944000437 Uncharacterized conserved protein [Function unknown]; Region: COG4121 930944000438 bifunctional tRNA (mnm(5)s(2)U34)-methyltransferase/FAD-dependent cmnm(5)s(2)U34 oxidoreductase; Reviewed; Region: mnmC; PRK01747 930944000439 3-oxoacyl-(acyl carrier protein) synthase I; Reviewed; Region: PRK07967 930944000440 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 930944000441 dimer interface [polypeptide binding]; other site 930944000442 active site 930944000443 potential frameshift: common BLAST hit: gi|378952723|ref|YP_005210211.1| diguanylate cyclase/phosphodiesterase (GGDEF & EAL domains) with 930944000444 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 930944000445 PAS fold; Region: PAS_3; pfam08447 930944000446 putative active site [active] 930944000447 heme pocket [chemical binding]; other site 930944000448 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 930944000449 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 930944000450 metal binding site [ion binding]; metal-binding site 930944000451 active site 930944000452 I-site; other site 930944000453 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 930944000454 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 930944000455 I-site; other site 930944000456 Aspartate racemase [Cell envelope biogenesis, outer membrane]; Region: RacX; COG1794 930944000457 aspartate racemase; Region: asp_race; TIGR00035 930944000458 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 930944000459 PTS_IIA, PTS system, lactose/cellobiose 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_lac; cd00215 930944000460 methionine cluster; other site 930944000461 active site 930944000462 phosphorylation site [posttranslational modification] 930944000463 metal binding site [ion binding]; metal-binding site 930944000464 Beta-glucosidase/6-phospho-beta-glucosidase/beta- galactosidase [Carbohydrate transport and metabolism]; Region: BglB; COG2723 930944000465 beta-galactosidase; Region: BGL; TIGR03356 930944000466 cellobiose phosphotransferase system IIC component; Reviewed; Region: celD; PRK09592 930944000467 Phosphotransferase system cellobiose-specific component IIC [Carbohydrate transport and metabolism]; Region: CelB; COG1455 930944000468 PTS_IIB_chitobiose_lichenan: subunit IIB of enzyme II (EII) of the N,N-diacetylchitobiose-specific and lichenan-specific phosphoenolpyruvate:carbohydrate phosphotransferase system (PTS). In these systems, EII is either a lichenan- or an N; Region: PTS_IIB_chitobiose_lichenan; cd05564 930944000469 active site 930944000470 P-loop; other site 930944000471 phosphorylation site [posttranslational modification] 930944000472 Transcriptional regulators [Transcription]; Region: PurR; COG1609 930944000473 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 930944000474 DNA binding site [nucleotide binding] 930944000475 domain linker motif; other site 930944000476 Ligand binding domain of the LacI tanscriptional regulator family belonging to the type I periplasmic-binding fold protein superfamily; Region: PBP1_LacI_sugar_binding_like; cd06267 930944000477 ligand binding site [chemical binding]; other site 930944000478 glucose-1-phosphatase/inositol phosphatase; Provisional; Region: PRK10173 930944000479 Histidine phosphatase domain found in histidine acid phosphatases and phytases; contains a His residue which is phosphorylated during the reaction; Region: HP_HAP_like; cd07061 930944000480 catalytic core [active] 930944000481 Histidine phosphatase domain found in a functionally diverse set of proteins, mostly phosphatases; contains a His residue which is phosphorylated during the reaction; Region: HP; cl11399 930944000482 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cl17221 930944000483 Na+/H+ antiporter NhaD and related arsenite permeases [Inorganic ion transport and metabolism]; Region: ArsB; COG1055 930944000484 transmembrane helices; other site 930944000485 flagella biosynthesis regulator; Provisional; Region: flk; PRK10715 930944000486 Disulphide bond corrector protein DsbC; Region: DsbC; cl15830 930944000487 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; cl15788 930944000488 DsbD gamma family; DsbD gamma is the C-terminal periplasmic domain of the bacterial protein DsbD. It contains a CXXC motif in a TRX fold and shuttles the reducing potential from the membrane domain (DsbD beta) to the N-terminal periplasmic domain (DsbD...; Region: DsbDgamma; cd02953 930944000489 DsbD alpha interface [polypeptide binding]; other site 930944000490 catalytic residues [active] 930944000491 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 930944000492 DSBA-like thioredoxin domain; Region: DSBA; pfam01323 930944000493 catalytic residues [active] 930944000494 TlpA-like family, suppressor for copper sensitivity D protein (ScsD) and actinobacterial DsbE homolog subfamily; composed of ScsD, the DsbE homolog of Mycobacterium tuberculosis (MtbDsbE) and similar proteins, all containing a redox-active CXXC motif; Region: TlpA_like_ScsD_MtbDsbE; cd03011 930944000495 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 930944000496 catalytic residues [active] 930944000497 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 930944000498 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 930944000499 DNA-binding site [nucleotide binding]; DNA binding site 930944000500 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 930944000501 pyridoxal 5'-phosphate binding site [chemical binding]; other site 930944000502 homodimer interface [polypeptide binding]; other site 930944000503 catalytic residue [active] 930944000504 EamA-like transporter family; Region: EamA; pfam00892 930944000505 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 930944000506 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 930944000507 EamA-like transporter family; Region: EamA; pfam00892 930944000508 EamA-like transporter family; Region: EamA; pfam00892 930944000509 Cupin domain; Region: Cupin_2; pfam07883 930944000510 Helix-turn-helix domain; Region: HTH_18; pfam12833 930944000511 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 930944000512 erythronate-4-phosphate dehydrogenase PdxB; Provisional; Region: PRK15438 930944000513 D-Erythronate-4-Phosphate Dehydrogenase NAD-binding and catalytic domains; Region: ErythrP_dh; cd12158 930944000514 ligand binding site [chemical binding]; other site 930944000515 NAD binding site [chemical binding]; other site 930944000516 catalytic site [active] 930944000517 homodimer interface [polypeptide binding]; other site 930944000518 putative semialdehyde dehydrogenase; Provisional; Region: PRK08040 930944000519 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 930944000520 Pleckstrin homology-like domain; Region: PH-like; cl17171 930944000521 tRNA pseudouridine synthase A; Validated; Region: truA; PRK00021 930944000522 Eukaryotic and bacterial pseudouridine synthases similar to E. coli TruA; Region: PseudoU_synth_EcTruA; cd02570 930944000523 dimerization interface 3.5A [polypeptide binding]; other site 930944000524 active site 930944000525 hypothetical protein; Provisional; Region: PRK10847 930944000526 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 930944000527 acetyl-CoA carboxylase subunit beta; Validated; Region: PRK05654 930944000528 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189; cl17682 930944000529 bifunctional folylpolyglutamate synthase/ dihydrofolate synthase; Provisional; Region: PRK10846 930944000530 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 930944000531 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 930944000532 cell division protein DedD; Provisional; Region: PRK11633 930944000533 Sporulation related domain; Region: SPOR; pfam05036 930944000534 Uncharacterized membrane protein, required for colicin V production [General function prediction only]; Region: CvpA; COG1286 930944000535 colicin V production protein; Provisional; Region: PRK10845 930944000536 amidophosphoribosyltransferase; Provisional; Region: PRK09246 930944000537 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 930944000538 active site 930944000539 tetramer interface [polypeptide binding]; other site 930944000540 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 930944000541 active site 930944000542 3-octaprenyl-4-hydroxybenzoate carboxy-lyase; Provisional; Region: PRK06029 930944000543 Flavoprotein; Region: Flavoprotein; pfam02441 930944000544 histidine ABC transporter substrate-binding protein HisJ; Provisional; Region: PRK15437 930944000545 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 930944000546 substrate binding pocket [chemical binding]; other site 930944000547 membrane-bound complex binding site; other site 930944000548 hinge residues; other site 930944000549 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 930944000550 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 930944000551 dimer interface [polypeptide binding]; other site 930944000552 conserved gate region; other site 930944000553 putative PBP binding loops; other site 930944000554 ABC-ATPase subunit interface; other site 930944000555 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 930944000556 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 930944000557 dimer interface [polypeptide binding]; other site 930944000558 conserved gate region; other site 930944000559 putative PBP binding loops; other site 930944000560 ABC-ATPase subunit interface; other site 930944000561 histidine/lysine/arginine/ornithine transporter subunit; Provisional; Region: PRK10619 930944000562 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 930944000563 Walker A/P-loop; other site 930944000564 ATP binding site [chemical binding]; other site 930944000565 Q-loop/lid; other site 930944000566 ABC transporter signature motif; other site 930944000567 Walker B; other site 930944000568 D-loop; other site 930944000569 H-loop/switch region; other site 930944000570 potential frameshift: common BLAST hit: gi|332162407|ref|YP_004298984.1| putative RTX-family protein 930944000571 RTX toxins and related Ca2+-binding proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG2931 930944000572 atypical (a) SDRs, subgroup 8; Region: SDR_a8; cd05242 930944000573 Predicted nucleoside-diphosphate sugar epimerase [General function prediction only]; Region: COG1090 930944000574 putative NAD(P) binding site [chemical binding]; other site 930944000575 putative active site [active] 930944000576 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; cl00290 930944000577 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 930944000578 Escherichia coli YfcE and related proteins, metallophosphatase domain; Region: MPP_YfcE; cd00841 930944000579 active site 930944000580 metal binding site [ion binding]; metal-binding site 930944000581 homotetramer interface [polypeptide binding]; other site 930944000582 NUDIX hydrolase YfcD; Provisional; Region: PRK15393 930944000583 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 930944000584 nudix motif; other site 930944000585 potential frameshift: common BLAST hit: gi|332163183|ref|YP_004299760.1| putative transposase for IS1667 930944000586 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 930944000587 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 930944000588 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl17173 930944000589 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 930944000590 Transposase; Region: DEDD_Tnp_IS110; pfam01548 930944000591 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 930944000592 PTS system ascorbate-specific transporter subunit IIC; Reviewed; Region: ulaA; PRK09410 930944000593 PTS_IIB_ascorbate: subunit IIB of enzyme II (EII) of the L-ascorbate-specific phosphoenolpyruvate:carbohydrate phosphotransferase system (PTS). In this system, EII is an L-ascorbate-specific permease with two cytoplasmic subunits (IIA and IIB) and a...; Region: PTS_IIB_ascorbate; cd05563 930944000594 active site 930944000595 P-loop; other site 930944000596 phosphorylation site [posttranslational modification] 930944000597 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 930944000598 active site 930944000599 phosphorylation site [posttranslational modification] 930944000600 Transcriptional regulators [Transcription]; Region: PurR; COG1609 930944000601 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 930944000602 DNA binding site [nucleotide binding] 930944000603 domain linker motif; other site 930944000604 Ligand-binding domain of DNA transcription repressor GntR specific for gluconate, a member of the LacI-GalR family of bacterial transcription regulators; Region: PBP1_GntR; cd01575 930944000605 putative dimerization interface [polypeptide binding]; other site 930944000606 putative ligand binding site [chemical binding]; other site 930944000607 phosphate acetyltransferase; Reviewed; Region: PRK05632 930944000608 DRTGG domain; Region: DRTGG; pfam07085 930944000609 phosphate acetyltransferase; Region: pta; TIGR00651 930944000610 propionate/acetate kinase; Provisional; Region: PRK12379 930944000611 acetate kinase A/propionate kinase 2; Reviewed; Region: PRK00180 930944000612 hypothetical protein; Provisional; Region: PRK01816 930944000613 hypothetical protein; Validated; Region: PRK05445 930944000614 putative phosphatase; Provisional; Region: PRK11587 930944000615 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 930944000616 motif II; other site 930944000617 Permease SLC13 (solute carrier 13). The sodium/dicarboxylate cotransporter NaDC-1 has been shown to translocate Krebs cycle intermediates such as succinate, citrate, and alpha-ketoglutarate across plasma membranes rabbit, human, and rat kidney. It is...; Region: SLC13_permease; cd01115 930944000618 transmembrane helices; other site 930944000619 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 930944000620 TrkA-C domain; Region: TrkA_C; pfam02080 930944000621 TrkA-C domain; Region: TrkA_C; pfam02080 930944000622 Permease SLC13 (solute carrier 13). The sodium/dicarboxylate cotransporter NaDC-1 has been shown to translocate Krebs cycle intermediates such as succinate, citrate, and alpha-ketoglutarate across plasma membranes rabbit, human, and rat kidney. It is...; Region: SLC13_permease; cd01115 930944000623 5'-nucleotidase; Provisional; Region: PRK03826 930944000624 aminotransferase AlaT; Validated; Region: PRK09265 930944000625 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 930944000626 pyridoxal 5'-phosphate binding site [chemical binding]; other site 930944000627 homodimer interface [polypeptide binding]; other site 930944000628 catalytic residue [active] 930944000629 DNA-binding transcriptional repressor LrhA; Provisional; Region: PRK15092 930944000630 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 930944000631 The C-terminal substrate domain of LysR-like regulator LrhA (LysR homologue A) and that of closely related homologs, contains the type 2 periplasmic binding fold; Region: PBP2_LrhA_like; cd08439 930944000632 putative dimerization interface [polypeptide binding]; other site 930944000633 NADH:ubiquinone oxidoreductase subunit A; Validated; Region: PRK06602 930944000634 NADH:ubiquinone oxidoreductase 20 kD subunit and related Fe-S oxidoreductases [Energy production and conversion]; Region: NuoB; COG0377 930944000635 bifunctional NADH:ubiquinone oxidoreductase subunit C/D; Provisional; Region: PRK11742 930944000636 NADH (or F420H2) dehydrogenase, subunit C; Region: NuoC_fam; TIGR01961 930944000637 NADH dehydrogenase subunit D; Validated; Region: PRK06075 930944000638 NADH dehydrogenase subunit E; Validated; Region: PRK07539 930944000639 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 930944000640 putative dimer interface [polypeptide binding]; other site 930944000641 [2Fe-2S] cluster binding site [ion binding]; other site 930944000642 NADH dehydrogenase I subunit F; Provisional; Region: PRK11278 930944000643 SLBB domain; Region: SLBB; pfam10531 930944000644 NADH-ubiquinone oxidoreductase-F iron-sulfur binding region; Region: NADH_4Fe-4S; pfam10589 930944000645 NADH dehydrogenase/NADH:ubiquinone oxidoreductase 75 kD subunit (chain G) [Energy production and conversion]; Region: NuoG; COG1034 930944000646 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; pfam10588 930944000647 MopB_NDH-1_NuoG2-N7: The second domain of the NuoG subunit (with a [4Fe-4S] cluster, N7) of the NADH-quinone oxidoreductase/NADH dehydrogenase-1 (NDH-1) found in various bacteria. The NDH-1 is the first energy-transducting complex in the respiratory...; Region: MopB_NDH-1_NuoG2-N7; cd02771 930944000648 [4Fe-4S] binding site [ion binding]; other site 930944000649 MopB_CT_NDH-1_NuoG2-N7: C-terminal region of the NuoG-like subunit (of the variant with a [4Fe-4S] cluster, N7) of the NADH-quinone oxidoreductase/NADH dehydrogenase-1 (NDH-1) found in various bacteria. The NDH-1 is the first energy-transducting complex...; Region: MopB_CT_NDH-1_NuoG2-N7; cd02788 930944000650 NADH:ubiquinone oxidoreductase subunit H; Provisional; Region: PRK06076 930944000651 NADH dehydrogenase subunit I; Provisional; Region: PRK05888 930944000652 4Fe-4S binding domain; Region: Fer4; pfam00037 930944000653 4Fe-4S binding domain; Region: Fer4; pfam00037 930944000654 NADH:ubiquinone oxidoreductase subunit 6 (chain J) [Energy production and conversion]; Region: NuoJ; COG0839 930944000655 NADH dehydrogenase subunit J; Provisional; Region: PRK06433 930944000656 NADH:ubiquinone oxidoreductase subunit K; Validated; Region: PRK05715 930944000657 NADH:ubiquinone oxidoreductase subunit L; Reviewed; Region: PRK06590 930944000658 NADH-Ubiquinone oxidoreductase (complex I), chain 5 N-terminus; Region: Oxidored_q1_N; pfam00662 930944000659 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 930944000660 NADH:ubiquinone oxidoreductase subunit M; Reviewed; Region: PRK05846 930944000661 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 930944000662 NADH:ubiquinone oxidoreductase subunit N; Provisional; Region: PRK05777 930944000663 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 930944000664 Protein of unknown function (DUF1097); Region: DUF1097; pfam06496 930944000665 Beta-galactosidase, beta subunit [Carbohydrate transport and metabolism]; Region: EbgC; COG2731 930944000666 Gluconate kinase (GntK) catalyzes the phosphoryl transfer from ATP to gluconate. The resulting product gluconate-6-phoshate is an important precursor of gluconate metabolism. GntK acts as a dimmer composed of two identical subunits; Region: GntK; cd02021 930944000667 AAA domain; Region: AAA_33; pfam13671 930944000668 ATP-binding site [chemical binding]; other site 930944000669 Gluconate-6-phosphate binding site [chemical binding]; other site 930944000670 gluconate 5-dehydrogenase; Provisional; Region: PRK08085 930944000671 gluconate 5-dehydrogenase (Ga5DH)-like, classical (c) SDRs; Region: Ga5DH-like_SDR_c; cd05347 930944000672 NADP binding site [chemical binding]; other site 930944000673 homodimer interface [polypeptide binding]; other site 930944000674 active site 930944000675 gluconate operon transcriptional regulator; Provisional; Region: PRK14987 930944000676 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 930944000677 DNA binding site [nucleotide binding] 930944000678 Ligand-binding domain of DNA transcription repressor GntR specific for gluconate, a member of the LacI-GalR family of bacterial transcription regulators; Region: PBP1_GntR; cd01575 930944000679 putative ligand binding site [chemical binding]; other site 930944000680 putative dimerization interface [polypeptide binding]; other site 930944000681 potential frameshift: common BLAST hit: gi|332162370|ref|YP_004298947.1| putative D-isomer specific 2-hydroxyacid dehydrogenase family 930944000682 Formate/glycerate dehydrogenases, D-specific 2-hydroxy acid dehydrogenases and related dehydrogenases; Region: FDH_GDH_like; cl17240 930944000683 Formate/glycerate dehydrogenases, D-specific 2-hydroxy acid dehydrogenases and related dehydrogenases; Region: FDH_GDH_like; cl17240 930944000684 NAD binding site [chemical binding]; other site 930944000685 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 930944000686 D-galactonate transporter; Region: 2A0114; TIGR00893 930944000687 putative substrate translocation pore; other site 930944000688 hypothetical protein; Provisional; Region: PRK02487 930944000689 phosphogluconate dehydratase; Validated; Region: PRK09054 930944000690 6-phosphogluconate dehydratase; Region: edd; TIGR01196 930944000691 Bacterial protein of unknown function (DUF883); Region: DUF883; cl01888 930944000692 menaquinone-specific isochorismate synthase; Provisional; Region: PRK15012 930944000693 chorismate binding enzyme; Region: Chorismate_bind; cl10555 930944000694 2-succinyl-5-enolpyruvyl-6-hydroxy-3-cyclohexene-1- carboxylate synthase; Validated; Region: PRK07449 930944000695 Pyrimidine (PYR) binding domain of 2-succinyl-5-enolpyruvyl-6-hydroxy-3-cyclohexadiene-1- carboxylate synthase (MenD) and related proteins; Region: TPP_PYR_MenD; cd07037 930944000696 dimer interface [polypeptide binding]; other site 930944000697 tetramer interface [polypeptide binding]; other site 930944000698 PYR/PP interface [polypeptide binding]; other site 930944000699 TPP binding site [chemical binding]; other site 930944000700 Thiamine pyrophosphate (TPP) family, SHCHC synthase subfamily, TPP-binding module; composed of proteins similar to Escherichia coli 2-succinyl-6-hydroxyl-2,4-cyclohexadiene-1-carboxylic acid (SHCHC) synthase (also called MenD). SHCHC synthase plays a key...; Region: TPP_SHCHC_synthase; cd02009 930944000701 TPP-binding site; other site 930944000702 2-succinyl-6-hydroxy-2, 4-cyclohexadiene-1-carboxylate synthase; Provisional; Region: PRK11126 930944000703 Putative serine esterase (DUF676); Region: DUF676; pfam05057 930944000704 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 930944000705 Enoyl-CoA hydratase/isomerase family; Region: ECH; pfam00378 930944000706 substrate binding site [chemical binding]; other site 930944000707 oxyanion hole (OAH) forming residues; other site 930944000708 trimer interface [polypeptide binding]; other site 930944000709 O-succinylbenzoate synthase; Provisional; Region: PRK05105 930944000710 o-Succinylbenzoate synthase (OSBS) catalyzes the conversion of 2-succinyl-6-hydroxy-2,4-cyclohexadiene-1-carboxylate (SHCHC) to 4-(2'-carboxyphenyl)-4-oxobutyrate (o-succinylbenzoate or OSB), a reaction in the menaquinone biosynthetic pathway; Region: OSBS; cd03320 930944000711 active site 930944000712 O-succinylbenzoic acid--CoA ligase; Provisional; Region: PRK09029 930944000713 O-succinylbenzoate-CoA ligase (also known as O-succinylbenzoate-CoA synthase, OSB-CoA synthetase, or MenE); Region: OSB_CoA_lg; cd05912 930944000714 acyl-activating enzyme (AAE) consensus motif; other site 930944000715 putative AMP binding site [chemical binding]; other site 930944000716 putative active site [active] 930944000717 putative CoA binding site [chemical binding]; other site 930944000718 Catalase [Inorganic ion transport and metabolism]; Region: KatE; COG0753 930944000719 Clade 3 of the heme-binding enzyme catalase; Region: catalase_clade_3; cd08156 930944000720 tetramer interface [polypeptide binding]; other site 930944000721 heme binding pocket [chemical binding]; other site 930944000722 NADPH binding site [chemical binding]; other site 930944000723 YfaZ precursor; Region: YfaZ; pfam07437 930944000724 tyrosine transporter TyrP; Provisional; Region: PRK15132 930944000725 aromatic amino acid transport protein; Region: araaP; TIGR00837 930944000726 hypothetical protein; Provisional; Region: PRK03673 930944000727 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 930944000728 putative MPT binding site; other site 930944000729 Competence-damaged protein; Region: CinA; cl00666 930944000730 potential frameshift: common BLAST hit: gi|332162352|ref|YP_004298929.1| putative serine protease 930944000731 Peptidase domain in the S8 and S53 families; Region: Peptidases_S8_S53; cl10459 930944000732 active site 930944000733 catalytic residues [active] 930944000734 Peptidase domain in the S8 and S53 families; Region: Peptidases_S8_S53; cl10459 930944000735 catalytic residues [active] 930944000736 Proprotein convertase P-domain; Region: P_proprotein; pfam01483 930944000737 Peptidase M10 serralysin C terminal; Region: Peptidase_M10_C; pfam08548 930944000738 Protease Inhibitor Ecotin; homodimeric protease inhibitor; Region: Ecotin; cd00242 930944000739 secondary substrate binding site; other site 930944000740 primary substrate binding site; other site 930944000741 inhibition loop; other site 930944000742 dimerization interface [polypeptide binding]; other site 930944000743 Ferredoxin [Energy production and conversion]; Region: Fdx; COG0633 930944000744 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 930944000745 catalytic loop [active] 930944000746 iron binding site [ion binding]; other site 930944000747 Ribonucleotide Reductase, R2/beta subunit, ferritin-like diiron-binding domain; Region: RNRR2; cd01049 930944000748 dimer interface [polypeptide binding]; other site 930944000749 putative radical transfer pathway; other site 930944000750 diiron center [ion binding]; other site 930944000751 tyrosyl radical; other site 930944000752 ribonucleotide-diphosphate reductase subunit alpha; Validated; Region: PRK09103 930944000753 ATP cone domain; Region: ATP-cone; pfam03477 930944000754 Class I ribonucleotide reductase; Region: RNR_I; cd01679 930944000755 active site 930944000756 dimer interface [polypeptide binding]; other site 930944000757 catalytic residues [active] 930944000758 effector binding site; other site 930944000759 R2 peptide binding site; other site 930944000760 bifunctional 3-demethylubiquinone-9 3-methyltransferase/ 2-octaprenyl-6-hydroxy phenol methylase; Provisional; Region: PRK05134 930944000761 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 930944000762 S-adenosylmethionine binding site [chemical binding]; other site 930944000763 DNA gyrase subunit A; Validated; Region: PRK05560 930944000764 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 930944000765 CAP-like domain; other site 930944000766 active site 930944000767 primary dimer interface [polypeptide binding]; other site 930944000768 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 930944000769 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 930944000770 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 930944000771 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 930944000772 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 930944000773 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 930944000774 hybrid sensory kinase in two-component regulatory system with RcsB and YojN; Provisional; Region: PRK10841 930944000775 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 930944000776 dimer interface [polypeptide binding]; other site 930944000777 phosphorylation site [posttranslational modification] 930944000778 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 930944000779 ATP binding site [chemical binding]; other site 930944000780 Mg2+ binding site [ion binding]; other site 930944000781 G-X-G motif; other site 930944000782 RcsC Alpha-Beta-Loop (ABL); Region: RcsC; pfam09456 930944000783 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 930944000784 active site 930944000785 phosphorylation site [posttranslational modification] 930944000786 intermolecular recognition site; other site 930944000787 dimerization interface [polypeptide binding]; other site 930944000788 transcriptional regulator RcsB; Provisional; Region: PRK10840 930944000789 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 930944000790 active site 930944000791 phosphorylation site [posttranslational modification] 930944000792 intermolecular recognition site; other site 930944000793 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 930944000794 DNA binding residues [nucleotide binding] 930944000795 dimerization interface [polypeptide binding]; other site 930944000796 phosphotransfer intermediate protein in two-component regulatory system with RcsBC; Provisional; Region: PRK10618 930944000797 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 930944000798 dimer interface [polypeptide binding]; other site 930944000799 phosphorylation site [posttranslational modification] 930944000800 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 930944000801 ATP binding site [chemical binding]; other site 930944000802 G-X-G motif; other site 930944000803 Histidine Phosphotransfer domain, involved in signalling through a two part component systems in which an autophosphorylating histidine protein kinase serves as a phosphoryl donor to a response regulator protein; the response regulator protein is...; Region: HPT; cd00088 930944000804 putative binding surface; other site 930944000805 active site 930944000806 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 930944000807 potential frameshift: common BLAST hit: gi|291618156|ref|YP_003520898.1| LktD 930944000808 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 930944000809 potential frameshift: common BLAST hit: gi|383189265|ref|YP_005199393.1| multidrug resistance efflux pump 930944000810 type I secretion membrane fusion protein, HlyD family; Region: type_I_hlyD; TIGR01843 930944000811 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 930944000812 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 930944000813 trimer interface [polypeptide binding]; other site 930944000814 eyelet of channel; other site 930944000815 beta-lactam binding protein AmpH; Provisional; Region: PRK10662 930944000816 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 930944000817 melibiose:sodium symporter; Provisional; Region: PRK10429; cl15392 930944000818 Na+/melibiose symporter and related transporters [Carbohydrate transport and metabolism]; Region: MelB; COG2211 930944000819 Predicted Zn-dependent hydrolases of the beta-lactamase fold [General function prediction only]; Region: COG2220 930944000820 Beta-lactamase superfamily domain; Region: Lactamase_B_2; pfam12706 930944000821 Cache domain; Region: Cache_1; pfam02743 930944000822 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 930944000823 dimerization interface [polypeptide binding]; other site 930944000824 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 930944000825 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 930944000826 dimer interface [polypeptide binding]; other site 930944000827 putative CheW interface [polypeptide binding]; other site 930944000828 outer membrane protease; Reviewed; Region: PRK10993 930944000829 DinI-like family; Region: DinI; cl11630 930944000830 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 930944000831 non-specific DNA binding site [nucleotide binding]; other site 930944000832 SOS-response transcriptional repressors (RecA-mediated autopeptidases) [Transcription / Signal transduction mechanisms]; Region: LexA; COG1974 930944000833 salt bridge; other site 930944000834 sequence-specific DNA binding site [nucleotide binding]; other site 930944000835 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 930944000836 Catalytic site [active] 930944000837 Phage antitermination protein Q; Region: Phage_antitermQ; pfam06530 930944000838 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 930944000839 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 930944000840 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 930944000841 putative active site [active] 930944000842 PTS system, sucrose-specific IIBC component; Region: PTS-II-BC-sucr; TIGR01996 930944000843 PTS_IIB, PTS system, glucose/sucrose specific IIB subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIB_glc; cd00212 930944000844 active site turn [active] 930944000845 phosphorylation site [posttranslational modification] 930944000846 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 930944000847 Glycosyl hydrolase family 1; Region: Glyco_hydro_1; cl01046 930944000848 beta-galactosidase; Region: BGL; TIGR03356 930944000849 Carbonic anhydrase alpha, prokaryotic-like subfamily. Carbonic anhydrases (CAs) are zinc-containing enzymes that catalyze the reversible hydration of carbon dioxide in a two-step mechanism: a nucleophilic attack of a zinc-bound hydroxide ion on carbon...; Region: alpha_CA_prokaryotic_like; cd03124 930944000850 active site 930944000851 zinc binding site [ion binding]; other site 930944000852 Transposase, Mutator family; Region: Transposase_mut; pfam00872 930944000853 MULE transposase domain; Region: MULE; pfam10551 930944000854 Predicted hydrolase of alkaline phosphatase superfamily [General function prediction only]; Region: COG3083 930944000855 Domain of unknown function (DUF3413); Region: DUF3413; pfam11893 930944000856 Sulfatase; Region: Sulfatase; cl17466 930944000857 hypothetical protein; Provisional; Region: PRK13689 930944000858 nucleoid-associated protein NdpA; Validated; Region: PRK00378 930944000859 Nucleoid-associated protein [General function prediction only]; Region: COG3081 930944000860 Ribosomal L25/TL5/CTC N-terminal 5S rRNA binding domain; Region: Ribosomal_L25_TL5_CTC; cd00495 930944000861 5S rRNA interface [nucleotide binding]; other site 930944000862 CTC domain interface [polypeptide binding]; other site 930944000863 L16 interface [polypeptide binding]; other site 930944000864 DNA or RNA helicases of superfamily II [Transcription / DNA replication, recombination, and repair]; Region: SSL2; COG1061 930944000865 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 930944000866 ATP binding site [chemical binding]; other site 930944000867 putative Mg++ binding site [ion binding]; other site 930944000868 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 930944000869 nucleotide binding region [chemical binding]; other site 930944000870 ATP-binding site [chemical binding]; other site 930944000871 16S rRNA pseudouridylate synthase A; Provisional; Region: PRK10839 930944000872 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 930944000873 RNA binding surface [nucleotide binding]; other site 930944000874 Pseudouridine synthase, Escherichia coli RsuA like; Region: PseudoU_synth_RsuA; cd02553 930944000875 active site 930944000876 uracil binding [chemical binding]; other site 930944000877 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 930944000878 bicyclomycin/multidrug efflux system; Provisional; Region: PRK11102 930944000879 putative substrate translocation pore; other site 930944000880 hypothetical protein; Provisional; Region: PRK11835 930944000881 microcin C ABC transporter ATP-binding protein YejF; Provisional; Region: PRK15134 930944000882 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 930944000883 Walker A/P-loop; other site 930944000884 ATP binding site [chemical binding]; other site 930944000885 Q-loop/lid; other site 930944000886 ABC transporter signature motif; other site 930944000887 Walker B; other site 930944000888 D-loop; other site 930944000889 H-loop/switch region; other site 930944000890 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 930944000891 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 930944000892 Walker A/P-loop; other site 930944000893 ATP binding site [chemical binding]; other site 930944000894 Q-loop/lid; other site 930944000895 ABC transporter signature motif; other site 930944000896 Walker B; other site 930944000897 D-loop; other site 930944000898 H-loop/switch region; other site 930944000899 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4239 930944000900 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 930944000901 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 930944000902 dimer interface [polypeptide binding]; other site 930944000903 conserved gate region; other site 930944000904 putative PBP binding loops; other site 930944000905 ABC-ATPase subunit interface; other site 930944000906 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4174 930944000907 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 930944000908 dimer interface [polypeptide binding]; other site 930944000909 conserved gate region; other site 930944000910 putative PBP binding loops; other site 930944000911 ABC-ATPase subunit interface; other site 930944000912 ABC-type oligopeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: OppA; COG4166 930944000913 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 930944000914 phage resistance protein; Provisional; Region: PRK10551 930944000915 CSS motif domain associated with EAL; Region: CSS-motif; pfam12792 930944000916 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 930944000917 outer membrane lipoprotein; Provisional; Region: spr; PRK10838 930944000918 NlpC/P60 family; Region: NLPC_P60; pfam00877 930944000919 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 930944000920 PAP2_like proteins, a super-family of histidine phosphatases and vanadium haloperoxidases, includes type 2 phosphatidic acid phosphatase or lipid phosphate phosphatase (LPP), Glucose-6-phosphatase, Phosphatidylglycerophosphatase B and bacterial acid...; Region: PAP2_like; cd01610 930944000921 active site 930944000922 Putative GTPases (G3E family) [General function prediction only]; Region: COG0523 930944000923 CobW/HypB/UreG, nucleotide-binding domain; Region: cobW; pfam02492 930944000924 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; smart00833 930944000925 DNA-binding transcriptional repressor UxuR; Provisional; Region: PRK10225 930944000926 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 930944000927 DNA-binding site [nucleotide binding]; DNA binding site 930944000928 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 930944000929 Mannitol-1-phosphate/altronate dehydrogenases [Carbohydrate transport and metabolism]; Region: MtlD; COG0246 930944000930 Mannitol dehydrogenase Rossmann domain; Region: Mannitol_dh; pfam01232 930944000931 Mannitol dehydrogenase C-terminal domain; Region: Mannitol_dh_C; pfam08125 930944000932 mannonate dehydratase; Provisional; Region: PRK03906 930944000933 mannonate dehydratase; Region: uxuA; TIGR00695 930944000934 elongation factor P; Provisional; Region: PRK04542 930944000935 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 930944000936 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 930944000937 RNA binding site [nucleotide binding]; other site 930944000938 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 930944000939 RNA binding site [nucleotide binding]; other site 930944000940 Tryptophan/tyrosine permease family; Region: Trp_Tyr_perm; cl17316 930944000941 aromatic amino acid transport protein; Region: araaP; TIGR00837 930944000942 Flagellin N-methylase; Region: FliB; cl00497 930944000943 The MopB_DMSOR-BSOR-TMAOR CD contains dimethylsulfoxide reductase (DMSOR), biotin sulfoxide reductase (BSOR), trimethylamine N-oxide reductase (TMAOR) and other related proteins. DMSOR always catalyzes the reduction of DMSO to dimethylsulfide, but its...; Region: MopB_DMSOR-BSOR-TMAOR; cd02769 930944000944 molybdopterin guanine dinucleotide-containing S/N-oxide reductases; Region: bisC_fam; TIGR00509 930944000945 molybdopterin cofactor binding site [chemical binding]; other site 930944000946 substrate binding site [chemical binding]; other site 930944000947 The MopB_DMSOR-BSOR-TMAOR CD contains dimethylsulfoxide reductase (DMSOR), biotin sulfoxide reductase (BSOR), trimethylamine N-oxide reductase (TMAOR) and other related proteins. DMSOR always catalyzes the reduction of DMSO to dimethylsulfide, but its...; Region: MopB_CT_DMSOR-BSOR-TMAOR; cd02793 930944000948 molybdopterin cofactor binding site; other site 930944000949 trimethylamine-N-oxide reductase c-type cytochrome TorC; Region: torC; TIGR02162 930944000950 cytochrome c-type protein NapC; Provisional; Region: PRK10617; cl17554 930944000951 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_19; cd04678 930944000952 nudix motif; other site 930944000953 bifunctional PTS system fructose-specific transporter subunit IIA/HPr protein; Provisional; Region: PRK11109 930944000954 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 930944000955 active site 930944000956 phosphorylation site [posttranslational modification] 930944000957 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 930944000958 dimerization domain swap beta strand [polypeptide binding]; other site 930944000959 regulatory protein interface [polypeptide binding]; other site 930944000960 active site 930944000961 regulatory phosphorylation site [posttranslational modification]; other site 930944000962 Fructose-1-phosphate kinase and related fructose-6-phosphate kinase (PfkB) [Carbohydrate transport and metabolism]; Region: FruK; COG1105 930944000963 1-phosphofructokinase (FruK), minor 6-phosphofructokinase (pfkB) and related sugar kinases. FruK plays an important role in the predominant pathway for fructose utilisation.This group also contains tagatose-6-phophate kinase, an enzyme of the tagatose...; Region: FruK_PfkB_like; cd01164 930944000964 putative substrate binding site [chemical binding]; other site 930944000965 putative ATP binding site [chemical binding]; other site 930944000966 potential frameshift: common BLAST hit: gi|332162288|ref|YP_004298865.1| PTS system fructose-specific transporter subunit IIBC 930944000967 N-terminal domain of the phosphotransferase system fructose-specific component IIB [Carbohydrate transport and metabolism]; Region: COG3925 930944000968 PTS_IIB_fructose: subunit IIB of enzyme II (EII) of the fructose-specific phosphoenolpyruvate:carbohydrate phosphotransferase system (PTS). In this system, EII (also referred to as FruAB) is a fructose-specific permease made up of two proteins (FruA and...; Region: PTS_IIB_fructose; cd05569 930944000969 active site 930944000970 P-loop; other site 930944000971 phosphorylation site [posttranslational modification] 930944000972 Phosphotransferase system, fructose-specific IIC component [Carbohydrate transport and metabolism]; Region: FruA; cl17425 930944000973 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 930944000974 DNA binding site [nucleotide binding] 930944000975 potential frameshift: common BLAST hit: gi|332162284|ref|YP_004298861.1| chaperone protein 930944000976 Gram-negative pili assembly chaperone, N-terminal domain; Region: Pili_assembly_N; pfam00345 930944000977 P pilus assembly protein, chaperone PapD [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimC; COG3121 930944000978 Gram-negative pili assembly chaperone, C-terminal domain; Region: Pili_assembly_C; pfam02753 930944000979 P pilus assembly protein, porin PapC [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimD; COG3188 930944000980 PapC N-terminal domain; Region: PapC_N; pfam13954 930944000981 Type VII secretion system (T7SS), usher protein; Region: Usher; pfam00577 930944000982 PapC C-terminal domain; Region: PapC_C; pfam13953 930944000983 endonuclease IV; Provisional; Region: PRK01060 930944000984 AP endonuclease family 2; These endonucleases play a role in DNA repair. Cleave phosphodiester bonds at apurinic or apyrimidinic sites; the alignment also contains hexulose-6-phosphate isomerases, enzymes that catalyze the epimerization of...; Region: AP2Ec; cd00019 930944000985 AP (apurinic/apyrimidinic) site pocket; other site 930944000986 DNA interaction; other site 930944000987 Metal-binding active site; metal-binding site 930944000988 Predicted membrane protein [Function unknown]; Region: COG2855 930944000989 SH3 domain of the SH3b1 type; Region: SH3_6; pfam12913 930944000990 SH3 domain of SH3b2 type; Region: SH3_7; pfam12914 930944000991 NlpC/P60 family; Region: NLPC_P60; cl17555 930944000992 putative DNA-binding transcriptional regulator; Provisional; Region: PRK10837 930944000993 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 930944000994 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 930944000995 putative dimerization interface [polypeptide binding]; other site 930944000996 lysine transporter; Provisional; Region: PRK10836 930944000997 ABC-type enterobactin transport system, permease component [Inorganic ion transport and metabolism]; Region: FepG; COG4779 930944000998 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; cl00462 930944000999 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 930944001000 ABC-ATPase subunit interface; other site 930944001001 dimer interface [polypeptide binding]; other site 930944001002 putative PBP binding regions; other site 930944001003 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 930944001004 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 930944001005 Walker A/P-loop; other site 930944001006 ATP binding site [chemical binding]; other site 930944001007 Q-loop/lid; other site 930944001008 ABC transporter signature motif; other site 930944001009 Walker B; other site 930944001010 D-loop; other site 930944001011 H-loop/switch region; other site 930944001012 putative outer membrane receptor; Provisional; Region: PRK13513 930944001013 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 930944001014 N-terminal plug; other site 930944001015 ligand-binding site [chemical binding]; other site 930944001016 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 930944001017 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 930944001018 putative C-terminal domain interface [polypeptide binding]; other site 930944001019 putative GSH binding site (G-site) [chemical binding]; other site 930944001020 putative dimer interface [polypeptide binding]; other site 930944001021 C-terminal, alpha helical domain of an unknown subfamily 2 of Glutathione S-transferases; Region: GST_C_2; cd03180 930944001022 putative N-terminal domain interface [polypeptide binding]; other site 930944001023 putative dimer interface [polypeptide binding]; other site 930944001024 putative substrate binding pocket (H-site) [chemical binding]; other site 930944001025 Phosphoserine phosphatase [Amino acid transport and metabolism]; Region: SerB; COG0560 930944001026 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 930944001027 non-haem dioxygenase in morphine synthesis N-terminal; Region: DIOX_N; pfam14226 930944001028 Isopenicillin N synthase and related dioxygenases [General function prediction only]; Region: PcbC; COG3491 930944001029 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy; pfam03171 930944001030 ABC-type metal ion transport system, periplasmic component/surface antigen [Inorganic ion transport and metabolism]; Region: NlpA; COG1464 930944001031 NLPA lipoprotein; Region: Lipoprotein_9; pfam03180 930944001032 ABC-type metal ion transport system, ATPase component [Inorganic ion transport and metabolism]; Region: AbcC; COG1135 930944001033 ATP-binding cassette domain of methionine transporter; Region: ABC_MetN_methionine_transporter; cd03258 930944001034 Walker A/P-loop; other site 930944001035 ATP binding site [chemical binding]; other site 930944001036 Q-loop/lid; other site 930944001037 ABC transporter signature motif; other site 930944001038 Walker B; other site 930944001039 D-loop; other site 930944001040 H-loop/switch region; other site 930944001041 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 930944001042 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 930944001043 dimer interface [polypeptide binding]; other site 930944001044 conserved gate region; other site 930944001045 ABC-ATPase subunit interface; other site 930944001046 Cys/Met metabolism PLP-dependent enzyme; Region: Cys_Met_Meta_PP; pfam01053 930944001047 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 930944001048 homodimer interface [polypeptide binding]; other site 930944001049 substrate-cofactor binding pocket; other site 930944001050 pyridoxal 5'-phosphate binding site [chemical binding]; other site 930944001051 catalytic residue [active] 930944001052 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 930944001053 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 930944001054 dimer interface [polypeptide binding]; other site 930944001055 pyridoxal 5'-phosphate binding site [chemical binding]; other site 930944001056 catalytic residue [active] 930944001057 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains associated with the pyridoxal-phosphate (PALP) dependent enzyme domain upstream. The vitamin B6 complex comprises pyridoxine, pyridoxal, and pyridoxamine, as well...; Region: CBS_pair_PALP_assoc2; cd04609 930944001058 FOG: CBS domain [General function prediction only]; Region: COG0517 930944001059 D-alanyl-D-alanine carboxypeptidase; Region: Peptidase_S11; pfam00768 930944001060 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 930944001061 Penicillin-binding protein 5, C-terminal domain; Region: PBP5_C; smart00936 930944001062 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 930944001063 Transposase; Region: DEDD_Tnp_IS110; pfam01548 930944001064 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 930944001065 L-serine dehydratase, iron-sulfur-dependent, single chain form; Region: sda_mono; TIGR00720 930944001066 Serine dehydratase beta chain; Region: SDH_beta; pfam03315 930944001067 Serine dehydratase alpha chain; Region: SDH_alpha; pfam03313 930944001068 Amino acid permeases [Amino acid transport and metabolism]; Region: SdaC; COG0814 930944001069 serine transporter; Region: stp; TIGR00814 930944001070 DNA-binding transcriptional repressor DeoR; Provisional; Region: PRK10681 930944001071 DeoR-like helix-turn-helix domain; Region: HTH_DeoR; pfam08220 930944001072 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 930944001073 2-deoxyribose-5-phosphate aldolase (DERA) of the DeoC family; Region: DeoC; cd00959 930944001074 intersubunit interface [polypeptide binding]; other site 930944001075 active site 930944001076 catalytic residue [active] 930944001077 PAP2_like proteins, BcrC_like subfamily. Several members of this family have been annotated as bacitracin transport permeases, as it was suspected that they form the permease component of an ABC transporter system. It was shown, however, that BcrC from...; Region: PAP2_BcrC_like; cd03385 930944001078 active site 930944001079 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 930944001080 PAP2_like_6 proteins. PAP2 is a super-family of phosphatases and haloperoxidases. This subgroup, which mainly contains bacterial proteins, lacks functional characterization and may act as a membrane-associated lipid phosphatase; Region: PAP2_like_6; cd03396 930944001081 active site 930944001082 putative transporter; Provisional; Region: PRK04972 930944001083 AspT/YidE/YbjL antiporter duplication domain; Region: YidE_YbjL_dupl; TIGR01625 930944001084 TrkA-C domain; Region: TrkA_C; pfam02080 930944001085 TrkA-C domain; Region: TrkA_C; pfam02080 930944001086 AspT/YidE/YbjL antiporter duplication domain; Region: YidE_YbjL_dupl; TIGR01625 930944001087 Glutaredoxin (GRX) family; composed of GRX, approximately 10 kDa in size, and proteins containing a GRX or GRX-like domain. GRX is a glutathione (GSH) dependent reductase, catalyzing the disulfide reduction of target proteins such as ribonucleotide...; Region: GRX_family; cd02066 930944001088 GSH binding site [chemical binding]; other site 930944001089 catalytic residues [active] 930944001090 Protein of unknown function (DUF1418); Region: DUF1418; pfam07214 930944001091 Putative bacterial sensory transduction regulator; Region: YbjN; pfam10722 930944001092 putrescine transporter subunit: periplasmic-binding component of ABC superfamily; Provisional; Region: PRK10682 930944001093 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 930944001094 putrescine transporter ATP-binding subunit; Provisional; Region: potG; PRK11607 930944001095 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 930944001096 Walker A/P-loop; other site 930944001097 ATP binding site [chemical binding]; other site 930944001098 Q-loop/lid; other site 930944001099 ABC transporter signature motif; other site 930944001100 Walker B; other site 930944001101 D-loop; other site 930944001102 H-loop/switch region; other site 930944001103 TOBE domain; Region: TOBE_2; pfam08402 930944001104 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 930944001105 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 930944001106 dimer interface [polypeptide binding]; other site 930944001107 conserved gate region; other site 930944001108 putative PBP binding loops; other site 930944001109 ABC-ATPase subunit interface; other site 930944001110 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 930944001111 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 930944001112 dimer interface [polypeptide binding]; other site 930944001113 conserved gate region; other site 930944001114 putative PBP binding loops; other site 930944001115 ABC-ATPase subunit interface; other site 930944001116 Protein of unknown function (DUF2593); Region: DUF2593; pfam10767 930944001117 23S rRNA (uracil-5-)-methyltransferase RumB; Region: meth_trns_rumB; TIGR02085 930944001118 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 930944001119 S-adenosylmethionine binding site [chemical binding]; other site 930944001120 putative ABC transporter arginine-biding protein; Provisional; Region: PRK15007 930944001121 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 930944001122 substrate binding pocket [chemical binding]; other site 930944001123 membrane-bound complex binding site; other site 930944001124 hinge residues; other site 930944001125 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 930944001126 dimer interface [polypeptide binding]; other site 930944001127 conserved gate region; other site 930944001128 putative PBP binding loops; other site 930944001129 ABC-ATPase subunit interface; other site 930944001130 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 930944001131 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 930944001132 dimer interface [polypeptide binding]; other site 930944001133 conserved gate region; other site 930944001134 putative PBP binding loops; other site 930944001135 ABC-ATPase subunit interface; other site 930944001136 putative ABC transporter arginine-biding protein; Provisional; Region: PRK15007 930944001137 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 930944001138 substrate binding pocket [chemical binding]; other site 930944001139 membrane-bound complex binding site; other site 930944001140 hinge residues; other site 930944001141 arginine transporter ATP-binding subunit; Provisional; Region: artP; PRK11124 930944001142 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 930944001143 Walker A/P-loop; other site 930944001144 ATP binding site [chemical binding]; other site 930944001145 Q-loop/lid; other site 930944001146 ABC transporter signature motif; other site 930944001147 Walker B; other site 930944001148 D-loop; other site 930944001149 H-loop/switch region; other site 930944001150 putative lipoprotein; Provisional; Region: PRK10533 930944001151 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 930944001152 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 930944001153 NAD(P) binding site [chemical binding]; other site 930944001154 active site 930944001155 Predicted nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG0702 930944001156 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 930944001157 NAD(P) binding site [chemical binding]; other site 930944001158 active site 930944001159 Threonine aldolase [Amino acid transport and metabolism]; Region: GLY1; COG2008 930944001160 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 930944001161 tetramer interface [polypeptide binding]; other site 930944001162 pyridoxal 5'-phosphate binding site [chemical binding]; other site 930944001163 catalytic residue [active] 930944001164 O-Methyltransferase involved in polyketide biosynthesis [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3315 930944001165 Leucine carboxyl methyltransferase; Region: LCM; cl01306 930944001166 pyruvate dehydrogenase; Provisional; Region: PRK09124 930944001167 Pyrimidine (PYR) binding domain of POX; Region: TPP_PYR_POX; cd07039 930944001168 PYR/PP interface [polypeptide binding]; other site 930944001169 dimer interface [polypeptide binding]; other site 930944001170 tetramer interface [polypeptide binding]; other site 930944001171 TPP binding site [chemical binding]; other site 930944001172 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 930944001173 Thiamine pyrophosphate (TPP) family, Pyruvate oxidase (POX) subfamily, TPP-binding module; composed of proteins similar to Lactobacillus plantarum POX, which plays a key role in controlling acetate production under aerobic conditions. POX decarboxylates...; Region: TPP_POX; cd02014 930944001174 TPP-binding site [chemical binding]; other site 930944001175 HCP oxidoreductase, NADH-dependent; Provisional; Region: PRK10684 930944001176 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 930944001177 FAD binding pocket [chemical binding]; other site 930944001178 FAD binding motif [chemical binding]; other site 930944001179 phosphate binding motif [ion binding]; other site 930944001180 beta-alpha-beta structure motif; other site 930944001181 NAD binding pocket [chemical binding]; other site 930944001182 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 930944001183 catalytic loop [active] 930944001184 iron binding site [ion binding]; other site 930944001185 hybrid cluster protein; Provisional; Region: PRK05290 930944001186 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 930944001187 ACS interaction site; other site 930944001188 CODH interaction site; other site 930944001189 Hybrid cluster protein (HCP), formerly known as prismane, is thought to play a role in nitrogen metabolism but its specific function is unknown. HCP has three structural domains, an N-terminal alpha-helical domain, and two similar domains comprising a...; Region: HCP; cd01914 930944001190 hybrid metal cluster; other site 930944001191 Predicted membrane protein [Function unknown]; Region: COG2431 930944001192 Predicted ATP-dependent endonuclease of the OLD family [DNA replication, recombination, and repair]; Region: COG3593 930944001193 Protein of unknown function (DUF2813); Region: DUF2813; pfam11398 930944001194 TOPRIM_OLD: topoisomerase-primase (TOPRIM) nucleotidyl transferase/hydrolase domain of the type found in bacterial and archaeal nucleases of the OLD (overcome lysogenization defect) family. The bacteriophage P2 OLD protein, which has DNase as well as...; Region: TOPRIM_OLD; cd01026 930944001195 putative active site [active] 930944001196 putative metal-binding site [ion binding]; other site 930944001197 Protein of unknown function (DUF535); Region: DUF535; pfam04393 930944001198 macrolide transporter subunit MacA; Provisional; Region: PRK11578 930944001199 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 930944001200 HlyD family secretion protein; Region: HlyD_3; pfam13437 930944001201 macrolide transporter ATP-binding /permease protein; Provisional; Region: PRK10535 930944001202 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 930944001203 Walker A/P-loop; other site 930944001204 ATP binding site [chemical binding]; other site 930944001205 Q-loop/lid; other site 930944001206 ABC transporter signature motif; other site 930944001207 Walker B; other site 930944001208 D-loop; other site 930944001209 H-loop/switch region; other site 930944001210 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 930944001211 FtsX-like permease family; Region: FtsX; pfam02687 930944001212 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 930944001213 DNA-binding site [nucleotide binding]; DNA binding site 930944001214 RNA-binding motif; other site 930944001215 ATP-dependent Clp protease adaptor protein ClpS; Reviewed; Region: clpS; PRK00033 930944001216 ATP-dependent Clp protease ATP-binding subunit; Provisional; Region: clpA; PRK11034 930944001217 Clp amino terminal domain; Region: Clp_N; pfam02861 930944001218 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 930944001219 Walker A motif; other site 930944001220 ATP binding site [chemical binding]; other site 930944001221 Walker B motif; other site 930944001222 arginine finger; other site 930944001223 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 930944001224 Walker A motif; other site 930944001225 ATP binding site [chemical binding]; other site 930944001226 Walker B motif; other site 930944001227 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 930944001228 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 930944001229 rRNA binding site [nucleotide binding]; other site 930944001230 predicted 30S ribosome binding site; other site 930944001231 leucyl/phenylalanyl-tRNA--protein transferase; Reviewed; Region: aat; PRK00301 930944001232 cysteine/glutathione ABC transporter membrane/ATP-binding component; Reviewed; Region: PRK11160 930944001233 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 930944001234 Walker A/P-loop; other site 930944001235 ATP binding site [chemical binding]; other site 930944001236 Q-loop/lid; other site 930944001237 ABC transporter signature motif; other site 930944001238 Walker B; other site 930944001239 D-loop; other site 930944001240 H-loop/switch region; other site 930944001241 cysteine/glutathione ABC transporter membrane/ATP-binding component; Reviewed; Region: PRK11174 930944001242 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 930944001243 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 930944001244 Walker A/P-loop; other site 930944001245 ATP binding site [chemical binding]; other site 930944001246 Q-loop/lid; other site 930944001247 ABC transporter signature motif; other site 930944001248 Walker B; other site 930944001249 D-loop; other site 930944001250 H-loop/switch region; other site 930944001251 thioredoxin reductase; Provisional; Region: PRK10262 930944001252 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 930944001253 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 930944001254 leucine-responsive transcriptional regulator; Provisional; Region: PRK11169 930944001255 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 930944001256 putative DNA binding site [nucleotide binding]; other site 930944001257 putative Zn2+ binding site [ion binding]; other site 930944001258 AsnC family; Region: AsnC_trans_reg; pfam01037 930944001259 Domain of unknown function (DUF4117); Region: DUF4117; pfam13491 930944001260 DNA translocase FtsK; Provisional; Region: PRK10263 930944001261 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 930944001262 Ftsk gamma domain; Region: Ftsk_gamma; pfam09397 930944001263 lipoprotein chaperone; Reviewed; Region: lolA; PRK00031 930944001264 Outer membrane lipoprotein carrier protein LolA; Region: LolA; cl17548 930944001265 recombination factor protein RarA; Reviewed; Region: PRK13342 930944001266 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 930944001267 Walker A motif; other site 930944001268 ATP binding site [chemical binding]; other site 930944001269 Walker B motif; other site 930944001270 arginine finger; other site 930944001271 MgsA AAA+ ATPase C terminal; Region: MgsA_C; pfam12002 930944001272 seryl-tRNA synthetase; Provisional; Region: PRK05431 930944001273 Seryl-tRNA synthetase N-terminal domain; Region: Seryl_tRNA_N; pfam02403 930944001274 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 930944001275 dimer interface [polypeptide binding]; other site 930944001276 active site 930944001277 motif 1; other site 930944001278 motif 2; other site 930944001279 motif 3; other site 930944001280 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 930944001281 Transposase; Region: DEDD_Tnp_IS110; pfam01548 930944001282 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 930944001283 Transposase, Mutator family; Region: Transposase_mut; pfam00872 930944001284 MULE transposase domain; Region: MULE; pfam10551 930944001285 putative MFS family transporter protein; Provisional; Region: PRK03633 930944001286 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 930944001287 putative substrate translocation pore; other site 930944001288 pyruvate formate lyase-activating enzyme 1; Provisional; Region: pflA; PRK11145 930944001289 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 930944001290 FeS/SAM binding site; other site 930944001291 formate acetyltransferase 1; Region: pyr_form_ly_1; TIGR01255 930944001292 Pyruvate formate lyase 1; Region: PFL1; cd01678 930944001293 coenzyme A binding site [chemical binding]; other site 930944001294 active site 930944001295 catalytic residues [active] 930944001296 glycine loop; other site 930944001297 formate transporter; Provisional; Region: PRK10805 930944001298 Yersinia protein of unknown function (DUF3831); Region: DUF3831; pfam12908 930944001299 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 930944001300 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 930944001301 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 930944001302 Transposase; Region: DEDD_Tnp_IS110; pfam01548 930944001303 uncharacterized domain; Region: TIGR00702 930944001304 YcaO-like family; Region: YcaO; pfam02624 930944001305 potential frameshift: common BLAST hit: gi|332162211|ref|YP_004298788.1| L-asparaginase II 930944001306 Bacterial L-asparaginases and related enzymes; Region: L-asparaginase_like; cl00216 930944001307 Type II (periplasmic) bacterial L-asparaginase; Region: L-asparaginase_II; cd08964 930944001308 homotetramer interface [polypeptide binding]; other site 930944001309 homodimer interface [polypeptide binding]; other site 930944001310 Predicted membrane protein [Function unknown]; Region: COG2323 930944001311 Phosphoserine aminotransferase (PSAT) family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major group in this CD corresponds to phosphoserine aminotransferase (PSAT). PSAT is active as...; Region: PSAT_like; cd00611 930944001312 homodimer interface [polypeptide binding]; other site 930944001313 pyridoxal 5'-phosphate binding site [chemical binding]; other site 930944001314 substrate-cofactor binding pocket; other site 930944001315 catalytic residue [active] 930944001316 3-phosphoshikimate 1-carboxyvinyltransferase; Provisional; Region: PRK02427 930944001317 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 930944001318 hinge; other site 930944001319 active site 930944001320 cytidylate kinase; Provisional; Region: cmk; PRK00023 930944001321 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 930944001322 CMP-binding site; other site 930944001323 The sites determining sugar specificity; other site 930944001324 30S ribosomal protein S1; Reviewed; Region: rpsA; PRK06299 930944001325 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 930944001326 RNA binding site [nucleotide binding]; other site 930944001327 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 930944001328 RNA binding site [nucleotide binding]; other site 930944001329 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 930944001330 RNA binding site [nucleotide binding]; other site 930944001331 S1_RPS1_repeat_ec4: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture consists...; Region: S1_RPS1_repeat_ec4; cd05689 930944001332 RNA binding site [nucleotide binding]; other site 930944001333 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 930944001334 RNA binding site [nucleotide binding]; other site 930944001335 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 930944001336 RNA binding site [nucleotide binding]; other site 930944001337 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 930944001338 IHF dimer interface [polypeptide binding]; other site 930944001339 IHF - DNA interface [nucleotide binding]; other site 930944001340 ComEC family competence protein; Provisional; Region: PRK11539 930944001341 Domain of unknown function (DUF4131); Region: DUF4131; pfam13567 930944001342 Competence protein; Region: Competence; pfam03772 930944001343 Metallo-beta-lactamase superfamily; Region: Lactamase_B; pfam00753 930944001344 lipid transporter ATP-binding/permease protein; Provisional; Region: PRK11176 930944001345 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 930944001346 ATP-binding cassette domain of the bacterial lipid flippase and related proteins, subfamily C; Region: ABCC_MsbA; cd03251 930944001347 Walker A/P-loop; other site 930944001348 ATP binding site [chemical binding]; other site 930944001349 Q-loop/lid; other site 930944001350 ABC transporter signature motif; other site 930944001351 Walker B; other site 930944001352 D-loop; other site 930944001353 H-loop/switch region; other site 930944001354 tetraacyldisaccharide 4'-kinase; Reviewed; Region: lpxK; PRK00652 930944001355 Tetraacyldisaccharide-1-P 4'-kinase [Cell envelope biogenesis, outer membrane]; Region: LpxK; COG1663 930944001356 Domain of unknown function (DUF1338); Region: DUF1338; pfam07063 930944001357 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5383 930944001358 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 930944001359 DNA-binding site [nucleotide binding]; DNA binding site 930944001360 RNA-binding motif; other site 930944001361 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 930944001362 DNA-binding site [nucleotide binding]; DNA binding site 930944001363 RNA-binding motif; other site 930944001364 Trm112p-like protein; Region: Trm112p; cl01066 930944001365 3-deoxy-manno-octulosonate cytidylyltransferase; Provisional; Region: PRK05450 930944001366 CMP-KDO synthetase catalyzes the activation of KDO which is an essential component of the lipopolysaccharide; Region: CMP-KDO-Synthetase; cd02517 930944001367 Ligand binding site; other site 930944001368 oligomer interface; other site 930944001369 hypothetical protein; Provisional; Region: PRK10593 930944001370 Uncharacterized conserved protein [Function unknown]; Region: COG1434 930944001371 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 930944001372 putative active site [active] 930944001373 Methyltransferase domain; Region: Methyltransf_31; pfam13847 930944001374 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 930944001375 S-adenosylmethionine binding site [chemical binding]; other site 930944001376 condesin subunit F; Provisional; Region: PRK05260 930944001377 condesin subunit E; Provisional; Region: PRK05256 930944001378 cell division protein MukB; Provisional; Region: mukB; PRK04863 930944001379 MukB N-terminal; Region: MukB; pfam04310 930944001380 Putative exonuclease SbcCD, C subunit; Region: SbcCD_C; pfam13558 930944001381 murein L,D-transpeptidase; Provisional; Region: PRK10594 930944001382 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 930944001383 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 930944001384 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 930944001385 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3108 930944001386 Peptidase M15; Region: Peptidase_M15_3; cl01194 930944001387 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 930944001388 CSS motif domain associated with EAL; Region: CSS-motif; pfam12792 930944001389 phage resistance protein; Provisional; Region: PRK10551 930944001390 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 930944001391 aromatic amino acid aminotransferase; Provisional; Region: PRK09257 930944001392 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 930944001393 pyridoxal 5'-phosphate binding site [chemical binding]; other site 930944001394 homodimer interface [polypeptide binding]; other site 930944001395 catalytic residue [active] 930944001396 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 930944001397 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 930944001398 trimer interface [polypeptide binding]; other site 930944001399 eyelet of channel; other site 930944001400 asparaginyl-tRNA synthetase; Validated; Region: asnC; PRK03932 930944001401 EcAsnRS_like_N: N-terminal, anticodon recognition domain of the type found in Escherichia coli asparaginyl-tRNA synthetase (AsnRS) and, in Arabidopsis thaliana and Saccharomyces cerevisiae mitochondrial (mt) AsnRS. This domain is a beta-barrel domain (OB...; Region: EcAsnRS_like_N; cd04318 930944001402 putative dimer interface [polypeptide binding]; other site 930944001403 putative anticodon binding site; other site 930944001404 Asx tRNA synthetase (AspRS/AsnRS) class II core domain. Assignment to class II aminoacyl-tRNA synthetases (aaRS) based upon its structure and the presence of three characteristic sequence motifs in the core domain. This family includes AsnRS as well as...; Region: AsxRS_core; cd00776 930944001405 homodimer interface [polypeptide binding]; other site 930944001406 motif 1; other site 930944001407 motif 2; other site 930944001408 active site 930944001409 motif 3; other site 930944001410 nicotinate phosphoribosyltransferase; Region: NAPRTase; TIGR01514 930944001411 Nicotinate phosphoribosyltransferase (NAPRTase), related to PncB. Nicotinate phosphoribosyltransferase catalyses the formation of NAMN and PPi from 5-phosphoribosy -1-pyrophosphate (PRPP) and nicotinic acid, this is the first, and also rate limiting; Region: PncB_like; cd01401 930944001412 active site 930944001413 aminopeptidase N; Provisional; Region: pepN; PRK14015 930944001414 Peptidase M1 family containing Aminopeptidase N; Region: M1_APN_1; cd09600 930944001415 active site 930944001416 Zn binding site [ion binding]; other site 930944001417 dihydroorotate dehydrogenase 2; Reviewed; Region: PRK05286 930944001418 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 930944001419 quinone interaction residues [chemical binding]; other site 930944001420 active site 930944001421 catalytic residues [active] 930944001422 FMN binding site [chemical binding]; other site 930944001423 substrate binding site [chemical binding]; other site 930944001424 Protein of unknown function (DUF1379); Region: DUF1379; pfam07126 930944001425 Uncharacterized Fe-S protein [General function prediction only]; Region: COG3217 930944001426 MOSC N-terminal beta barrel domain; Region: MOSC_N; pfam03476 930944001427 MOSC domain; Region: MOSC; pfam03473 930944001428 Ferredoxin [Energy production and conversion]; Region: Fdx; COG0633 930944001429 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 930944001430 catalytic loop [active] 930944001431 iron binding site [ion binding]; other site 930944001432 23S rRNA m(2)G2445 methyltransferase; Provisional; Region: rlmL; PRK11783 930944001433 THUMP domain associated with S-adenosylmethionine-dependent methyltransferases; Region: THUMP_AdoMetMT; cd11715 930944001434 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 930944001435 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 930944001436 S-adenosylmethionine binding site [chemical binding]; other site 930944001437 ABC transporter ATPase component; Reviewed; Region: PRK11147 930944001438 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 930944001439 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 930944001440 Walker A/P-loop; other site 930944001441 Walker A/P-loop; other site 930944001442 ATP binding site [chemical binding]; other site 930944001443 ATP binding site [chemical binding]; other site 930944001444 Q-loop/lid; other site 930944001445 Q-loop/lid; other site 930944001446 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 930944001447 ABC transporter signature motif; other site 930944001448 Walker B; other site 930944001449 D-loop; other site 930944001450 ABC transporter; Region: ABC_tran_2; pfam12848 930944001451 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 930944001452 paraquat-inducible membrane protein A; Provisional; Region: PRK15103 930944001453 Paraquat-inducible protein A; Region: PqiA; pfam04403 930944001454 Paraquat-inducible protein A; Region: PqiA; pfam04403 930944001455 paraquat-inducible protein B; Provisional; Region: PRK10807 930944001456 mce related protein; Region: MCE; pfam02470 930944001457 mce related protein; Region: MCE; pfam02470 930944001458 mce related protein; Region: MCE; pfam02470 930944001459 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3009 930944001460 Protein of unknown function (DUF330); Region: DUF330; pfam03886 930944001461 Ribosome modulation factor; Region: RMF; pfam04957 930944001462 3-oxoacyl-(acyl carrier protein) synthase II; Reviewed; Region: PRK06333 930944001463 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 930944001464 dimer interface [polypeptide binding]; other site 930944001465 active site 930944001466 Predicted transcriptional regulators [Transcription]; Region: COG1733 930944001467 HxlR-like helix-turn-helix; Region: HxlR; pfam01638 930944001468 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 930944001469 active site 2 [active] 930944001470 dimer interface [polypeptide binding]; other site 930944001471 active site 1 [active] 930944001472 Predicted ATP-dependent protease [Posttranslational modification, protein turnover, chaperones]; Region: LonB; COG1067 930944001473 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 930944001474 Ter macrodomain organizer matS-binding protein; Provisional; Region: PRK05097 930944001475 outer membrane protein A; Reviewed; Region: PRK10808 930944001476 OmpA-like transmembrane domain; Region: OmpA_membrane; pfam01389 930944001477 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 930944001478 ligand binding site [chemical binding]; other site 930944001479 SOS cell division inhibitor; Provisional; Region: PRK10595 930944001480 TfoX N-terminal domain; Region: TfoX_N; pfam04993 930944001481 TfoX C-terminal domain; Region: TfoX_C; pfam04994 930944001482 TIGR01666 family membrane protein; Region: YCCS 930944001483 FUSC-like inner membrane protein yccS; Region: FUSC-like; pfam12805 930944001484 Fusaric acid resistance protein-like; Region: FUSC_2; pfam13515 930944001485 Predicted membrane protein [Function unknown]; Region: COG3304 930944001486 Domain of unknown function (DUF307); Region: DUF307; pfam03733 930944001487 DNA helicase IV; Provisional; Region: helD; PRK11054 930944001488 DNA helicase IV / RNA helicase N terminal; Region: Nucleolin_N; pfam12462 930944001489 Part of AAA domain; Region: AAA_19; pfam13245 930944001490 Family description; Region: UvrD_C_2; pfam13538 930944001491 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 930944001492 active site 930944001493 dimer interfaces [polypeptide binding]; other site 930944001494 catalytic residues [active] 930944001495 hypothetical protein; Provisional; Region: PRK03641 930944001496 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3110 930944001497 Predicted CoA-binding protein [General function prediction only]; Region: COG1832 930944001498 heat shock protein HspQ; Provisional; Region: PRK14129 930944001499 23S rRNA m(5)C1962 methyltransferase; Provisional; Region: PRK15128 930944001500 Putative RNA-binding Domain in PseudoUridine synthase and Archaeosine transglycosylase; Region: PUA; smart00359 930944001501 Middle domain of the SAM-dependent methyltransferase RlmI and related proteins; Region: RlmI_M_like; cd11572 930944001502 putative RNA binding site [nucleotide binding]; other site 930944001503 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 930944001504 S-adenosylmethionine binding site [chemical binding]; other site 930944001505 Protein of unknown function (DUF1622); Region: DUF1622; pfam07784 930944001506 acylphosphatase; Provisional; Region: PRK14426 930944001507 Dissimilatory sulfite reductase (desulfoviridin), gamma subunit [Inorganic ion transport and metabolism]; Region: DsrC; COG2920 930944001508 sulfur relay protein, TusE/DsrC/DsvC family; Region: dsrC_tusE_dsvC; TIGR03342 930944001509 cytochrome c nitrite reductase subunit c552; Provisional; Region: nrfA; PRK11125 930944001510 cytochrome c nitrite reductase, pentaheme subunit; Region: cyt_nit_nrfB; TIGR03146 930944001511 cytochrome c nitrite reductase, Fe-S protein; Region: cyt_nit_nrfC; TIGR03149 930944001512 cytochrome c nitrite reductase, NrfD subunit; Region: cyt_nit_nrfD; TIGR03148 930944001513 Polysulphide reductase, NrfD; Region: NrfD; pfam03916 930944001514 Cytochrome C assembly protein; Region: Cytochrom_C_asm; cl00504 930944001515 periplasmic protein thiol:disulfide oxidoreductases, DsbE subfamily; Region: dsbE; TIGR00385 930944001516 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 930944001517 catalytic residues [active] 930944001518 central insert; other site 930944001519 Cytochrome C biogenesis protein; Region: CcmH; cl01179 930944001520 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 930944001521 binding surface 930944001522 TPR motif; other site 930944001523 Autoinducer binding domain; Region: Autoind_bind; pfam03472 930944001524 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 930944001525 DNA binding residues [nucleotide binding] 930944001526 dimerization interface [polypeptide binding]; other site 930944001527 Autoinducer synthetase; Region: Autoind_synth; pfam00765 930944001528 potential frameshift: common BLAST hit: gi|123441910|ref|YP_001005893.1| exported membrane protein 930944001529 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 930944001530 potassium/proton antiporter; Reviewed; Region: PRK05326 930944001531 TrkA-C domain; Region: TrkA_C; pfam02080 930944001532 Transporter associated domain; Region: CorC_HlyC; smart01091 930944001533 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 930944001534 Transposase; Region: DEDD_Tnp_IS110; pfam01548 930944001535 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 930944001536 glucans biosynthesis protein; Provisional; Region: opgC; PRK03854 930944001537 Acyltransferase family; Region: Acyl_transf_3; pfam01757 930944001538 glucan biosynthesis protein G; Provisional; Region: mdoG; PRK13274 930944001539 Periplasmic glucan biosynthesis protein, MdoG; Region: MdoG; cl15433 930944001540 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 930944001541 Glucan_BSP_ModH catalyzes the elongation of beta-1,2 polyglucose chains of glucan; Region: Glucan_BSP_ModH; cd04191 930944001542 Ligand binding site; other site 930944001543 DXD motif; other site 930944001544 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 930944001545 Transposase; Region: DEDD_Tnp_IS110; pfam01548 930944001546 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 930944001547 amino acid/peptide transporter (Peptide:H+ symporter), bacterial; Region: yjdL_sub1_fam; TIGR00924 930944001548 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 930944001549 putative substrate translocation pore; other site 930944001550 POT family; Region: PTR2; cl17359 930944001551 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 930944001552 putative substrate translocation pore; other site 930944001553 DoxX; Region: DoxX; pfam07681 930944001554 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 930944001555 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 930944001556 Bacterial lipid A biosynthesis acyltransferase; Region: Lip_A_acyltrans; pfam03279 930944001557 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 930944001558 putative acyl-acceptor binding pocket; other site 930944001559 Response regulator [Signal transduction mechanisms]; Region: TtrR; COG4566 930944001560 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 930944001561 active site 930944001562 phosphorylation site [posttranslational modification] 930944001563 intermolecular recognition site; other site 930944001564 dimerization interface [polypeptide binding]; other site 930944001565 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 930944001566 DNA binding residues [nucleotide binding] 930944001567 dimerization interface [polypeptide binding]; other site 930944001568 ABC transporter, phosphonate, periplasmic substrate-binding protein; Region: Phosphonate-bd; pfam12974 930944001569 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 930944001570 dimer interface [polypeptide binding]; other site 930944001571 phosphorylation site [posttranslational modification] 930944001572 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 930944001573 ATP binding site [chemical binding]; other site 930944001574 Mg2+ binding site [ion binding]; other site 930944001575 G-X-G motif; other site 930944001576 tetrathionate reductase subunit B; Provisional; Region: PRK14993 930944001577 4Fe-4S binding domain; Region: Fer4; pfam00037 930944001578 tetrathionate reductase subunit C; Provisional; Region: PRK14992 930944001579 tetrathionate reductase subunit A; Provisional; Region: PRK14991 930944001580 The MopB_Tetrathionate-Ra CD contains tetrathionate reductase, subunit A, (TtrA) and other related proteins. The Salmonella enterica tetrathionate reductase catalyses the reduction of trithionate but not sulfur or thiosulfate. Members of this CD belong...; Region: MopB_Tetrathionate-Ra; cd02758 930944001581 putative [Fe4-S4] binding site [ion binding]; other site 930944001582 putative molybdopterin cofactor binding site [chemical binding]; other site 930944001583 This CD contains the molybdopterin_binding C-terminal (MopB_CT) region of tetrathionate reductase, subunit A, (TtrA); respiratory arsenate As(V) reductase, catalytic subunit (ArrA); and other related proteins; Region: MopB_CT_Tetrathionate_Arsenate-R; cd02780 930944001584 putative molybdopterin cofactor binding site; other site 930944001585 putative rhodanese-related sulfurtransferase; Provisional; Region: PRK00142 930944001586 Member of the Rhodanese Homology Domain superfamily. This CD includes Escherichia coli YceA, Bacillus subtilis YbfQ, and similar uncharacterized proteins; Region: RHOD_YceA; cd01518 930944001587 active site residue [active] 930944001588 pheromone autoinducer 2 transporter; Reviewed; Region: tqsA; PRK12287 930944001589 Domain of unknown function DUF20; Region: UPF0118; pfam01594 930944001590 colanic acid capsular biosynthesis activation protein A; Provisional; Region: rcsA; PRK15411 930944001591 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 930944001592 DNA binding residues [nucleotide binding] 930944001593 dimerization interface [polypeptide binding]; other site 930944001594 N-methyltryptophan oxidase; Provisional; Region: solA; PRK11259 930944001595 biofilm formation regulatory protein BssS; Reviewed; Region: bssS; PRK12301 930944001596 DNA damage-inducible protein I; Provisional; Region: PRK10597 930944001597 Dihydroorotase (DHOase) catalyzes the reversible interconversion of carbamoyl aspartate to dihydroorotate, a key reaction in the pyrimidine biosynthesis. In contrast to the large polyfunctional CAD proteins of higher organisms, this group of DHOases is...; Region: DHOase; cd01294 930944001598 active site 930944001599 substrate binding pocket [chemical binding]; other site 930944001600 dimer interface [polypeptide binding]; other site 930944001601 Uncharacterized conserved protein [Function unknown]; Region: COG1359 930944001602 Ribonucleases G and E [Translation, ribosomal structure and biogenesis]; Region: CafA; COG1530 930944001603 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 930944001604 homodimer interface [polypeptide binding]; other site 930944001605 oligonucleotide binding site [chemical binding]; other site 930944001606 23S rRNA pseudouridylate synthase C; Provisional; Region: PRK11025 930944001607 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 930944001608 RNA binding surface [nucleotide binding]; other site 930944001609 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 930944001610 active site 930944001611 Maf-like protein; Region: Maf; pfam02545 930944001612 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 930944001613 active site 930944001614 dimer interface [polypeptide binding]; other site 930944001615 hypothetical protein; Provisional; Region: PRK11193 930944001616 50S ribosomal protein L32; Validated; Region: rpmF; PRK01110 930944001617 putative phosphate acyltransferase; Provisional; Region: PRK05331 930944001618 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK09352 930944001619 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 930944001620 dimer interface [polypeptide binding]; other site 930944001621 active site 930944001622 CoA binding pocket [chemical binding]; other site 930944001623 (acyl-carrier-protein) S-malonyltransferase [Lipid metabolism]; Region: FabD; COG0331 930944001624 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 930944001625 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 930944001626 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 930944001627 NAD(P) binding site [chemical binding]; other site 930944001628 homotetramer interface [polypeptide binding]; other site 930944001629 homodimer interface [polypeptide binding]; other site 930944001630 active site 930944001631 acyl carrier protein; Provisional; Region: acpP; PRK00982 930944001632 3-oxoacyl-(acyl carrier protein) synthase II; Reviewed; Region: PRK07314 930944001633 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 930944001634 dimer interface [polypeptide binding]; other site 930944001635 active site 930944001636 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 930944001637 ADCL_like: 4-Amino-4-deoxychorismate lyase: is a member of the fold-type IV of PLP dependent enzymes that converts 4-amino-4-deoxychorismate (ADC) to p-aminobenzoate and pyruvate. Based on the information available from the crystal structure, most...; Region: ADCL_like; cd01559 930944001638 pyridoxal 5'-phosphate binding site [chemical binding]; other site 930944001639 catalytic residue [active] 930944001640 Aminodeoxychorismate lyase [Coenzyme transport and metabolism]; Region: COG1559 930944001641 proteins similar to Escherichia coli yceG; Region: yceG_like; cd08010 930944001642 dimerization interface [polypeptide binding]; other site 930944001643 thymidylate kinase; Validated; Region: tmk; PRK00698 930944001644 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 930944001645 TMP-binding site; other site 930944001646 ATP-binding site [chemical binding]; other site 930944001647 DNA polymerase III subunit delta'; Validated; Region: PRK07993 930944001648 DNA polymerase III subunit delta'; Validated; Region: PRK08485 930944001649 DNA polymerase III, delta subunit, C terminal; Region: DNApol3-delta_C; pfam09115 930944001650 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 930944001651 active site 930944001652 PTS system glucose-specific transporter subunits IIBC; Provisional; Region: PRK11089 930944001653 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 930944001654 PTS_IIB, PTS system, glucose/sucrose specific IIB subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIB_glc; cd00212 930944001655 active site turn [active] 930944001656 phosphorylation site [posttranslational modification] 930944001657 Aspartyl protease; Region: Asp_protease_2; pfam13650 930944001658 inhibitor binding site; inhibition site 930944001659 catalytic motif [active] 930944001660 Catalytic residue [active] 930944001661 Active site flap [active] 930944001662 Aspartyl protease; Region: Asp_protease_2; pfam13650 930944001663 inhibitor binding site; inhibition site 930944001664 catalytic motif [active] 930944001665 Catalytic residue [active] 930944001666 Active site flap [active] 930944001667 ABC-type bacteriocin/lantibiotic exporters, contain an N-terminal double-glycine peptidase domain [Defense mechanisms]; Region: SunT; COG2274 930944001668 A sub-family of peptidase family C39. Peptidase family C39 mostly contains bacteriocin-processing endopeptidases from bacteria. The cysteine peptidases in family C39 cleave the "double-glycine" leader peptides from the precursors of various...; Region: Peptidase_C39C; cd02419 930944001669 putative active site [active] 930944001670 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 930944001671 ATP-binding cassette domain of PrtD, subfamily C; Region: ABCC_Protease_Secretion; cd03246 930944001672 Walker A/P-loop; other site 930944001673 ATP binding site [chemical binding]; other site 930944001674 Q-loop/lid; other site 930944001675 ABC transporter signature motif; other site 930944001676 Walker B; other site 930944001677 D-loop; other site 930944001678 H-loop/switch region; other site 930944001679 type I secretion membrane fusion protein, HlyD family; Region: type_I_hlyD; TIGR01843 930944001680 HlyD family secretion protein; Region: HlyD_3; pfam13437 930944001681 radical SAM/SPASM domain, FxsB family; Region: SAM_SPASM_FxsB; TIGR04269 930944001682 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 930944001683 FeS/SAM binding site; other site 930944001684 ABC-type uncharacterized transport system, periplasmic component [General function prediction only]; Region: COG4533 930944001685 Sugar transport-related sRNA regulator N-term; Region: SgrR_N; pfam12793 930944001686 The C-terminal solute-binding domain of DNA-binding transcriptional regulator SgrR is related to the ABC-type oligopeptide-binding proteins and contains the type 2 periplasmic-binding fold; Region: PBP2_SgrR_like; cd08507 930944001687 shikimate 5-dehydrogenase; Reviewed; Region: PRK12550 930944001688 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 930944001689 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 930944001690 shikimate binding site; other site 930944001691 NAD(P) binding site [chemical binding]; other site 930944001692 Protein Kinase C Interacting protein related (PKCI): PKCI and related proteins belong to the ubiquitous HIT family of hydrolases that act on alpha-phosphates of ribonucleotides. The members of this subgroup have a conserved HxHxHxx motif (x is a...; Region: PKCI_related; cd01276 930944001693 nucleotide binding site/active site [active] 930944001694 HIT family signature motif; other site 930944001695 catalytic residue [active] 930944001696 Predicted periplasmic lipoprotein [General function prediction only]; Region: COG5633 930944001697 Putative periplasmic lipoprotein; Region: DUF1425; cd09030 930944001698 putative dimer interface [polypeptide binding]; other site 930944001699 Collagen-binding surface adhesin SpaP (antigen I/II family) [General function prediction only]; Region: FlgN; COG3417 930944001700 thiamine kinase; Region: ycfN_thiK; TIGR02721 930944001701 active site 930944001702 substrate binding site [chemical binding]; other site 930944001703 ATP binding site [chemical binding]; other site 930944001704 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 930944001705 Beta-glucosidase-related glycosidases [Carbohydrate transport and metabolism]; Region: BglX; COG1472 930944001706 beta-hexosaminidase; Provisional; Region: PRK05337 930944001707 hypothetical protein; Provisional; Region: PRK04940 930944001708 NADH dehydrogenase, FAD-containing subunit [Energy production and conversion]; Region: Ndh; COG1252 930944001709 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 930944001710 hypothetical protein; Provisional; Region: PRK11280 930944001711 transcription-repair coupling factor; Provisional; Region: PRK10689 930944001712 CarD-like/TRCF domain; Region: CarD_TRCF; smart01058 930944001713 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 930944001714 ATP binding site [chemical binding]; other site 930944001715 putative Mg++ binding site [ion binding]; other site 930944001716 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 930944001717 nucleotide binding region [chemical binding]; other site 930944001718 ATP-binding site [chemical binding]; other site 930944001719 This domain is found in proteins necessary for strand-specific repair in DNA such as TRCF in Escherichia coli; Region: TRCF; smart00982 930944001720 outer membrane-specific lipoprotein transporter subunit LolC; Provisional; Region: PRK10814 930944001721 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 930944001722 FtsX-like permease family; Region: FtsX; pfam02687 930944001723 lipoprotein transporter ATP-binding subunit; Provisional; Region: lolD; PRK11629 930944001724 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 930944001725 Walker A/P-loop; other site 930944001726 ATP binding site [chemical binding]; other site 930944001727 Q-loop/lid; other site 930944001728 ABC transporter signature motif; other site 930944001729 Walker B; other site 930944001730 D-loop; other site 930944001731 H-loop/switch region; other site 930944001732 outer membrane-specific lipoprotein transporter subunit LolE; Provisional; Region: PRK11146 930944001733 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 930944001734 FtsX-like permease family; Region: FtsX; pfam02687 930944001735 fructokinase; Reviewed; Region: PRK09557 930944001736 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 930944001737 nucleotide binding site [chemical binding]; other site 930944001738 NAD-dependent deacetylase; Provisional; Region: PRK00481 930944001739 SIRT5_Af1_CobB: Eukaryotic, archaeal and prokaryotic group (class3) which includes human sirtuin SIRT5, Archaeoglobus fulgidus Sir2-Af1, and E. coli CobB; and are members of the SIR2 family of proteins, silent information regulator 2 (Sir2) enzymes which...; Region: SIRT5_Af1_CobB; cd01412 930944001740 NAD+ binding site [chemical binding]; other site 930944001741 substrate binding site [chemical binding]; other site 930944001742 Zn binding site [ion binding]; other site 930944001743 Di- and tripeptidases [Amino acid transport and metabolism]; Region: PepD; COG2195 930944001744 M20 Peptidase T specifically cleaves tripeptides; Region: M20_peptT; cd03892 930944001745 metal binding site [ion binding]; metal-binding site 930944001746 dimer interface [polypeptide binding]; other site 930944001747 Uncharacterized conserved protein [Function unknown]; Region: COG2850 930944001748 Cupin domain; Region: Cupin_2; cl17218 930944001749 sensor protein PhoQ; Provisional; Region: PRK10815 930944001750 PhoQ Sensor; Region: PhoQ_Sensor; pfam08918 930944001751 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cl01054 930944001752 His Kinase A (phospho-acceptor) domain; Region: HisKA; pfam00512 930944001753 dimer interface [polypeptide binding]; other site 930944001754 phosphorylation site [posttranslational modification] 930944001755 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 930944001756 ATP binding site [chemical binding]; other site 930944001757 Mg2+ binding site [ion binding]; other site 930944001758 G-X-G motif; other site 930944001759 DNA-binding transcriptional regulator PhoP; Provisional; Region: PRK10816 930944001760 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 930944001761 active site 930944001762 phosphorylation site [posttranslational modification] 930944001763 intermolecular recognition site; other site 930944001764 dimerization interface [polypeptide binding]; other site 930944001765 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 930944001766 DNA binding site [nucleotide binding] 930944001767 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; pfam13505 930944001768 adenylosuccinate lyase; Provisional; Region: PRK09285 930944001769 PurB_like adenylosuccinases (adenylsuccinate lyase, ASL); Region: PurB; cd01598 930944001770 tetramer interface [polypeptide binding]; other site 930944001771 active site 930944001772 putative lysogenization regulator; Reviewed; Region: PRK00218 930944001773 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 930944001774 tRNA (5-methylaminomethyl-2-thiouridylate)-methyltransferase; Region: trmU; TIGR00420 930944001775 Contains a crystal structure of the Nudix hydrolase from Nitrosomonas europaea, which has an unknown function. In general, members of the Nudix hydrolase superfamily catalyze the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes...; Region: Nudix_Hydrolase_2; cd03675 930944001776 nudix motif; other site 930944001777 23S rRNA pseudouridine synthase E; Provisional; Region: PRK11394 930944001778 Pseudouridine synthase, Escherichia coli RluE; Region: PseudoU_synth_RluE; cd02566 930944001779 probable active site [active] 930944001780 isocitrate dehydrogenase; Validated; Region: PRK07362 930944001781 isocitrate dehydrogenase; Reviewed; Region: PRK07006 930944001782 potential frameshift: common BLAST hit: gi|123443606|ref|YP_001007578.1| transposase for IS1668 930944001783 potential frameshift: common BLAST hit: gi|123443602|ref|YP_001007575.1| transposase for IS1668 930944001784 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 930944001785 Transposase, Mutator family; Region: Transposase_mut; pfam00872 930944001786 Uncharacterized protein conserved in bacteria (DUF2219); Region: DUF2219; cl01409 930944001787 Isocitrate/isopropylmalate dehydrogenase; Region: Iso_dh; cl00445 930944001788 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 930944001789 active site 930944001790 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 930944001791 Lipid A core - O-antigen ligase and related enzymes [Cell envelope biogenesis, outer membrane]; Region: RfaL; COG3307 930944001792 O-Antigen ligase; Region: Wzy_C; pfam04932 930944001793 galactoside permease; Reviewed; Region: lacY; PRK09528 930944001794 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 930944001795 putative substrate translocation pore; other site 930944001796 Beta-fructosidases (levanase/invertase) [Carbohydrate transport and metabolism]; Region: SacC; COG1621 930944001797 Glycosyl hydrolase family 32, beta-fructosidases; Region: GH32_B_Fructosidase; cd08996 930944001798 substrate binding [chemical binding]; other site 930944001799 active site 930944001800 Glycosyl hydrolases family 32 C terminal; Region: Glyco_hydro_32C; pfam08244 930944001801 Transcriptional regulators [Transcription]; Region: PurR; COG1609 930944001802 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 930944001803 DNA binding site [nucleotide binding] 930944001804 domain linker motif; other site 930944001805 Ligand-binding domain of DNA-binding regulatory proteins specific to sucrose that are members of the LacI-GalR family of bacterial transcription repressors; Region: PBP1_sucrose_transcription_regulator; cd06288 930944001806 putative dimerization interface [polypeptide binding]; other site 930944001807 putative ligand binding site [chemical binding]; other site 930944001808 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 930944001809 PAS domain; Region: PAS_9; pfam13426 930944001810 putative active site [active] 930944001811 heme pocket [chemical binding]; other site 930944001812 HAMP domain; Region: HAMP; pfam00672 930944001813 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 930944001814 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 930944001815 dimer interface [polypeptide binding]; other site 930944001816 putative CheW interface [polypeptide binding]; other site 930944001817 umuC subunit of DNA Polymerase V; Region: PolY_Pol_V_umuC; cd01700 930944001818 DNA binding site [nucleotide binding] 930944001819 Domain of unknown function (DUF4113); Region: DUF4113; pfam13438 930944001820 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 930944001821 Catalytic site [active] 930944001822 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 930944001823 O-acetylhomoserine aminocarboxypropyltransferase; Validated; Region: PRK06084 930944001824 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 930944001825 homodimer interface [polypeptide binding]; other site 930944001826 substrate-cofactor binding pocket; other site 930944001827 pyridoxal 5'-phosphate binding site [chemical binding]; other site 930944001828 catalytic residue [active] 930944001829 triphenylmethane reductase (TMR)-like proteins, NMRa-like, atypical (a) SDRs; Region: TMR_SDR_a; cd05269 930944001830 NmrA-like family; Region: NmrA; pfam05368 930944001831 NADP binding site [chemical binding]; other site 930944001832 Predicted transcriptional regulators [Transcription]; Region: COG1733 930944001833 HxlR-like helix-turn-helix; Region: HxlR; pfam01638 930944001834 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2350 930944001835 M14 family of metallocarboxypeptidases and related proteins; Region: Peptidase_M14_like; cl11393 930944001836 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 930944001837 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 930944001838 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 930944001839 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 930944001840 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3755 930944001841 acid-resistance protein; Provisional; Region: hdeB; PRK11566 930944001842 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 930944001843 PAS domain; Region: PAS_9; pfam13426 930944001844 putative active site [active] 930944001845 heme pocket [chemical binding]; other site 930944001846 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 930944001847 putative active site [active] 930944001848 heme pocket [chemical binding]; other site 930944001849 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 930944001850 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 930944001851 metal binding site [ion binding]; metal-binding site 930944001852 active site 930944001853 I-site; other site 930944001854 CdtB, the catalytic DNase I-like subunit of cytolethal distending toxin (CDT) protein; Region: CdtB; cd09081 930944001855 putative catalytic site [active] 930944001856 CdtC interface [polypeptide binding]; other site 930944001857 heterotrimer interface [polypeptide binding]; other site 930944001858 CdtA interface [polypeptide binding]; other site 930944001859 putative metal binding site [ion binding]; other site 930944001860 putative phosphate binding site [ion binding]; other site 930944001861 Serine/threonine protein kinase involved in cell cycle control [Signal transduction mechanisms / Cell division and chromosome partitioning]; Region: RIO1; COG1718 930944001862 RIO kinase family; RIO1, RIO3 and similar proteins, catalytic domain. The RIO kinase catalytic domain family is part of a larger superfamily, that includes the catalytic domains of other kinases such as the typical serine/threonine/tyrosine protein...; Region: RIO1_like; cd05145 930944001863 ATP binding site [chemical binding]; other site 930944001864 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 930944001865 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 930944001866 ATP-binding cassette domain of the bacterial lipid flippase and related proteins, subfamily C; Region: ABCC_MsbA; cd03251 930944001867 Walker A/P-loop; other site 930944001868 ATP binding site [chemical binding]; other site 930944001869 Q-loop/lid; other site 930944001870 ABC transporter signature motif; other site 930944001871 Walker B; other site 930944001872 D-loop; other site 930944001873 H-loop/switch region; other site 930944001874 ribosomal-protein-alanine acetyltransferase; Region: rimI; TIGR01575 930944001875 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 930944001876 Coenzyme A binding pocket [chemical binding]; other site 930944001877 arginine-ornithine antiporter; Region: arg_ornith_anti; TIGR03810 930944001878 Helix-turn-helix domain; Region: HTH_18; pfam12833 930944001879 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 930944001880 Protein of unknown function (DUF2766); Region: DUF2766; pfam10964 930944001881 YobH-like protein; Region: YobH; pfam13996 930944001882 MgrB protein; Region: MgrB; pfam13998 930944001883 YebO-like protein; Region: YebO; pfam13974 930944001884 Protein of unknown function (DUF2591); Region: DUF2591; pfam10765 930944001885 Protein of unknown function (DUF4060); Region: DUF4060; pfam13269 930944001886 aromatic amino acid transporter; Provisional; Region: PRK10238 930944001887 phospholipid:lipid A palmitoyltransferase; Provisional; Region: pagP; PRK11045 930944001888 Protein of unknown function (DUF2627); Region: DUF2527; pfam10736 930944001889 Multicopper polyphenol oxidase (laccase) [Secondary metabolites biosynthesis, transport and catabolism]; Region: yfiH; COG1496 930944001890 Multi-copper polyphenol oxidoreductase laccase; Region: Cu-oxidase_4; pfam02578 930944001891 potential frameshift: common BLAST hit: gi|332162023|ref|YP_004298600.1| peptidoglycan synthetase 930944001892 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 930944001893 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 930944001894 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 930944001895 23S rRNA methyltransferase A; Provisional; Region: rrmA; PRK11088 930944001896 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 930944001897 S-adenosylmethionine binding site [chemical binding]; other site 930944001898 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 930944001899 PAS domain; Region: PAS_9; pfam13426 930944001900 putative active site [active] 930944001901 heme pocket [chemical binding]; other site 930944001902 PAS domain S-box; Region: sensory_box; TIGR00229 930944001903 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 930944001904 putative active site [active] 930944001905 heme pocket [chemical binding]; other site 930944001906 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 930944001907 PAS domain; Region: PAS_9; pfam13426 930944001908 putative active site [active] 930944001909 heme pocket [chemical binding]; other site 930944001910 PAS fold; Region: PAS; pfam00989 930944001911 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 930944001912 putative active site [active] 930944001913 heme pocket [chemical binding]; other site 930944001914 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 930944001915 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 930944001916 metal binding site [ion binding]; metal-binding site 930944001917 active site 930944001918 I-site; other site 930944001919 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 930944001920 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 930944001921 N-terminal plug; other site 930944001922 ligand-binding site [chemical binding]; other site 930944001923 Predicted membrane protein [Function unknown]; Region: COG1971 930944001924 Domain of unknown function DUF; Region: DUF204; pfam02659 930944001925 Domain of unknown function DUF; Region: DUF204; pfam02659 930944001926 hypothetical protein; Provisional; Region: PRK02913 930944001927 PTS system mannose-specific transporter subunit IID; Provisional; Region: PRK11103 930944001928 PTS system mannose-specific transporter subunit IIC; Provisional; Region: PRK15065 930944001929 PTS system mannose-specific transporter subunits IIAB; Provisional; Region: PRK15088 930944001930 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 930944001931 active pocket/dimerization site; other site 930944001932 active site 930944001933 phosphorylation site [posttranslational modification] 930944001934 PTS_IIB, PTS system, Mannose/sorbose specific IIB subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIB_man; cd00001 930944001935 active site 930944001936 phosphorylation site [posttranslational modification] 930944001937 Membrane protein TerC, possibly involved in tellurium resistance [Inorganic ion transport and metabolism]; Region: TerC; COG0861 930944001938 Putative Mg2+ and Co2+ transporter CorC [Inorganic ion transport and metabolism]; Region: CorC; COG4535 930944001939 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 930944001940 Transporter associated domain; Region: CorC_HlyC; smart01091 930944001941 L-serine deaminase; Provisional; Region: PRK15023 930944001942 Serine dehydratase beta chain; Region: SDH_beta; pfam03315 930944001943 Serine dehydratase alpha chain; Region: SDH_alpha; pfam03313 930944001944 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 930944001945 putative active site [active] 930944001946 putative CoA binding site [chemical binding]; other site 930944001947 nudix motif; other site 930944001948 metal binding site [ion binding]; metal-binding site 930944001949 aminodeoxychorismate synthase subunit I; Provisional; Region: pabB; PRK15465 930944001950 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 930944001951 chorismate binding enzyme; Region: Chorismate_bind; cl10555 930944001952 Uncharacterized protein family (UPF0181); Region: UPF0181; pfam03701 930944001953 phosphoribosylglycinamide formyltransferase 2; Validated; Region: purT; PRK09288 930944001954 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 930944001955 ATP-grasp domain; Region: ATP-grasp; pfam02222 930944001956 ATP-dependent RNA helicase DbpA; Provisional; Region: PRK11776 930944001957 DEAD-like helicases superfamily. A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region; Region: DEXDc; cl17251 930944001958 ATP binding site [chemical binding]; other site 930944001959 putative Mg++ binding site [ion binding]; other site 930944001960 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 930944001961 nucleotide binding region [chemical binding]; other site 930944001962 ATP-binding site [chemical binding]; other site 930944001963 RNA recognition motif in Escherichia coli RNA helicase dbpA and similar proteins; Region: RRM_EcDbpA_like; cd12501 930944001964 putative RNA binding site [nucleotide binding]; other site 930944001965 YebG protein; Region: YebG; pfam07130 930944001966 ASC-1 homology domain, subfamily similar to Escherichia coli Yqfb. The ASCH domain, a small beta-barrel domain found in all three kingdoms of life, resembles the RNA-binding PUA domain and may also interact with RNA. ASCH has been proposed to function as...; Region: ASCH_yqfb_like; cd06552 930944001967 YebF-like protein; Region: YebF; cl10126 930944001968 protease 2; Provisional; Region: PRK10115 930944001969 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 930944001970 exodeoxyribonuclease X; Provisional; Region: PRK07983 930944001971 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 930944001972 active site 930944001973 catalytic site [active] 930944001974 substrate binding site [chemical binding]; other site 930944001975 proline iminopeptidase, Neisseria-type subfamily; Region: pro_imino_pep_1; TIGR01249 930944001976 DNA polymerase III subunit theta; Reviewed; Region: PRK10969 930944001977 nonheme-containing ferritins; Region: Nonheme_Ferritin; cd01055 930944001978 Ferritin-like domain; Region: Ferritin; pfam00210 930944001979 ferroxidase diiron center [ion binding]; other site 930944001980 Uncharacterized protein, homolog of Cu resistance protein CopC [General function prediction only]; Region: CopC; COG2372 930944001981 Putative copper export protein [Inorganic ion transport and metabolism]; Region: PcoD; COG1276 930944001982 Protein of unknown function (DUF2511); Region: DUF2511; pfam10709 930944001983 Integrase [DNA replication, recombination, and repair]; Region: XerC; COG0582 930944001984 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 930944001985 active site 930944001986 DNA binding site [nucleotide binding] 930944001987 Int/Topo IB signature motif; other site 930944001988 tail protein; Provisional; Region: D; PHA02561 930944001989 Phage P2 GpU; Region: Phage_P2_GpU; pfam06995 930944001990 phage tail tape measure protein, TP901 family, core region; Region: tape_meas_TP901; TIGR01760 930944001991 IS2 transposase TnpB; Reviewed; Region: PRK09409 930944001992 HTH-like domain; Region: HTH_21; pfam13276 930944001993 PAS fold; Region: PAS_4; pfam08448 930944001994 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 930944001995 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; cl17315 930944001996 DNA binding residues [nucleotide binding] 930944001997 Solute carrier families 5 and 6-like; solute binding domain; Region: SLC5-6-like_sbd; cl00456 930944001998 Na binding site [ion binding]; other site 930944001999 Permease for cytosine/purines, uracil, thiamine, allantoin; Region: Transp_cyt_pur; pfam02133 930944002000 PAS fold; Region: PAS_4; pfam08448 930944002001 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 930944002002 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 930944002003 DNA binding residues [nucleotide binding] 930944002004 potential frameshift: common BLAST hit: gi|332162365|ref|YP_004298942.1| putative transposase 930944002005 Transposase, Mutator family; Region: Transposase_mut; pfam00872 930944002006 MULE transposase domain; Region: MULE; pfam10551 930944002007 Methyltransferase domain; Region: Methyltransf_12; pfam08242 930944002008 Transposase, Mutator family; Region: Transposase_mut; pfam00872 930944002009 MULE transposase domain; Region: MULE; pfam10551 930944002010 Predicted hydrolases of the HAD superfamily [General function prediction only]; Region: Cof; COG0561 930944002011 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 930944002012 active site 930944002013 motif I; other site 930944002014 motif II; other site 930944002015 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 930944002016 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 930944002017 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 930944002018 putative substrate translocation pore; other site 930944002019 Major Facilitator Superfamily; Region: MFS_1; pfam07690 930944002020 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 930944002021 Protein of unknown function, DUF488; Region: DUF488; cl01246 930944002022 L-asparagine permease; Provisional; Region: PRK15049 930944002023 2-hydroxycarboxylate transporter family; Region: 2HCT; pfam03390 930944002024 DNA-binding transcriptional activator DcuR; Provisional; Region: PRK10430 930944002025 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 930944002026 active site 930944002027 phosphorylation site [posttranslational modification] 930944002028 intermolecular recognition site; other site 930944002029 dimerization interface [polypeptide binding]; other site 930944002030 sensory histidine kinase DcuS; Provisional; Region: PRK11086 930944002031 Cache domain; Region: Cache_2; cl07034 930944002032 PAS domain; Region: PAS; smart00091 930944002033 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 930944002034 ATP binding site [chemical binding]; other site 930944002035 Mg2+ binding site [ion binding]; other site 930944002036 G-X-G motif; other site 930944002037 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 930944002038 helix_turn_helix, Deoxyribose operon repressor; Region: HTH_DEOR; smart00420 930944002039 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 930944002040 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3395 930944002041 potential frameshift: common BLAST hit: gi|332161973|ref|YP_004298550.1| putative aldolase 930944002042 Class II Aldolase and Adducin head (N-terminal) domain. Aldolases are ubiquitous enzymes catalyzing central steps of carbohydrate metabolism. Based on enzymatic mechanisms, this superfamily has been divided into two distinct classes (Class I and II); Region: Aldolase_II; cl00214 930944002043 active site 930944002044 Zn2+ binding site [ion binding]; other site 930944002045 Class II Aldolase and Adducin head (N-terminal) domain. Aldolases are ubiquitous enzymes catalyzing central steps of carbohydrate metabolism. Based on enzymatic mechanisms, this superfamily has been divided into two distinct classes (Class I and II); Region: Aldolase_II; cl00214 930944002046 Hydroxypyruvate isomerase [Carbohydrate transport and metabolism]; Region: Hfi; COG3622 930944002047 glutaminase; Reviewed; Region: PRK12356 930944002048 Glutaminase [Amino acid transport and metabolism]; Region: GlsA; COG2066 930944002049 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 930944002050 putative substrate translocation pore; other site 930944002051 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 930944002052 Exopolyphosphatase [Nucleotide transport and metabolism / Inorganic ion transport and metabolism]; Region: GppA; COG0248 930944002053 High-affinity Fe2+/Pb2+ permease [Inorganic ion transport and metabolism]; Region: FTR1; COG0672 930944002054 Uncharacterized protein probably involved in high-affinity Fe2+ transport [Inorganic ion transport and metabolism]; Region: Tpd; COG3470 930944002055 Predicted membrane protein [Function unknown]; Region: COG4393 930944002056 Predicted membrane protein (DUF2318); Region: DUF2318; pfam10080 930944002057 Uncharacterized conserved protein [Function unknown]; Region: COG3350 930944002058 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 930944002059 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 930944002060 FtsX-like permease family; Region: FtsX; pfam02687 930944002061 outer membrane-specific lipoprotein transporter subunit LolE; Provisional; Region: PRK11146 930944002062 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 930944002063 ABC-type transport system, involved in lipoprotein release, permease component [Cell envelope biogenesis, outer membrane]; Region: LolE; COG4591 930944002064 FtsX-like permease family; Region: FtsX; pfam02687 930944002065 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 930944002066 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 930944002067 Walker A/P-loop; other site 930944002068 ATP binding site [chemical binding]; other site 930944002069 Q-loop/lid; other site 930944002070 ABC transporter signature motif; other site 930944002071 Walker B; other site 930944002072 D-loop; other site 930944002073 H-loop/switch region; other site 930944002074 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 930944002075 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 930944002076 catalytic residues [active] 930944002077 Cytochrome c553 [Energy production and conversion]; Region: COG2863 930944002078 tellurite resistance protein TehB; Provisional; Region: PRK12335 930944002079 Uncharacterized protein/domain, possibly involved in tellurite resistance [Inorganic ion transport and metabolism]; Region: TehB; COG3615 930944002080 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 930944002081 S-adenosylmethionine binding site [chemical binding]; other site 930944002082 Transcriptional regulator [Transcription]; Region: LysR; COG0583 930944002083 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 930944002084 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 930944002085 putative effector binding pocket; other site 930944002086 dimerization interface [polypeptide binding]; other site 930944002087 alanine-tRNA ligase; Region: PLN02961 930944002088 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 930944002089 ferric iron reductase involved in ferric hydroximate transport; Provisional; Region: PRK10647 930944002090 Ferric iron reductase FhuF-like transporter; Region: FhuF; pfam06276 930944002091 FhuF 2Fe-2S C-terminal domain; Region: FhuF_C; pfam11575 930944002092 putative endopeptidase; Provisional; Region: PRK14576 930944002093 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 930944002094 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 930944002095 active site 930944002096 potential frameshift: common BLAST hit: gi|332161955|ref|YP_004298532.1| outer membrane protein PgaA 930944002097 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 930944002098 TPR motif; other site 930944002099 binding surface 930944002100 outer membrane protein; Provisional; Region: hmsH; PRK14574 930944002101 outer membrane N-deacetylase; Provisional; Region: hmsF; PRK14581 930944002102 N-terminal putative catalytic polysaccharide deacetylase domain of bacterial poly-beta-1,6-N-acetyl-D-glucosamine N-deacetylase PgaB, and similar proteins; Region: CE4_PgaB_5s; cd10964 930944002103 putative active site [active] 930944002104 putative metal binding site [ion binding]; other site 930944002105 N-glycosyltransferase; Provisional; Region: hmsR; PRK14583 930944002106 CESA_like is the cellulose synthase superfamily; Region: CESA_like; cd06423 930944002107 DXD motif; other site 930944002108 hemin storage system protein; Provisional; Region: hmsS; PRK14584 930944002109 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 930944002110 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 930944002111 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 930944002112 hypothetical protein; Provisional; Region: PRK10536 930944002113 Phosphate starvation-inducible protein PhoH, predicted ATPase [Signal transduction mechanisms]; Region: PhoH; COG1702 930944002114 Transposase domain (DUF772); Region: DUF772; pfam05598 930944002115 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 930944002116 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 930944002117 Arginyl-tRNA synthetase [Translation, ribosomal structure and biogenesis]; Region: ArgS; COG0018 930944002118 Arginyl tRNA synthetase N terminal dom; Region: Arg_tRNA_synt_N; smart01016 930944002119 catalytic core domain of arginyl-tRNA synthetases; Region: ArgRS_core; cd00671 930944002120 active site 930944002121 HIGH motif; other site 930944002122 KMSK motif region; other site 930944002123 Anticodon-binding domain of arginyl tRNA synthetases; Region: Anticodon_Ia_Arg; cd07956 930944002124 tRNA binding surface [nucleotide binding]; other site 930944002125 anticodon binding site; other site 930944002126 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_4; cd07268 930944002127 putative metal binding site [ion binding]; other site 930944002128 copper homeostasis protein CutC; Provisional; Region: PRK11572 930944002129 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 930944002130 Transposase; Region: DEDD_Tnp_IS110; pfam01548 930944002131 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 930944002132 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 930944002133 EamA-like transporter family; Region: EamA; cl17759 930944002134 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 930944002135 Mechanosensitive ion channel; Region: MS_channel; pfam00924 930944002136 glutathione S-transferase; Provisional; Region: PRK15113 930944002137 Glutathione S-transferase, N-terminal domain; Region: GST_N_3; pfam13417 930944002138 C-terminal, alpha helical domain of an unknown subfamily 4 of Glutathione S-transferases; Region: GST_C_4; cd03195 930944002139 N-terminal domain interface [polypeptide binding]; other site 930944002140 putative dimer interface [polypeptide binding]; other site 930944002141 putative substrate binding pocket (H-site) [chemical binding]; other site 930944002142 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 930944002143 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 930944002144 Phage terminase large subunit (GpA); Region: Terminase_GpA; pfam05876 930944002145 ASC-1 homology domain, subfamily similar to Enterococcus faecalis Ef3133. The ASCH domain, a small beta-barrel domain found in all three kingdoms of life, resembles the RNA-binding PUA domain and may also interact with RNA. ASCH has been proposed to...; Region: ASCH_Ef3133_like; cd06553 930944002146 Protein of unknown function (DUF1480); Region: DUF1480; pfam07351 930944002147 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 930944002148 PAS domain; Region: PAS_9; pfam13426 930944002149 putative active site [active] 930944002150 heme pocket [chemical binding]; other site 930944002151 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 930944002152 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 930944002153 putative active site [active] 930944002154 heme pocket [chemical binding]; other site 930944002155 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 930944002156 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 930944002157 I-site; other site 930944002158 Spore Coat Protein U domain; Region: SCPU; pfam05229 930944002159 Spore Coat Protein U domain; Region: SCPU; pfam05229 930944002160 P pilus assembly protein, porin PapC [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimD; COG3188 930944002161 Type VII secretion system (T7SS), usher protein; Region: Usher; pfam00577 930944002162 PapC C-terminal domain; Region: PapC_C; pfam13953 930944002163 P pilus assembly protein, chaperone PapD [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimC; COG3121 930944002164 Gram-negative pili assembly chaperone, N-terminal domain; Region: Pili_assembly_N; pfam00345 930944002165 Uncharacterized secreted protein [Function unknown]; Region: COG5430 930944002166 Spore Coat Protein U domain; Region: SCPU; pfam05229 930944002167 Uncharacterized secreted protein [Function unknown]; Region: COG5430 930944002168 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 930944002169 putative substrate translocation pore; other site 930944002170 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 930944002171 Transcriptional regulator [Transcription]; Region: LysR; COG0583 930944002172 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 930944002173 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator similar to DntR, which is involved in the catabolism of dinitrotoluene; contains the type 2 periplasmic binding fold; Region: PBP2_DntR_like_1; cd08460 930944002174 putative substrate binding pocket [chemical binding]; other site 930944002175 putative dimerization interface [polypeptide binding]; other site 930944002176 Paraquat-inducible protein B [General function prediction only]; Region: PqiB; COG3008 930944002177 mce related protein; Region: MCE; pfam02470 930944002178 mce related protein; Region: MCE; pfam02470 930944002179 mce related protein; Region: MCE; pfam02470 930944002180 mce related protein; Region: MCE; pfam02470 930944002181 mce related protein; Region: MCE; pfam02470 930944002182 Uncharacterized paraquat-inducible protein A [Function unknown]; Region: PqiA; COG2995 930944002183 Paraquat-inducible protein A; Region: PqiA; pfam04403 930944002184 Paraquat-inducible protein A; Region: PqiA; pfam04403 930944002185 GAF domain-containing protein [Signal transduction mechanisms]; Region: COG1956 930944002186 ProP expression regulator; Provisional; Region: PRK04950 930944002187 ProQ/FINO family; Region: ProQ; pfam04352 930944002188 carboxy-terminal protease; Provisional; Region: PRK11186 930944002189 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 930944002190 protein binding site [polypeptide binding]; other site 930944002191 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 930944002192 Catalytic dyad [active] 930944002193 C-terminal domain of tail specific protease (DUF3340); Region: DUF3340; pfam11818 930944002194 heat shock protein HtpX; Provisional; Region: PRK05457 930944002195 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 930944002196 Major Facilitator Superfamily; Region: MFS_1; pfam07690 930944002197 putative substrate translocation pore; other site 930944002198 Periplasmic component of the Tol biopolymer transport system [Intracellular trafficking and secretion]; Region: TolB; COG0823 930944002199 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 930944002200 DNA-binding transcriptional regulator KdgR; Provisional; Region: PRK15090 930944002201 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 930944002202 dimerization interface [polypeptide binding]; other site 930944002203 putative Zn2+ binding site [ion binding]; other site 930944002204 putative DNA binding site [nucleotide binding]; other site 930944002205 Bacterial transcriptional regulator; Region: IclR; pfam01614 930944002206 N-acetyl-anhydromuramyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: ampD; COG3023 930944002207 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 930944002208 amidase catalytic site [active] 930944002209 Zn binding residues [ion binding]; other site 930944002210 substrate binding site [chemical binding]; other site 930944002211 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 930944002212 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 930944002213 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 930944002214 Transposase; Region: DEDD_Tnp_IS110; pfam01548 930944002215 Sodium:dicarboxylate symporter family; Region: SDF; cl00573 930944002216 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 930944002217 inner membrane protein; Provisional; Region: PRK11648 930944002218 Oligogalacturonate-specific porin protein (KdgM); Region: KdgM; cl11629 930944002219 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 930944002220 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 930944002221 ABC-type sugar transport systems, ATPase components [Carbohydrate transport and metabolism]; Region: MalK; COG3839 930944002222 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 930944002223 Walker A/P-loop; other site 930944002224 ATP binding site [chemical binding]; other site 930944002225 Q-loop/lid; other site 930944002226 ABC transporter signature motif; other site 930944002227 Walker B; other site 930944002228 D-loop; other site 930944002229 H-loop/switch region; other site 930944002230 TOBE domain; Region: TOBE_2; pfam08402 930944002231 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 930944002232 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 930944002233 dimer interface [polypeptide binding]; other site 930944002234 conserved gate region; other site 930944002235 putative PBP binding loops; other site 930944002236 ABC-ATPase subunit interface; other site 930944002237 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 930944002238 dimer interface [polypeptide binding]; other site 930944002239 conserved gate region; other site 930944002240 putative PBP binding loops; other site 930944002241 ABC-ATPase subunit interface; other site 930944002242 Periplasmic pectate lyase; Region: Pectate_lyase_2; pfam06917 930944002243 2-deoxy-D-gluconate 3-dehydrogenase; Validated; Region: PRK08993 930944002244 gluconate 5-dehydrogenase (Ga5DH)-like, classical (c) SDRs; Region: Ga5DH-like_SDR_c; cd05347 930944002245 NADP binding site [chemical binding]; other site 930944002246 homodimer interface [polypeptide binding]; other site 930944002247 active site 930944002248 5-keto-4-deoxyuronate isomerase; Provisional; Region: PRK00924 930944002249 Uncharacterized conserved protein, contains double-stranded beta-helix domain [Function unknown]; Region: COG1917 930944002250 2-deoxyglucose-6-phosphatase; Provisional; Region: PRK10826 930944002251 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 930944002252 motif II; other site 930944002253 YniB-like protein; Region: YniB; pfam14002 930944002254 Transcriptional regulator [Transcription]; Region: LysR; COG0583 930944002255 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 930944002256 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 930944002257 dimerization interface [polypeptide binding]; other site 930944002258 Acetyl-CoA hydrolase/transferase N-terminal domain; Region: AcetylCoA_hydro; pfam02550 930944002259 succinate CoA transferase; Region: YgfH_subfam; TIGR03458 930944002260 Acetyl-CoA hydrolase/transferase C-terminal domain; Region: AcetylCoA_hyd_C; pfam13336 930944002261 methylmalonyl-CoA decarboxylase; Provisional; Region: PRK11423 930944002262 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 930944002263 substrate binding site [chemical binding]; other site 930944002264 oxyanion hole (OAH) forming residues; other site 930944002265 trimer interface [polypeptide binding]; other site 930944002266 membrane ATPase/protein kinase; Provisional; Region: PRK09435 930944002267 The function of this protein family is unkown. The protein sequences are similar to the ArgK protein in E. coli. ArgK protein is a membrane ATPase which is required for transporting arginine, ornithine and lysine into the cells by the arginine and...; Region: ArgK-like; cd03114 930944002268 Walker A; other site 930944002269 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cl17170 930944002270 methylmalonyl-CoA mutase; Reviewed; Region: PRK09426 930944002271 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 930944002272 active site 930944002273 substrate binding site [chemical binding]; other site 930944002274 coenzyme B12 binding site [chemical binding]; other site 930944002275 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 930944002276 B12 binding site [chemical binding]; other site 930944002277 cobalt ligand [ion binding]; other site 930944002278 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3001 930944002279 Phosphotransferase enzyme family; Region: APH; pfam01636 930944002280 ABC-type Mn2+/Zn2+ transport systems, permease components [Inorganic ion transport and metabolism]; Region: ZnuB; COG1108 930944002281 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 930944002282 ABC-ATPase subunit interface; other site 930944002283 dimer interface [polypeptide binding]; other site 930944002284 putative PBP binding regions; other site 930944002285 ABC-type Mn2+/Zn2+ transport systems, permease components [Inorganic ion transport and metabolism]; Region: ZnuB; COG1108 930944002286 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 930944002287 ABC-ATPase subunit interface; other site 930944002288 dimer interface [polypeptide binding]; other site 930944002289 putative PBP binding regions; other site 930944002290 manganese/iron transporter ATP-binding protein; Provisional; Region: PRK15056 930944002291 ATP-binding cassette domain of the metal-type transporters; Region: ABC_Metallic_Cations; cd03235 930944002292 ABC-type metal ion transport system, periplasmic component/surface adhesin [Inorganic ion transport and metabolism]; Region: LraI; COG0803 930944002293 Metal binding protein PsaA. These proteins have been shown to function as initial receptors in ABC transport of Mn2+ and as surface adhesins in some eubacterial species. They belong to the TroA superfamily of periplasmic metal binding proteins that...; Region: PsaA; cd01137 930944002294 metal binding site [ion binding]; metal-binding site 930944002295 lytic murein endotransglycosylase E; Provisional; Region: emtA; PRK15470 930944002296 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 930944002297 N-acetyl-D-glucosamine binding site [chemical binding]; other site 930944002298 catalytic residue [active] 930944002299 inner membrane protein; Provisional; Region: PRK10995 930944002300 potential frameshift: common BLAST hit: gi|251787820|ref|YP_003002541.1| steroid delta-isomerase domain-containing protein 930944002301 Nuclear transport factor 2 (NTF2-like) superfamily. This family includes members of the NTF2 family, Delta-5-3-ketosteroid isomerases, Scytalone Dehydratases, and the beta subunit of Ring hydroxylating dioxygenases. This family is a classic example of...; Region: NTF2_like; cl09109 930944002302 Nuclear transport factor 2 (NTF2-like) superfamily. This family includes members of the NTF2 family, Delta-5-3-ketosteroid isomerases, Scytalone Dehydratases, and the beta subunit of Ring hydroxylating dioxygenases. This family is a classic example of...; Region: NTF2_like; cl09109 930944002303 RelA- and SpoT-like ppGpp Synthetases and Hydrolases, catalytic domain; Region: Rel-Spo_like; cl11966 930944002304 Protein of unknown function (DUF554); Region: DUF554; pfam04474 930944002305 KTSC domain; Region: KTSC; pfam13619 930944002306 threonyl-tRNA synthetase; Reviewed; Region: thrS; PRK00413 930944002307 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 930944002308 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; pfam07973 930944002309 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 930944002310 active site 930944002311 dimer interface [polypeptide binding]; other site 930944002312 motif 1; other site 930944002313 motif 2; other site 930944002314 motif 3; other site 930944002315 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 930944002316 anticodon binding site; other site 930944002317 translation initiation factor IF-3; Reviewed; Region: infC; PRK00028 930944002318 Translation initiation factor IF-3, C-terminal domain; Region: IF3_C; pfam00707 930944002319 50S ribosomal protein L35; Reviewed; Region: rpmI; PRK00172 930944002320 Ribosomal protein L20; Region: Ribosomal_L20; cd07026 930944002321 23S rRNA binding site [nucleotide binding]; other site 930944002322 L21 binding site [polypeptide binding]; other site 930944002323 L13 binding site [polypeptide binding]; other site 930944002324 phenylalanyl-tRNA synthetase subunit alpha; Validated; Region: pheS; PRK00488 930944002325 Aminoacyl tRNA synthetase class II, N-terminal domain; Region: Phe_tRNA-synt_N; pfam02912 930944002326 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 930944002327 dimer interface [polypeptide binding]; other site 930944002328 motif 1; other site 930944002329 active site 930944002330 motif 2; other site 930944002331 motif 3; other site 930944002332 phenylalanyl-tRNA synthetase subunit beta; Reviewed; Region: pheT; PRK00629 930944002333 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 930944002334 putative tRNA-binding site [nucleotide binding]; other site 930944002335 B3/4 domain; Region: B3_4; pfam03483 930944002336 tRNA synthetase B5 domain; Region: B5; smart00874 930944002337 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 930944002338 dimer interface [polypeptide binding]; other site 930944002339 motif 1; other site 930944002340 motif 3; other site 930944002341 motif 2; other site 930944002342 Ferredoxin-fold anticodon binding domain; Region: FDX-ACB; pfam03147 930944002343 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 930944002344 IHF dimer interface [polypeptide binding]; other site 930944002345 IHF - DNA interface [nucleotide binding]; other site 930944002346 Protein of unknown function (DUF2502); Region: DUF2502; pfam10697 930944002347 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 930944002348 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 930944002349 ABC-ATPase subunit interface; other site 930944002350 dimer interface [polypeptide binding]; other site 930944002351 putative PBP binding regions; other site 930944002352 Glutathione (GSH) peroxidase family; tetrameric selenoenzymes that catalyze the reduction of a variety of hydroperoxides including lipid peroxidases, using GSH as a specific electron donor substrate. GSH peroxidase contains one selenocysteine residue per...; Region: GSH_Peroxidase; cd00340 930944002353 catalytic residues [active] 930944002354 dimer interface [polypeptide binding]; other site 930944002355 vitamin B12-transporter ATPase; Provisional; Region: PRK03695 930944002356 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 930944002357 Walker A/P-loop; other site 930944002358 ATP binding site [chemical binding]; other site 930944002359 Q-loop/lid; other site 930944002360 ABC transporter signature motif; other site 930944002361 Walker B; other site 930944002362 D-loop; other site 930944002363 H-loop/switch region; other site 930944002364 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 930944002365 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 930944002366 inhibitor-cofactor binding pocket; inhibition site 930944002367 pyridoxal 5'-phosphate binding site [chemical binding]; other site 930944002368 catalytic residue [active] 930944002369 undecaprenyl phosphate 4-deoxy-4-formamido-L-arabinose transferase; Provisional; Region: PRK10714 930944002370 Bacterial DPM1_like enzymes are related to eukaryotic DPM1; Region: DPM1_like_bac; cd04187 930944002371 Ligand binding site; other site 930944002372 Putative Catalytic site; other site 930944002373 DXD motif; other site 930944002374 bifunctional UDP-glucuronic acid decarboxylase/UDP-4-amino-4-deoxy-L-arabinose formyltransferase; Validated; Region: PRK08125 930944002375 Formyltransferase, catalytic core domain; Region: FMT_core; cl00395 930944002376 active site 930944002377 substrate binding site [chemical binding]; other site 930944002378 cosubstrate binding site; other site 930944002379 catalytic site [active] 930944002380 C-terminal subdomain of the formyltransferase domain on ArnA, which modifies lipid A with 4-amino-4-deoxy-l-arabinose; Region: Arna_FMT_C; cd08702 930944002381 active site 930944002382 hexamer interface [polypeptide binding]; other site 930944002383 Arna decarboxylase_like, extended (e) SDRs; Region: Arna_like_SDR_e; cd05257 930944002384 NAD binding site [chemical binding]; other site 930944002385 substrate binding site [chemical binding]; other site 930944002386 active site 930944002387 4-deoxy-4-formamido-L-arabinose-phosphoundecaprenol deformylase ArnD; Provisional; Region: PRK15394 930944002388 Catalytic domain of Escherichia coli 4-deoxy-4-formamido-L-arabinose-phosphoundecaprenol deformylase ArnD and other bacterial homologs; Region: CE4_ArnD; cd10939 930944002389 putative active site [active] 930944002390 putative catalytic site [active] 930944002391 putative Zn binding site [ion binding]; other site 930944002392 4-amino-4-deoxy-L-arabinose transferase; Provisional; Region: arnT; PRK13279 930944002393 4-amino-4-deoxy-L-arabinose transferase and related glycosyltransferases of PMT family [Cell envelope biogenesis, outer membrane]; Region: ArnT; COG1807 930944002394 4-amino-4-deoxy-L-arabinose-phosphoundecaprenol flippase subunit ArnE; Provisional; Region: PRK15051 930944002395 4-amino-4-deoxy-L-arabinose-phosphoundecaprenol flippase subunit ArnF; Provisional; Region: PRK02971 930944002396 NlpC/P60 family; Region: NLPC_P60; pfam00877 930944002397 lipoate-protein ligase A; Provisional; Region: lplA; PRK03822 930944002398 Lipoate-protein ligase A [Coenzyme metabolism]; Region: LplA; COG0095 930944002399 Bacterial lipoate protein ligase C-terminus; Region: Lip_prot_lig_C; pfam10437 930944002400 hypothetical protein; Validated; Region: PRK00029 930944002401 Uncharacterized conserved protein [Function unknown]; Region: COG0397 930944002402 Hemin binding protein HutB. These proteins have been shown to function as initial receptors in ABC transport of hemin and hemoproteins in many eubacterial species. They belong to the TroA superfamily of periplasmic metal binding proteins that share a...; Region: HutB; cd01149 930944002403 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 930944002404 putative hemin binding site; other site 930944002405 Putative heme degradation protein [Inorganic ion transport and metabolism]; Region: HemS; COG3720 930944002406 Haemin-degrading HemS.ChuX domain; Region: HemS; pfam05171 930944002407 Haemin-degrading HemS.ChuX domain; Region: HemS; pfam05171 930944002408 TonB-dependent heme/hemoglobin receptor family protein; Region: TonB-hemin; TIGR01785 930944002409 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 930944002410 N-terminal plug; other site 930944002411 ligand-binding site [chemical binding]; other site 930944002412 Hemin uptake protein hemP; Region: hemP; pfam10636 930944002413 phospho-2-dehydro-3-deoxyheptonate aldolase; Provisional; Region: PRK12756 930944002414 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 930944002415 PEP synthetase regulatory protein; Provisional; Region: PRK05339 930944002416 phosphoenolpyruvate synthase; Validated; Region: PRK06464 930944002417 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 930944002418 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 930944002419 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 930944002420 putative inner membrane protein; Provisional; Region: PRK10983 930944002421 Domain of unknown function DUF20; Region: UPF0118; pfam01594 930944002422 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 930944002423 FAD binding domain; Region: FAD_binding_4; pfam01565 930944002424 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 930944002425 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 930944002426 CoenzymeA binding site [chemical binding]; other site 930944002427 subunit interaction site [polypeptide binding]; other site 930944002428 PHB binding site; other site 930944002429 iron-sulfur cluster assembly scaffold protein; Provisional; Region: sufA; PRK09504 930944002430 cysteine desulfurase activator complex subunit SufB; Provisional; Region: PRK11814 930944002431 putative ABC transporter; Region: ycf24; CHL00085 930944002432 cysteine desulfurase ATPase component; Reviewed; Region: sufC; PRK09580 930944002433 ABC-type transport system involved in Fe-S cluster assembly, ATPase component; Region: ABC_FeS_Assembly; cd03217 930944002434 Walker A/P-loop; other site 930944002435 ATP binding site [chemical binding]; other site 930944002436 Q-loop/lid; other site 930944002437 ABC transporter signature motif; other site 930944002438 Walker B; other site 930944002439 D-loop; other site 930944002440 H-loop/switch region; other site 930944002441 cysteine desulfurase activator complex subunit SufD; Provisional; Region: PRK10948 930944002442 FeS assembly protein SufD; Region: sufD; TIGR01981 930944002443 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 930944002444 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 930944002445 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 930944002446 catalytic residue [active] 930944002447 cysteine desufuration protein SufE; Provisional; Region: PRK09296 930944002448 L,D-transpeptidase; Provisional; Region: PRK10190 930944002449 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cl00107 930944002450 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 930944002451 pyruvate kinase; Provisional; Region: PRK09206 930944002452 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; cd00288 930944002453 domain interfaces; other site 930944002454 active site 930944002455 multidrug efflux protein; Reviewed; Region: PRK01766 930944002456 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Vibrio cholerae NorM; Region: MATE_NorM_like; cd13131 930944002457 cation binding site [ion binding]; other site 930944002458 riboflavin synthase subunit alpha; Provisional; Region: PRK13020 930944002459 Lumazine binding domain; Region: Lum_binding; pfam00677 930944002460 Lumazine binding domain; Region: Lum_binding; pfam00677 930944002461 Citrate synthase (CS), citryl-CoA lyase (CCL), the C-terminal portion of the single-subunit type ATP-citrate lyase (ACL) and the C-terminal portion of the large subunit of the two-subunit type ACL. CS catalyzes the condensation of acetyl coenzyme A; Region: CS_ACL-C_CCL; cl00416 930944002462 cyclopropane fatty acyl phospholipid synthase; Provisional; Region: PRK11705 930944002463 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 930944002464 S-adenosylmethionine binding site [chemical binding]; other site 930944002465 putative transporter; Provisional; Region: PRK11043 930944002466 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 930944002467 putative substrate translocation pore; other site 930944002468 putative DNA-binding transcriptional regulator; Provisional; Region: PRK11074 930944002469 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 930944002470 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 930944002471 dimerization interface [polypeptide binding]; other site 930944002472 DNA-binding transcriptional repressor PurR; Provisional; Region: PRK10703 930944002473 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 930944002474 DNA binding site [nucleotide binding] 930944002475 domain linker motif; other site 930944002476 Ligand-binding domain of purine repressor, PurR, which functions as the master regulatory protein of de novo purine nucleotide biosynthesis in Escherichia coli; Region: PBP1_PurR; cd06275 930944002477 dimerization interface [polypeptide binding]; other site 930944002478 ligand binding site [chemical binding]; other site 930944002479 superoxide dismutase; Provisional; Region: PRK10543 930944002480 Iron/manganese superoxide dismutases, alpha-hairpin domain; Region: Sod_Fe_N; pfam00081 930944002481 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 930944002482 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 930944002483 NlpC/P60 family; Region: NLPC_P60; pfam00877 930944002484 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 930944002485 putative GSH binding site [chemical binding]; other site 930944002486 catalytic residues [active] 930944002487 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 930944002488 Glyoxalase I catalyzes the isomerization of the hemithioacetal, formed by a 2-oxoaldehyde and glutathione, to S-D-lactoylglutathione; Region: Glyoxalase_I; cd07233 930944002489 dimer interface [polypeptide binding]; other site 930944002490 active site 930944002491 metal binding site [ion binding]; metal-binding site 930944002492 glutathione binding site [chemical binding]; other site 930944002493 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 930944002494 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 930944002495 FMN binding site [chemical binding]; other site 930944002496 active site 930944002497 substrate binding site [chemical binding]; other site 930944002498 catalytic residue [active] 930944002499 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 930944002500 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 930944002501 putative metal dependent hydrolase; Provisional; Region: PRK11598 930944002502 Domain of unknown function (DUF1705); Region: DUF1705; pfam08019 930944002503 Sulfatase; Region: Sulfatase; pfam00884 930944002504 Predicted Fe-S protein [General function prediction only]; Region: COG3313 930944002505 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 930944002506 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 930944002507 active site 930944002508 catalytic tetrad [active] 930944002509 Fusaric acid resistance protein family; Region: FUSC; pfam04632 930944002510 Fusaric acid resistance protein-like; Region: FUSC_2; pfam13515 930944002511 Multidrug resistance efflux pump [Defense mechanisms]; Region: EmrA; COG1566 930944002512 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 930944002513 HlyD family secretion protein; Region: HlyD_3; pfam13437 930944002514 Protein of unknown function (DUF1656); Region: DUF1656; cl11658 930944002515 transcriptional regulator SlyA; Provisional; Region: PRK03573 930944002516 Winged helix DNA-binding domain; Region: HTH_27; pfam13463 930944002517 Outer membrane lipoprotein [Cell envelope biogenesis, outer membrane]; Region: SlyB; COG3133 930944002518 anhydro-N-acetylmuramic acid kinase; Reviewed; Region: anmK; PRK09585 930944002519 Predicted periplasmic protein [General function prediction only]; Region: COG3895 930944002520 Membrane-bound lysozyme-inhibitor of c-type lysozyme; Region: MliC; pfam09864 930944002521 pyridoxamine 5'-phosphate oxidase; Provisional; Region: PRK05679 930944002522 Pyridoxamine 5'-phosphate oxidase; Region: Pyridox_oxidase; pfam01243 930944002523 Pyridoxine 5'-phosphate oxidase C-terminal dimerisation region; Region: PNPOx_C; pfam10590 930944002524 tyrosyl-tRNA synthetase; Validated; Region: PRK05912 930944002525 catalytic core domain of tyrosinyl-tRNA synthetase; Region: TyrRS_core; cd00805 930944002526 active site 930944002527 HIGH motif; other site 930944002528 dimer interface [polypeptide binding]; other site 930944002529 KMSKS motif; other site 930944002530 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 930944002531 RNA binding surface [nucleotide binding]; other site 930944002532 pyridoxamine kinase; Validated; Region: PRK05756 930944002533 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 930944002534 ATP binding site [chemical binding]; other site 930944002535 glutathionine S-transferase; Provisional; Region: PRK10542 930944002536 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 930944002537 C-terminal domain interface [polypeptide binding]; other site 930944002538 GSH binding site (G-site) [chemical binding]; other site 930944002539 dimer interface [polypeptide binding]; other site 930944002540 C-terminal, alpha helical domain of Class Beta Glutathione S-transferases; Region: GST_C_Beta; cd03188 930944002541 dimer interface [polypeptide binding]; other site 930944002542 N-terminal domain interface [polypeptide binding]; other site 930944002543 substrate binding pocket (H-site) [chemical binding]; other site 930944002544 hypothetical protein; Provisional; Region: PRK10515 930944002545 Protein of unknown function (DUF1282); Region: DUF1282; pfam06930 930944002546 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 930944002547 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 930944002548 Dipeptide/tripeptide permease [Amino acid transport and metabolism]; Region: PTR2; COG3104 930944002549 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 930944002550 putative substrate translocation pore; other site 930944002551 POT family; Region: PTR2; pfam00854 930944002552 Transcriptional regulator [Transcription]; Region: LysR; COG0583 930944002553 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 930944002554 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 930944002555 dimerization interface [polypeptide binding]; other site 930944002556 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4950; cl17731 930944002557 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 930944002558 Uncharacterized conserved protein [Function unknown]; Region: COG2128 930944002559 antimicrobial peptide ABC system ATP-binding protein SapF; Provisional; Region: PRK15112 930944002560 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 930944002561 Walker A/P-loop; other site 930944002562 ATP binding site [chemical binding]; other site 930944002563 Q-loop/lid; other site 930944002564 ABC transporter signature motif; other site 930944002565 Walker B; other site 930944002566 D-loop; other site 930944002567 H-loop/switch region; other site 930944002568 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 930944002569 antimicrobial peptide ABC transporter ATP-binding protein; Provisional; Region: PRK15093 930944002570 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 930944002571 Walker A/P-loop; other site 930944002572 ATP binding site [chemical binding]; other site 930944002573 Q-loop/lid; other site 930944002574 ABC transporter signature motif; other site 930944002575 Walker B; other site 930944002576 D-loop; other site 930944002577 H-loop/switch region; other site 930944002578 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 930944002579 antimicrobial peptide ABC transporter permease SapC; Provisional; Region: PRK15111 930944002580 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 930944002581 dimer interface [polypeptide binding]; other site 930944002582 conserved gate region; other site 930944002583 putative PBP binding loops; other site 930944002584 ABC-ATPase subunit interface; other site 930944002585 antimicrobial peptide ABC transporter permease SapB; Provisional; Region: PRK15110 930944002586 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 930944002587 dimer interface [polypeptide binding]; other site 930944002588 conserved gate region; other site 930944002589 putative PBP binding loops; other site 930944002590 ABC-ATPase subunit interface; other site 930944002591 ABC-type oligopeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: OppA; COG4166 930944002592 The substrate-binding component of an ABC-type dipeptide import system contains the type 2 periplasmic binding fold; Region: PBP2_DppA_like; cd08493 930944002593 peptide binding site [polypeptide binding]; other site 930944002594 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 930944002595 Transposase; Region: DEDD_Tnp_IS110; pfam01548 930944002596 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 930944002597 Pertussis toxin, subunit 1; Region: Pertussis_S1; cl03779 930944002598 phage shock protein operon transcriptional activator; Provisional; Region: pspF; PRK11608 930944002599 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 930944002600 Walker A motif; other site 930944002601 ATP binding site [chemical binding]; other site 930944002602 Walker B motif; other site 930944002603 arginine finger; other site 930944002604 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 930944002605 phage shock protein PspA; Provisional; Region: PRK10698 930944002606 phage shock protein B; Provisional; Region: pspB; PRK09458 930944002607 DNA-binding transcriptional activator PspC; Provisional; Region: PRK10697 930944002608 phage shock protein C; Region: phageshock_pspC; TIGR02978 930944002609 Phage shock protein PspD (Phageshock_PspD); Region: Phageshock_PspD; pfam09584 930944002610 Predicted ATPase [General function prediction only]; Region: COG3106 930944002611 hypothetical protein; Provisional; Region: PRK05415 930944002612 Domain of unknown function (DUF697); Region: DUF697; cl12064 930944002613 RES domain; Region: RES; cl02411 930944002614 DNA-binding transcriptional regulator TyrR; Provisional; Region: PRK10820 930944002615 N-terminal ACT domain of the TyrR protein; Region: ACT_TyrR; cd04877 930944002616 putative aromatic amino acid binding site; other site 930944002617 PAS domain; Region: PAS; smart00091 930944002618 putative active site [active] 930944002619 heme pocket [chemical binding]; other site 930944002620 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 930944002621 Walker A motif; other site 930944002622 ATP binding site [chemical binding]; other site 930944002623 Walker B motif; other site 930944002624 arginine finger; other site 930944002625 Peroxiredoxin (PRX) family, Atypical 2-cys PRX subfamily; composed of PRXs containing peroxidatic and resolving cysteines, similar to the homodimeric thiol specific antioxidant (TSA) protein also known as TRX-dependent thiol peroxidase (Tpx). Tpx is a...; Region: PRX_Atyp2cys; cd03014 930944002626 dimer interface [polypeptide binding]; other site 930944002627 catalytic triad [active] 930944002628 peroxidatic and resolving cysteines [active] 930944002629 L-Ala-D/L-Glu epimerase; Provisional; Region: PRK15129 930944002630 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 930944002631 active site 930944002632 murein peptide amidase A; Provisional; Region: PRK10602 930944002633 active site 930944002634 Zn binding site [ion binding]; other site 930944002635 oligopeptide ABC transporter substrate-binding protein OppA; Provisional; Region: PRK15104 930944002636 The substrate-binding component of an ABC-type oligopetide import system contains the type 2 periplasmic binding fold; Region: PBP2_OppA; cd08504 930944002637 peptide binding site [polypeptide binding]; other site 930944002638 Mg2+ and Co2+ transporters [Inorganic ion transport and metabolism]; Region: CorA; COG0598 930944002639 Salmonella typhimurium Zn2+ transporter ZntB-like subgroup; Region: ZntB-like_1; cd12833 930944002640 Cl binding site [ion binding]; other site 930944002641 oligomer interface [polypeptide binding]; other site 930944002642 tRNA 2-thiocytidine biosynthesis protein TtcA; Provisional; Region: PRK10696 930944002643 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 930944002644 Ligand Binding Site [chemical binding]; other site 930944002645 Catalytic domain of phosphoinositide-specific phospholipase C-like phosphodiesterases superfamily; Region: PI-PLCc_GDPD_SF; cl14615 930944002646 Catalytic domain of Bacillus cereus phosphatidylinositol-specific phospholipases C and similar proteins; Region: PI-PLCc_BcPLC_like; cd08586 930944002647 active site 930944002648 catalytic site [active] 930944002649 putative metal binding site [ion binding]; other site 930944002650 pyruvate:ferredoxin (flavodoxin) oxidoreductase, homodimeric; Region: pyruv_ox_red; TIGR02176 930944002651 Pyrimidine (PYR) binding domain of pyruvate ferredoxin oxidoreductase (PFOR), indolepyruvate ferredoxin oxidoreductase alpha subunit (IOR-alpha), and related proteins; Region: TPP_PYR_PFOR_IOR-alpha_like; cd07034 930944002652 dimer interface [polypeptide binding]; other site 930944002653 PYR/PP interface [polypeptide binding]; other site 930944002654 TPP binding site [chemical binding]; other site 930944002655 substrate binding site [chemical binding]; other site 930944002656 Pyruvate:ferredoxin oxidoreductase and related 2-oxoacid:ferredoxin oxidoreductases, gamma subunit [Energy production and conversion]; Region: PorG; COG1014 930944002657 Domain of unknown function; Region: EKR; pfam10371 930944002658 4Fe-4S binding domain; Region: Fer4_6; pfam12837 930944002659 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 930944002660 Thiamine pyrophosphate (TPP family), PFOR_PNO subfamily, TPP-binding module; composed of proteins similar to the single subunit pyruvate ferredoxin oxidoreductase (PFOR) of Desulfovibrio Africanus, present in bacteria and amitochondriate eukaryotes. This...; Region: TPP_PFOR_PNO; cd03377 930944002661 TPP-binding site [chemical binding]; other site 930944002662 dimer interface [polypeptide binding]; other site 930944002663 Membrane transporters of cations and cationic drugs [Inorganic ion transport and metabolism]; Region: EmrE; COG2076 930944002664 putative Mg(2+) transport ATPase; Provisional; Region: PRK09977 930944002665 MgtC family; Region: MgtC; pfam02308 930944002666 Putative hemolysin [General function prediction only]; Region: Hlx; COG3042 930944002667 Domain of unknown function (DUF333); Region: DUF333; pfam03891 930944002668 D-Lactate and related Dehydrogenases, NAD-binding and catalytic domains; Region: LDH_like_2; cd12183 930944002669 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 930944002670 putative ligand binding site [chemical binding]; other site 930944002671 putative NAD binding site [chemical binding]; other site 930944002672 catalytic site [active] 930944002673 hypothetical protein; Provisional; Region: PRK10695 930944002674 YnbE-like lipoprotein; Region: Lipoprotein_19; pfam13617 930944002675 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3784 930944002676 azoreductase; Reviewed; Region: PRK00170 930944002677 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 930944002678 ATP-dependent RNA helicase HrpA; Provisional; Region: PRK11131 930944002679 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 930944002680 ATP binding site [chemical binding]; other site 930944002681 putative Mg++ binding site [ion binding]; other site 930944002682 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 930944002683 nucleotide binding region [chemical binding]; other site 930944002684 ATP-binding site [chemical binding]; other site 930944002685 Helicase associated domain (HA2); Region: HA2; pfam04408 930944002686 Oligonucleotide/oligosaccharide-binding (OB)-fold; Region: OB_NTP_bind; pfam07717 930944002687 Domain of unknown function (DUF3418); Region: DUF3418; pfam11898 930944002688 Phage derived protein Gp49-like (DUF891); Region: Gp49; cl01470 930944002689 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 930944002690 non-specific DNA binding site [nucleotide binding]; other site 930944002691 salt bridge; other site 930944002692 sequence-specific DNA binding site [nucleotide binding]; other site 930944002693 V8-like Glu-specific endopeptidase [Amino acid transport and metabolism]; Region: COG3591 930944002694 potential frameshift: common BLAST hit: gi|332161722|ref|YP_004298299.1| putative carboxypeptidase 930944002695 Peptidase Gluzincin family (thermolysin-like proteinases, TLPs) includes peptidases M1, M2, M3, M4, M13, M32 and M36 (fungalysins); Region: GluZincin; cl14813 930944002696 Peptidase Gluzincin family (thermolysin-like proteinases, TLPs) includes peptidases M1, M2, M3, M4, M13, M32 and M36 (fungalysins); Region: GluZincin; cl14813 930944002697 sensor protein RstB; Provisional; Region: PRK10604 930944002698 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 930944002699 dimerization interface [polypeptide binding]; other site 930944002700 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 930944002701 dimer interface [polypeptide binding]; other site 930944002702 phosphorylation site [posttranslational modification] 930944002703 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 930944002704 ATP binding site [chemical binding]; other site 930944002705 Mg2+ binding site [ion binding]; other site 930944002706 G-X-G motif; other site 930944002707 DNA-binding transcriptional regulator RstA; Provisional; Region: PRK10701 930944002708 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 930944002709 active site 930944002710 phosphorylation site [posttranslational modification] 930944002711 intermolecular recognition site; other site 930944002712 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 930944002713 DNA binding site [nucleotide binding] 930944002714 transporter, basic amino acid/polyamine antiporter (APA) family; Region: 2A0302; TIGR00905 930944002715 Spore germination protein; Region: Spore_permease; cl17796 930944002716 Protein of unknown function (DUF1471); Region: DUF1471; pfam07338 930944002717 Protein of unknown function (DUF1471); Region: DUF1471; pfam07338 930944002718 Protein of unknown function (DUF1471); Region: DUF1471; pfam07338 930944002719 NAD(P) transhydrogenase subunit alpha; Provisional; Region: pntA; PRK09424 930944002720 Rubrum transdehydrogenase NAD-binding and catalytic domains; Region: Rubrum_tdh; cd05304 930944002721 ligand binding site [chemical binding]; other site 930944002722 homodimer interface [polypeptide binding]; other site 930944002723 NAD(P) binding site [chemical binding]; other site 930944002724 trimer interface B [polypeptide binding]; other site 930944002725 trimer interface A [polypeptide binding]; other site 930944002726 Domain of unknown function (DUF3814); Region: DUF3814; pfam12769 930944002727 NAD(P) transhydrogenase beta subunit; Region: PNTB; pfam02233 930944002728 pyridine nucleotide transhydrogenase; Provisional; Region: pntB; PRK09444 930944002729 universal stress protein UspE; Provisional; Region: PRK11175 930944002730 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 930944002731 Ligand Binding Site [chemical binding]; other site 930944002732 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 930944002733 Ligand Binding Site [chemical binding]; other site 930944002734 fumarate/nitrate reduction transcriptional regulator; Provisional; Region: PRK11161 930944002735 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 930944002736 ligand binding site [chemical binding]; other site 930944002737 flexible hinge region; other site 930944002738 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 930944002739 putative switch regulator; other site 930944002740 non-specific DNA interactions [nucleotide binding]; other site 930944002741 DNA binding site [nucleotide binding] 930944002742 sequence specific DNA binding site [nucleotide binding]; other site 930944002743 putative cAMP binding site [chemical binding]; other site 930944002744 O-6-alkylguanine-DNA:cysteine-protein methyltransferase; Provisional; Region: PRK10286 930944002745 6-O-methylguanine DNA methyltransferase, ribonuclease-like domain; Region: Methyltransf_1N; pfam02870 930944002746 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 930944002747 DNA binding site [nucleotide binding] 930944002748 active site 930944002749 N-formylglutamate amidohydrolase; Region: FGase; cl01522 930944002750 Uncharacterized conserved protein [Function unknown]; Region: COG1683 930944002751 DNA gyrase inhibitor; Provisional; Region: PRK10016 930944002752 short chain dehydrogenase; Provisional; Region: PRK12937 930944002753 tetrahydroxynaphthalene/trihydroxynaphthalene reductase-like, classical (c) SDRs; Region: THN_reductase-like_SDR_c; cd05362 930944002754 NADP binding site [chemical binding]; other site 930944002755 homodimer interface [polypeptide binding]; other site 930944002756 active site 930944002757 substrate binding site [chemical binding]; other site 930944002758 alkaline phosphatase; Provisional; Region: PRK10518 930944002759 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 930944002760 dimer interface [polypeptide binding]; other site 930944002761 active site 930944002762 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 930944002763 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 930944002764 substrate binding site [chemical binding]; other site 930944002765 dimer interface [polypeptide binding]; other site 930944002766 ATP binding site [chemical binding]; other site 930944002767 potential frameshift: common BLAST hit: gi|332161738|ref|YP_004298315.1| L-fucose permease 930944002768 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 930944002769 putative substrate translocation pore; other site 930944002770 L-fucose transporter; Provisional; Region: PRK10133; cl17665 930944002771 Domain of unknown function (DUF4016); Region: DUF4016; pfam13208 930944002772 tellurite resistance protein terB; Region: terB; cd07176 930944002773 putative metal binding site [ion binding]; other site 930944002774 dUMP phosphatase; Provisional; Region: PRK09449 930944002775 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 930944002776 motif II; other site 930944002777 Acetolactate synthase, small (regulatory) subunit [Amino acid transport and metabolism]; Region: IlvH; COG0440 930944002778 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 930944002779 acetolactate synthase catalytic subunit; Validated; Region: PRK08155 930944002780 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 930944002781 PYR/PP interface [polypeptide binding]; other site 930944002782 dimer interface [polypeptide binding]; other site 930944002783 TPP binding site [chemical binding]; other site 930944002784 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 930944002785 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 930944002786 TPP-binding site [chemical binding]; other site 930944002787 dimer interface [polypeptide binding]; other site 930944002788 Protein of unknown function (DUF1460); Region: DUF1460; pfam07313 930944002789 N-acetyl-anhydromuramyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: ampD; COG3023 930944002790 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 930944002791 amidase catalytic site [active] 930944002792 Zn binding residues [ion binding]; other site 930944002793 substrate binding site [chemical binding]; other site 930944002794 Putative bacterial virulence factor; Region: Virul_Fac; pfam10139 930944002795 Virulence factor SrfB; Region: SrfB; pfam07520 930944002796 Yersinia protein of unknown function (DUF3831); Region: DUF3831; pfam12908 930944002797 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 930944002798 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 930944002799 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl17173 930944002800 potential frameshift: common BLAST hit: gi|332162543|ref|YP_004299120.1| putative transposase for IS1667 930944002801 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 930944002802 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 930944002803 Transposase; Region: DEDD_Tnp_IS110; pfam01548 930944002804 Sugar phosphate permease [Carbohydrate transport and metabolism]; Region: UhpC; COG2271 930944002805 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 930944002806 putative substrate translocation pore; other site 930944002807 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 930944002808 FIG, FBPase/IMPase/glpX-like domain. A superfamily of metal-dependent phosphatases with various substrates. Fructose-1,6-bisphospatase (both the major and the glpX-encoded variant) hydrolyze fructose-1,6,-bisphosphate to fructose-6-phosphate in...; Region: FIG; cl00289 930944002809 active site 930944002810 Transcriptional regulators [Transcription]; Region: PurR; COG1609 930944002811 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 930944002812 DNA binding site [nucleotide binding] 930944002813 domain linker motif; other site 930944002814 Ligand-binding domain of uncharacterized DNA-binding regulatory proteins that are members of the LacI-GalR family of bacterial transcription repressors; Region: PBP1_LacI_like_2; cd06278 930944002815 putative dimerization interface [polypeptide binding]; other site 930944002816 putative ligand binding site [chemical binding]; other site 930944002817 potential frameshift: common BLAST hit: gi|332161751|ref|YP_004298328.1| AMP nucleosidase 930944002818 Bacterial AMP nucleoside phosphorylase N-terminus; Region: AMNp_N; pfam10423 930944002819 AMP nucleosidase; Provisional; Region: PRK08292 930944002820 Bacterial AMP nucleoside phosphorylase N-terminus; Region: AMNp_N; pfam10423 930944002821 Nucleoside phosphorylase [Nucleotide transport and metabolism]; Region: Pfs; COG0775 930944002822 Serine Recombinase family, catalytic domain; a DNA binding domain may be present either N- or C-terminal to the catalytic domain. These enzymes perform site-specific recombination of DNA molecules by a concerted, four-strand cleavage and rejoining...; Region: Ser_Recombinase; cl02788 930944002823 catalytic nucleophile [active] 930944002824 Domain of unknown function (DUF4158); Region: DUF4158; pfam13700 930944002825 Fic family protein [Function unknown]; Region: COG3177 930944002826 Fic/DOC family; Region: Fic; pfam02661 930944002827 Transcriptional regulator [Transcription]; Region: LysR; COG0583 930944002828 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 930944002829 The C-terminal substrate binding domain of LysR-type transcriptional regulators involved in the catabolism of aromatic compounds and that of other related regulators, contains type 2 periplasmic binding fold; Region: PBP2_LTTR_aromatics_like; cd08414 930944002830 dimerization interface [polypeptide binding]; other site 930944002831 substrate binding pocket [chemical binding]; other site 930944002832 Predicted amidohydrolase [General function prediction only]; Region: COG0388 930944002833 Uncharacterized subgroup of the nitrilase superfamily (putative class 13 nitrilases); Region: nitrilase_7; cd07585 930944002834 putative active site [active] 930944002835 catalytic triad [active] 930944002836 putative dimer interface [polypeptide binding]; other site 930944002837 N-Dimethylarginine dimethylaminohydrolase [Amino acid transport and metabolism]; Region: COG1834 930944002838 Amidinotransferase; Region: Amidinotransf; cl12043 930944002839 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 930944002840 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 930944002841 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 930944002842 dimer interface [polypeptide binding]; other site 930944002843 conserved gate region; other site 930944002844 putative PBP binding loops; other site 930944002845 ABC-ATPase subunit interface; other site 930944002846 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 930944002847 Winged helix-turn-helix DNA-binding; Region: HTH_24; pfam13412 930944002848 putative DNA binding site [nucleotide binding]; other site 930944002849 putative Zn2+ binding site [ion binding]; other site 930944002850 AsnC family; Region: AsnC_trans_reg; pfam01037 930944002851 Peptidase M14 Succinylglutamate desuccinylase (ASTE)/aspartoacylase (ASPA)-like subfamily; subgroup includes Pseudomonas aeruginosa AotO; Region: M14_PaAOTO_like; cd06250 930944002852 Succinylglutamate desuccinylase / Aspartoacylase family; Region: AstE_AspA; pfam04952 930944002853 active site 930944002854 Zn binding site [ion binding]; other site 930944002855 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 930944002856 MarR family; Region: MarR_2; pfam12802 930944002857 Multidrug resistance efflux pump [Defense mechanisms]; Region: EmrA; COG1566 930944002858 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 930944002859 HlyD family secretion protein; Region: HlyD_3; pfam13437 930944002860 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 930944002861 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 930944002862 putative S-transferase; Provisional; Region: PRK11752 930944002863 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 930944002864 C-terminal domain interface [polypeptide binding]; other site 930944002865 GSH binding site (G-site) [chemical binding]; other site 930944002866 dimer interface [polypeptide binding]; other site 930944002867 C-terminal, alpha helical domain of Escherichia coli Yghu Glutathione S-transferases and related uncharacterized proteins; Region: GST_C_YghU_like; cd10292 930944002868 dimer interface [polypeptide binding]; other site 930944002869 N-terminal domain interface [polypeptide binding]; other site 930944002870 active site 930944002871 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4222 930944002872 DnaJ-domain-containing proteins 1 [Posttranslational modification, protein turnover, chaperones]; Region: DjlA; COG1076 930944002873 Zonular occludens toxin (Zot); Region: Zot; cl17485 930944002874 Phage replication protein CRI; Region: Phage_CRI; pfam05144 930944002875 phage/plasmid replication protein, gene II/X family; Region: rep_II_X; TIGR01629 930944002876 Phage X family; Region: Phage_X; pfam05155 930944002877 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 930944002878 non-specific DNA binding site [nucleotide binding]; other site 930944002879 salt bridge; other site 930944002880 sequence-specific DNA binding site [nucleotide binding]; other site 930944002881 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 930944002882 non-specific DNA binding site [nucleotide binding]; other site 930944002883 salt bridge; other site 930944002884 sequence-specific DNA binding site [nucleotide binding]; other site 930944002885 pilus (MSHA type) biogenesis protein MshL; Region: pilus_MshL; TIGR02519 930944002886 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 930944002887 Zonular occludens toxin (Zot); Region: Zot; cl17485 930944002888 Protein of unknown function (DUF1471); Region: DUF1471; cl11507 930944002889 malonic semialdehyde reductase; Provisional; Region: PRK10538 930944002890 classical (c) SDR, subgroup 5; Region: SDR_c5; cd05346 930944002891 putative NAD(P) binding site [chemical binding]; other site 930944002892 homodimer interface [polypeptide binding]; other site 930944002893 homotetramer interface [polypeptide binding]; other site 930944002894 active site 930944002895 hypothetical protein; Provisional; Region: PRK02237 930944002896 Predicted peptidase [General function prediction only]; Region: COG4099 930944002897 hypothetical protein; Provisional; Region: PRK13659 930944002898 Protein of unknown function (DUF1161); Region: DUF1161; pfam06649 930944002899 Chloride channel protein EriC [Inorganic ion transport and metabolism]; Region: EriC; COG0038 930944002900 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 930944002901 Cl- selectivity filter; other site 930944002902 Cl- binding residues [ion binding]; other site 930944002903 pore gating glutamate residue; other site 930944002904 dimer interface [polypeptide binding]; other site 930944002905 putative dithiobiotin synthetase; Provisional; Region: PRK12374 930944002906 AAA domain; Region: AAA_26; pfam13500 930944002907 Iron dependent repressor, N-terminal DNA binding domain; Region: Fe_dep_repress; pfam01325 930944002908 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 930944002909 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 930944002910 nucleotide binding site [chemical binding]; other site 930944002911 DNA-binding transcriptional regulator HcaR; Provisional; Region: PRK09906 930944002912 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 930944002913 The C-terminal substrate binding domain of LysR-type transcriptional regulators involved in the catabolism of aromatic compounds and that of other related regulators, contains type 2 periplasmic binding fold; Region: PBP2_LTTR_aromatics_like; cd08414 930944002914 dimerization interface [polypeptide binding]; other site 930944002915 substrate binding pocket [chemical binding]; other site 930944002916 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 930944002917 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 930944002918 putative substrate translocation pore; other site 930944002919 Short C-terminal domain; Region: SHOCT; pfam09851 930944002920 beta-lactamase TEM; Provisional; Region: PRK15442 930944002921 Beta-lactamase enzyme family; Region: Beta-lactamase2; pfam13354 930944002922 DNA replication terminus site-binding protein; Provisional; Region: PRK02951 930944002923 PAS fold; Region: PAS_4; pfam08448 930944002924 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 930944002925 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 930944002926 DNA binding residues [nucleotide binding] 930944002927 dimerization interface [polypeptide binding]; other site 930944002928 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 930944002929 Transposase; Region: DEDD_Tnp_IS110; pfam01548 930944002930 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 930944002931 Yersinia protein of unknown function (DUF3831); Region: DUF3831; pfam12908 930944002932 fumarate hydratase; Reviewed; Region: fumC; PRK00485 930944002933 Class II fumarases; Region: Fumarase_classII; cd01362 930944002934 active site 930944002935 tetramer interface [polypeptide binding]; other site 930944002936 mannose-6-phosphate isomerase; Provisional; Region: PRK15131 930944002937 Alpha-Mannosidase Binding Domain of Atg19/34; Region: ABD; cl15429 930944002938 Alpha-Mannosidase Binding Domain of Atg19/34; Region: ABD; cl15429 930944002939 Bacterial protein of unknown function (DUF945); Region: DUF945; pfam06097 930944002940 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5339 930944002941 phosphonate metabolim protein, transferase hexapeptide repeat family; Region: phn_thr-fam; TIGR03308 930944002942 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 930944002943 trimer interface [polypeptide binding]; other site 930944002944 active site 930944002945 substrate binding site [chemical binding]; other site 930944002946 CoA binding site [chemical binding]; other site 930944002947 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 930944002948 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 930944002949 Phosphotransferase system, EIIC; Region: PTS_EIIC; pfam02378 930944002950 PTS system, glucose-like IIB component; Region: EIIB_glc; TIGR00826 930944002951 PTS_IIB, PTS system, glucose/sucrose specific IIB subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIB_glc; cd00212 930944002952 active site turn [active] 930944002953 phosphorylation site [posttranslational modification] 930944002954 Bifunctional PLP-dependent enzyme with beta-cystathionase and maltose regulon repressor activities [Amino acid transport and metabolism]; Region: MalY; COG1168 930944002955 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 930944002956 pyridoxal 5'-phosphate binding site [chemical binding]; other site 930944002957 homodimer interface [polypeptide binding]; other site 930944002958 catalytic residue [active] 930944002959 Adenosine deaminase [Nucleotide transport and metabolism]; Region: Add; COG1816 930944002960 Adenosine deaminase (ADA) is a monomeric zinc dependent enzyme which catalyzes the irreversible hydrolytic deamination of both adenosine, as well as desoxyadenosine, to ammonia and inosine or desoxyinosine, respectively. ADA plays an important role in...; Region: ADA; cd01320 930944002961 active site 930944002962 purine riboside binding site [chemical binding]; other site 930944002963 Predicted Na+-dependent transporter [General function prediction only]; Region: COG0385 930944002964 SBF-like CPA transporter family (DUF4137); Region: DUF4137; pfam13593 930944002965 putative oxidoreductase; Provisional; Region: PRK11579 930944002966 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 930944002967 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 930944002968 DNA-binding transcriptional regulator AraC; Provisional; Region: PRK10572 930944002969 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 930944002970 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 930944002971 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 930944002972 potential frameshift: common BLAST hit: gi|332161825|ref|YP_004298402.1| L-arabinose transporter permease 930944002973 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 930944002974 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 930944002975 TM-ABC transporter signature motif; other site 930944002976 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 930944002977 L-arabinose transporter ATP-binding protein; Provisional; Region: araG; PRK11288 930944002978 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 930944002979 Walker A/P-loop; other site 930944002980 ATP binding site [chemical binding]; other site 930944002981 Q-loop/lid; other site 930944002982 ABC transporter signature motif; other site 930944002983 Walker B; other site 930944002984 D-loop; other site 930944002985 H-loop/switch region; other site 930944002986 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 930944002987 Periplasmic binding proteins and sugar binding domain of LacI family; Region: Peripla_BP_1; pfam00532 930944002988 Periplasmic L-arabinose-binding protein (ABP), a member of a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein superfamily; Region: PBP1_arabinose_binding; cd01540 930944002989 ligand binding site [chemical binding]; other site 930944002990 ribulokinase; Provisional; Region: PRK04123 930944002991 Ribulokinases; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_RBK; cd07781 930944002992 N- and C-terminal domain interface [polypeptide binding]; other site 930944002993 active site 930944002994 MgATP binding site [chemical binding]; other site 930944002995 catalytic site [active] 930944002996 metal binding site [ion binding]; metal-binding site 930944002997 carbohydrate binding site [chemical binding]; other site 930944002998 homodimer interface [polypeptide binding]; other site 930944002999 L-arabinose isomerase; Provisional; Region: PRK02929 930944003000 L-Arabinose isomerase (AI) catalyzes the isomerization of L-arabinose to L-ribulose, the first reaction in its conversion into D-xylulose-5-phosphate, an intermediate in the pentose phosphate pathway, which allows L-arabinose to be used as a carbon...; Region: L-arabinose_isomerase; cd03557 930944003001 putative hexamer (dimer of trimers) interface [polypeptide binding]; other site 930944003002 trimer interface [polypeptide binding]; other site 930944003003 putative substrate binding site [chemical binding]; other site 930944003004 putative metal binding site [ion binding]; other site 930944003005 Predicted ATPase [General function prediction only]; Region: COG4637 930944003006 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 930944003007 Walker A/P-loop; other site 930944003008 ATP binding site [chemical binding]; other site 930944003009 potential frameshift: common BLAST hit: gi|332161831|ref|YP_004298408.1| putative toxin transport protein 930944003010 type I secretion system ABC transporter, HlyB family; Region: type_I_sec_HlyB; TIGR01846 930944003011 Peptidase family C39 mostly contains bacteriocin-processing endopeptidases from bacteria. The cysteine peptidases in family C39 cleave the "double-glycine" leader peptides from the precursors of various bacteriocins (mostly non-lantibiotic); Region: Peptidase_C39_like; cl00296 930944003012 putative active site [active] 930944003013 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 930944003014 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 930944003015 Walker A/P-loop; other site 930944003016 ATP binding site [chemical binding]; other site 930944003017 Q-loop/lid; other site 930944003018 ABC transporter signature motif; other site 930944003019 Walker B; other site 930944003020 D-loop; other site 930944003021 H-loop/switch region; other site 930944003022 Peptidase family C39 mostly contains bacteriocin-processing endopeptidases from bacteria. The cysteine peptidases in family C39 cleave the "double-glycine" leader peptides from the precursors of various bacteriocins (mostly non-lantibiotic); Region: Peptidase_C39_like; cl00296 930944003023 HlyD family secretion protein; Region: HlyD_3; pfam13437 930944003024 Peptidase family C39 mostly contains bacteriocin-processing endopeptidases from bacteria. The cysteine peptidases in family C39 cleave the "double-glycine" leader peptides from the precursors of various bacteriocins (mostly non-lantibiotic); Region: Peptidase_C39_like; cl00296 930944003025 putative active site [active] 930944003026 type I secretion system ABC transporter, PrtD family; Region: type_I_sec_PrtD; TIGR01842 930944003027 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 930944003028 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 930944003029 Walker A/P-loop; other site 930944003030 ATP binding site [chemical binding]; other site 930944003031 Q-loop/lid; other site 930944003032 ABC transporter signature motif; other site 930944003033 Walker B; other site 930944003034 D-loop; other site 930944003035 formate--tetrahydrofolate ligase; Provisional; Region: PRK13506 930944003036 Formyltetrahydrofolate synthetase (FTHFS) catalyzes the ATP-dependent activation of formate ion via its addition to the N10 position of tetrahydrofolate. FTHFS is a highly expressed key enzyme in both the Wood-Ljungdahl pathway of autotrophic CO2...; Region: FTHFS; cd00477 930944003037 Potassium binding sites [ion binding]; other site 930944003038 Cesium cation binding sites [ion binding]; other site 930944003039 Protein of unknown function (DUF2569); Region: DUF2569; pfam10754 930944003040 electron transport complex protein RsxA; Provisional; Region: PRK05151 930944003041 Putative Fe-S cluster; Region: FeS; pfam04060 930944003042 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 930944003043 4Fe-4S dicluster domain; Region: Fer4_10; pfam13237 930944003044 Predicted NADH:ubiquinone oxidoreductase, subunit RnfC [Energy production and conversion]; Region: RnfC; COG4656 930944003045 SLBB domain; Region: SLBB; pfam10531 930944003046 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 930944003047 DNA-binding transcriptional regulator SoxS; Provisional; Region: PRK10219 930944003048 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 930944003049 GyrI-like small molecule binding domain; Region: GyrI-like; cl01368 930944003050 electron transport complex protein RnfD; Reviewed; Region: rnfD; PRK00816 930944003051 electron transport complex protein RnfG; Validated; Region: PRK01908 930944003052 electron transport complex RsxE subunit; Provisional; Region: PRK12405 930944003053 endonuclease III; Provisional; Region: PRK10702 930944003054 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 930944003055 minor groove reading motif; other site 930944003056 helix-hairpin-helix signature motif; other site 930944003057 substrate binding pocket [chemical binding]; other site 930944003058 active site 930944003059 iron-sulpphur binding domain in DNA-(apurinic or apyrimidinic site) lyase (subfamily of ENDO3); Region: FES; smart00525 930944003060 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 930944003061 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 930944003062 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 930944003063 Transposase; Region: DEDD_Tnp_IS110; pfam01548 930944003064 oxidoreductase alpha (molybdopterin) subunit; Region: Fdhalpha-like; TIGR01701 930944003065 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 930944003066 putative molybdopterin cofactor binding site [chemical binding]; other site 930944003067 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 930944003068 putative molybdopterin cofactor binding site; other site 930944003069 exoribonuclease II; Provisional; Region: PRK05054 930944003070 Ribonuclease B OB domain; Region: OB_RNB; pfam08206 930944003071 RNB domain; Region: RNB; pfam00773 930944003072 S1 RNA binding domain; Region: S1; pfam00575 930944003073 carbon starvation protein A; Provisional; Region: PRK15015 930944003074 Carbon starvation protein CstA; Region: CstA; pfam02554 930944003075 C-terminal domain on CstA (DUF4161); Region: DUF4161; pfam13722 930944003076 Protein of unknown function (DUF466); Region: DUF466; cl01082 930944003077 Transaldolase-like fructose-6-phosphate aldolases (FSA) found in bacteria and archaea; Region: Transaldolase_FSA; cd00956 930944003078 active site 930944003079 intersubunit interactions; other site 930944003080 catalytic residue [active] 930944003081 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 930944003082 helix_turn_helix, Deoxyribose operon repressor; Region: HTH_DEOR; smart00420 930944003083 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 930944003084 Uncharacterized conserved protein [Function unknown]; Region: COG5460 930944003085 L-ribulose-5-phosphate 4-epimerase; Reviewed; Region: araD; PRK08193 930944003086 Class II Aldolase and Adducin head (N-terminal) domain. Aldolases are ubiquitous enzymes catalyzing central steps of carbohydrate metabolism. Based on enzymatic mechanisms, this superfamily has been divided into two distinct classes (Class I and II); Region: Aldolase_II; cd00398 930944003087 intersubunit interface [polypeptide binding]; other site 930944003088 active site 930944003089 Zn2+ binding site [ion binding]; other site 930944003090 lipoprotein; Provisional; Region: PRK10540 930944003091 potential frameshift: common BLAST hit: gi|332163183|ref|YP_004299760.1| putative transposase for IS1667 930944003092 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 930944003093 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 930944003094 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl17173 930944003095 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 930944003096 Transposase; Region: DEDD_Tnp_IS110; pfam01548 930944003097 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 930944003098 translation initiation factor Sui1; Validated; Region: PRK06824 930944003099 Homologs of eIF1/SUI1 including Escherichia coli YciH; Region: YciH_like; cd11567 930944003100 putative rRNA binding site [nucleotide binding]; other site 930944003101 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 930944003102 active site 930944003103 dimer interface [polypeptide binding]; other site 930944003104 Protein of unknown function (DUF1471); Region: DUF1471; pfam07338 930944003105 potential frameshift: common BLAST hit: gi|332161858|ref|YP_004298435.1| membrane transporter 930944003106 benzoate transporter; Region: benE; TIGR00843 930944003107 benzoate transporter; Region: benE; TIGR00843 930944003108 DNA-binding transcriptional repressor PuuR; Provisional; Region: PRK09943 930944003109 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 930944003110 non-specific DNA binding site [nucleotide binding]; other site 930944003111 salt bridge; other site 930944003112 sequence-specific DNA binding site [nucleotide binding]; other site 930944003113 Cupin domain; Region: Cupin_2; pfam07883 930944003114 tetratricopeptide repeat protein; Provisional; Region: PRK11788 930944003115 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 930944003116 TPR motif; other site 930944003117 binding surface 930944003118 Predicted membrane protein [Function unknown]; Region: COG3771 930944003119 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 930944003120 PAP2_like_2 proteins. PAP2 is a super-family of phosphatases and haloperoxidases. This subgroup, which is specific to bacteria, lacks functional characterization and may act as a membrane-associated lipid phosphatase; Region: PAP2_like_2; cd03392 930944003121 active site 930944003122 GTP cyclohydrolase II (RibA). GTP cyclohydrolase II catalyzes the conversion of GTP to 2,5-diamino-6-ribosylamino-4(3H)-pyrimidinone 5' phosphate, formate, pyrophosphate (APy), and GMP in the biosynthetic pathway of riboflavin. Riboflavin is the...; Region: GTP_cyclohydro2; cd00641 930944003123 dimerization interface [polypeptide binding]; other site 930944003124 active site 930944003125 aconitate hydratase; Validated; Region: PRK09277 930944003126 Aconitase A catalytic domain; Region: AcnA_IRP; cd01586 930944003127 substrate binding site [chemical binding]; other site 930944003128 ligand binding site [chemical binding]; other site 930944003129 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 930944003130 substrate binding site [chemical binding]; other site 930944003131 transcriptional regulator CysB; Reviewed; Region: cysB; PRK12681 930944003132 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 930944003133 The C-terminal substrate domain of LysR-type transcriptional regulator CysB contains type 2 periplasmic binding fold; Region: PBP2_CysB; cd08443 930944003134 substrate binding site [chemical binding]; other site 930944003135 putative dimerization interface [polypeptide binding]; other site 930944003136 DNA topoisomerase I subunit omega; Validated; Region: PRK07561 930944003137 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 930944003138 active site 930944003139 interdomain interaction site; other site 930944003140 putative metal-binding site [ion binding]; other site 930944003141 nucleotide binding site [chemical binding]; other site 930944003142 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 930944003143 domain I; other site 930944003144 DNA binding groove [nucleotide binding] 930944003145 phosphate binding site [ion binding]; other site 930944003146 domain II; other site 930944003147 domain III; other site 930944003148 nucleotide binding site [chemical binding]; other site 930944003149 catalytic site [active] 930944003150 domain IV; other site 930944003151 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 930944003152 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 930944003153 Topoisomerase I zinc-ribbon-like; Region: Topo_Zn_Ribbon; pfam08272 930944003154 Topoisomerase I zinc-ribbon-like; Region: Topo_Zn_Ribbon; pfam08272 930944003155 hypothetical protein; Provisional; Region: PRK11037 930944003156 Peptidase family S49 N-terminal; Region: Peptidase_S49_N; pfam08496 930944003157 putative inner membrane peptidase; Provisional; Region: PRK11778 930944003158 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 930944003159 tandem repeat interface [polypeptide binding]; other site 930944003160 oligomer interface [polypeptide binding]; other site 930944003161 active site residues [active] 930944003162 putative oxoacyl-(acyl carrier protein) reductase; Provisional; Region: PRK08945 930944003163 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 930944003164 NAD(P) binding site [chemical binding]; other site 930944003165 active site 930944003166 ATP:corrinoid adenosyltransferase [Coenzyme metabolism]; Region: BtuR; COG2109 930944003167 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 930944003168 homodimer interface [polypeptide binding]; other site 930944003169 Walker A motif; other site 930944003170 ATP binding site [chemical binding]; other site 930944003171 hydroxycobalamin binding site [chemical binding]; other site 930944003172 Walker B motif; other site 930944003173 23S rRNA pseudouridylate synthase B; Provisional; Region: PRK10700 930944003174 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 930944003175 RNA binding surface [nucleotide binding]; other site 930944003176 Pseudouridine synthase, Escherichia coli RluB like; Region: PseudoU_synth_RluB; cd02556 930944003177 probable active site [active] 930944003178 hypothetical protein; Provisional; Region: PRK11630 930944003179 Predicted metal-dependent phosphoesterases (PHP family) [General function prediction only]; Region: COG0613 930944003180 Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase (HisPPase) AMP bound; Region: PHP_HisPPase_AMP; cd07438 930944003181 active site 930944003182 Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase (HisPPase) AMP bound; Region: PHP_HisPPase_AMP; cd07438 930944003183 anthranilate synthase component I; Provisional; Region: PRK13564 930944003184 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 930944003185 chorismate binding enzyme; Region: Chorismate_bind; pfam00425 930944003186 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 930944003187 Glutamine amidotransferase class-I; Region: GATase; pfam00117 930944003188 glutamine binding [chemical binding]; other site 930944003189 catalytic triad [active] 930944003190 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 930944003191 anthranilate phosphoribosyltransferase; Provisional; Region: trpD; PRK00188 930944003192 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 930944003193 bifunctional indole-3-glycerol phosphate synthase/phosphoribosylanthranilate isomerase; Provisional; Region: PRK09427 930944003194 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 930944003195 active site 930944003196 ribulose/triose binding site [chemical binding]; other site 930944003197 phosphate binding site [ion binding]; other site 930944003198 substrate (anthranilate) binding pocket [chemical binding]; other site 930944003199 product (indole) binding pocket [chemical binding]; other site 930944003200 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 930944003201 active site 930944003202 tryptophan synthase, beta subunit; Region: trpB; TIGR00263 930944003203 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 930944003204 pyridoxal 5'-phosphate binding site [chemical binding]; other site 930944003205 catalytic residue [active] 930944003206 tryptophan synthase alpha subunit; Provisional; Region: trpA; CHL00200 930944003207 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 930944003208 substrate binding site [chemical binding]; other site 930944003209 active site 930944003210 catalytic residues [active] 930944003211 heterodimer interface [polypeptide binding]; other site 930944003212 Predicted periplasmic or secreted lipoprotein [General function prediction only]; Region: OsmY; COG2823 930944003213 BON domain; Region: BON; pfam04972 930944003214 outer membrane protein W; Provisional; Region: PRK10959 930944003215 Predicted Fe-S-cluster oxidoreductase [General function prediction only]; Region: COG0727 930944003216 hypothetical protein; Provisional; Region: PRK02868 930944003217 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 930944003218 Sulfate transporter N-terminal domain with GLY motif; Region: Sulfate_tra_GLY; pfam13792 930944003219 Sulfate transporter family; Region: Sulfate_transp; pfam00916 930944003220 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 930944003221 intracellular septation protein A; Reviewed; Region: PRK00259 930944003222 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 930944003223 transport protein TonB; Provisional; Region: PRK10819 930944003224 Gram-negative bacterial tonB protein; Region: TonB; pfam03544 930944003225 YciI-like protein; Reviewed; Region: PRK11370 930944003226 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 930944003227 cardiolipin synthetase; Reviewed; Region: cls; PRK01642 930944003228 Phospholipase_D-nuclease N-terminal; Region: PLDc_N; pfam13396 930944003229 Catalytic domain, repeat 1, of Escherichia coli cardiolipin synthase and similar proteins; Region: PLDc_EcCLS_like_1; cd09152 930944003230 putative active site [active] 930944003231 catalytic site [active] 930944003232 Catalytic domain, repeat 2, of Escherichia coli cardiolipin synthase and similar proteins; Region: PLDc_EcCLS_like_2; cd09158 930944003233 putative active site [active] 930944003234 catalytic site [active] 930944003235 dsDNA-mimic protein; Reviewed; Region: PRK05094 930944003236 oligopeptide ABC transporter ATP-binding protein OppF; Provisional; Region: PRK15079 930944003237 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 930944003238 Walker A/P-loop; other site 930944003239 ATP binding site [chemical binding]; other site 930944003240 Q-loop/lid; other site 930944003241 ABC transporter signature motif; other site 930944003242 Walker B; other site 930944003243 D-loop; other site 930944003244 H-loop/switch region; other site 930944003245 oligopeptide/dipeptide ABC transporter, ATP-binding protein, C-terminal domain; Region: oligo_HPY; TIGR01727 930944003246 oligopeptide transporter ATP-binding component; Provisional; Region: oppD; PRK09473 930944003247 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 930944003248 Walker A/P-loop; other site 930944003249 ATP binding site [chemical binding]; other site 930944003250 Q-loop/lid; other site 930944003251 ABC transporter signature motif; other site 930944003252 Walker B; other site 930944003253 D-loop; other site 930944003254 H-loop/switch region; other site 930944003255 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 930944003256 oligopeptide ABC transporter permease OppC; Provisional; Region: PRK15406 930944003257 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 930944003258 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 930944003259 dimer interface [polypeptide binding]; other site 930944003260 conserved gate region; other site 930944003261 ABC-ATPase subunit interface; other site 930944003262 oligopeptide transporter permease; Reviewed; Region: oppB; PRK09471 930944003263 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 930944003264 dimer interface [polypeptide binding]; other site 930944003265 conserved gate region; other site 930944003266 putative PBP binding loops; other site 930944003267 ABC-ATPase subunit interface; other site 930944003268 oligopeptide ABC transporter substrate-binding protein OppA; Provisional; Region: PRK15104 930944003269 The substrate-binding component of an ABC-type oligopetide import system contains the type 2 periplasmic binding fold; Region: PBP2_OppA; cd08504 930944003270 peptide binding site [polypeptide binding]; other site 930944003271 oligopeptide ABC transporter substrate-binding protein OppA; Provisional; Region: PRK15104 930944003272 The substrate-binding component of an ABC-type oligopetide import system contains the type 2 periplasmic binding fold; Region: PBP2_OppA; cd08504 930944003273 peptide binding site [polypeptide binding]; other site 930944003274 hypothetical protein; Provisional; Region: PRK11111 930944003275 bifunctional acetaldehyde-CoA/alcohol dehydrogenase; Provisional; Region: PRK13805 930944003276 Coenzyme A acylating aldehyde dehydrogenase (ACDH), ALDH family 20-like; Region: ALDH_F20_ACDH; cd07122 930944003277 putative catalytic cysteine [active] 930944003278 C-terminal alcohol dehydrogenase domain of the acetaldehyde dehydrogenase-alcohol dehydrogenase bifunctional two-domain protein (AAD); Region: AAD_C; cd08178 930944003279 putative active site [active] 930944003280 metal binding site [ion binding]; metal-binding site 930944003281 thymidine kinase; Provisional; Region: PRK04296 930944003282 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 930944003283 ATP binding site [chemical binding]; other site 930944003284 Walker A motif; other site 930944003285 Walker B motif; other site 930944003286 global DNA-binding transcriptional dual regulator H-NS; Provisional; Region: PRK10947 930944003287 Domain in histone-like proteins of HNS family; Region: HNS; smart00528 930944003288 Predicted UDP-glucose 6-dehydrogenase [Cell envelope biogenesis, outer membrane]; Region: Ugd; COG1004 930944003289 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 930944003290 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 930944003291 UDP binding domain; Region: UDPG_MGDP_dh_C; smart00984 930944003292 potential frameshift: common BLAST hit: gi|123442499|ref|YP_001006477.1| response regulator of RpoS 930944003293 response regulator of RpoS; Provisional; Region: PRK10693 930944003294 Response regulator receiver domain; Region: Response_reg; pfam00072 930944003295 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 930944003296 active site 930944003297 phosphorylation site [posttranslational modification] 930944003298 intermolecular recognition site; other site 930944003299 dimerization interface [polypeptide binding]; other site 930944003300 hypothetical protein; Provisional; Region: PRK10279 930944003301 Bacterial patatin-like phospholipase domain containing protein 6; Region: Pat_NTE_like_bacteria; cd07228 930944003302 nucleophile elbow; other site 930944003303 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 930944003304 SEC-C motif; Region: SEC-C; pfam02810 930944003305 hypothetical protein; Provisional; Region: PRK04233 930944003306 formyltetrahydrofolate deformylase; Reviewed; Region: purU; PRK06027 930944003307 N-terminal ACT domain of formyltetrahydrofolate deformylase (F4HF-DF; formyltetrahydrofolate hydrolase); Region: ACT_F4HF-DF; cd04875 930944003308 Formyltetrahydrofolate deformylase (Formyl-FH4 hydrolase), C-terminal hydrolase domain; Region: FMT_core_Formyl-FH4-Hydrolase_C; cd08648 930944003309 putative active site [active] 930944003310 putative substrate binding site [chemical binding]; other site 930944003311 putative cosubstrate binding site; other site 930944003312 catalytic site [active] 930944003313 Transcriptional regulator [Transcription]; Region: LysR; COG0583 930944003314 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 930944003315 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 930944003316 putative catalytic site [active] 930944003317 putative phosphate binding site [ion binding]; other site 930944003318 active site 930944003319 metal binding site A [ion binding]; metal-binding site 930944003320 DNA binding site [nucleotide binding] 930944003321 putative AP binding site [nucleotide binding]; other site 930944003322 putative metal binding site B [ion binding]; other site 930944003323 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 930944003324 active site 930944003325 8-oxo-dGMP binding site [chemical binding]; other site 930944003326 nudix motif; other site 930944003327 metal binding site [ion binding]; metal-binding site 930944003328 DNA topoisomerase III; Provisional; Region: PRK07726 930944003329 TOPRIM_TopoIA_TopoIII: The topoisomerase-primase (TORPIM) domain found in members of the type IA family of DNA topoisomerases (Topo IA) similar to topoisomerase III. Type IA DNA topoisomerases remove (relax) negative supercoils in the DNA by: cleaving...; Region: TOPRIM_TopoIA_TopoIII; cd03362 930944003330 active site 930944003331 putative interdomain interaction site [polypeptide binding]; other site 930944003332 putative metal-binding site [ion binding]; other site 930944003333 putative nucleotide binding site [chemical binding]; other site 930944003334 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 930944003335 domain I; other site 930944003336 DNA binding groove [nucleotide binding] 930944003337 phosphate binding site [ion binding]; other site 930944003338 domain II; other site 930944003339 domain III; other site 930944003340 nucleotide binding site [chemical binding]; other site 930944003341 catalytic site [active] 930944003342 domain IV; other site 930944003343 selenophosphate synthetase; Provisional; Region: PRK00943 930944003344 Selenophosphate synthetase (SelD) catalyzes the conversion of selenium to selenophosphate which is required by a number of bacterial, archaeal and eukaryotic organisms for synthesis of Secys-tRNA, the precursor of selenocysteine in selenoenzymes. The...; Region: SelD; cd02195 930944003345 dimerization interface [polypeptide binding]; other site 930944003346 putative ATP binding site [chemical binding]; other site 930944003347 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 930944003348 putative FMN binding site [chemical binding]; other site 930944003349 protease 4; Provisional; Region: PRK10949 930944003350 Signal peptide peptidase A (SppA) 67K type, a serine protease, has catalytic Ser-Lys dyad; Region: S49_SppA_67K_type; cd07018 930944003351 tandem repeat interface [polypeptide binding]; other site 930944003352 oligomer interface [polypeptide binding]; other site 930944003353 active site residues [active] 930944003354 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_SppA_1; cd07019 930944003355 tandem repeat interface [polypeptide binding]; other site 930944003356 oligomer interface [polypeptide binding]; other site 930944003357 active site residues [active] 930944003358 Type I (cytosolic) bacterial L-asparaginase; Region: L-asparaginase_I; cd08963 930944003359 active site 930944003360 homodimer interface [polypeptide binding]; other site 930944003361 Isochorismatase family; Region: Isochorismatase; pfam00857 930944003362 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 930944003363 catalytic triad [active] 930944003364 metal binding site [ion binding]; metal-binding site 930944003365 conserved cis-peptide bond; other site 930944003366 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 930944003367 Transposase; Region: DEDD_Tnp_IS110; pfam01548 930944003368 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 930944003369 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 930944003370 Protein of unknown function (DUF1315); Region: DUF1315; cl01215 930944003371 methionine sulfoxide reductase B; Provisional; Region: PRK00222 930944003372 SelR domain; Region: SelR; pfam01641 930944003373 glyceraldehyde-3-phosphate dehydrogenase A; Provisional; Region: gapA; PRK15425 930944003374 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; smart00846 930944003375 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 930944003376 D-hexose-6-phosphate epimerase-like; Region: D-hex-6-P-epi_like; cd09020 930944003377 active site 930944003378 phosphate binding residues; other site 930944003379 catalytic residues [active] 930944003380 Outer membrane protein V [Cell envelope biogenesis, outer membrane]; Region: OmpV; COG3713 930944003381 PrkA family serine protein kinase; Provisional; Region: PRK15455 930944003382 AAA ATPase domain; Region: AAA_16; pfam13191 930944003383 Walker A motif; other site 930944003384 ATP binding site [chemical binding]; other site 930944003385 PrkA serine protein kinase C-terminal domain; Region: PrkA; pfam06798 930944003386 hypothetical protein; Provisional; Region: PRK05325 930944003387 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 930944003388 EamA-like transporter family; Region: EamA; pfam00892 930944003389 LysR family transcriptional regulator; Provisional; Region: PRK14997 930944003390 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 930944003391 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator CrgA-like, contains the type 2 periplasmic binding fold; Region: PBP2_CrgA_like_4; cd08473 930944003392 putative effector binding pocket; other site 930944003393 putative dimerization interface [polypeptide binding]; other site 930944003394 Pirin-related protein [General function prediction only]; Region: COG1741 930944003395 Pirin; Region: Pirin; pfam02678 930944003396 Pirin C-terminal cupin domain; Region: Pirin_C; pfam05726 930944003397 cyclic-di-GMP phosphodiesterase; Provisional; Region: PRK11359 930944003398 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 930944003399 putative active site [active] 930944003400 heme pocket [chemical binding]; other site 930944003401 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 930944003402 putative active site [active] 930944003403 heme pocket [chemical binding]; other site 930944003404 GAF domain; Region: GAF; pfam01590 930944003405 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 930944003406 metal binding site [ion binding]; metal-binding site 930944003407 active site 930944003408 I-site; other site 930944003409 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 930944003410 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 930944003411 putative substrate translocation pore; other site 930944003412 Major Facilitator Superfamily; Region: MFS_1; pfam07690 930944003413 alanine racemase; Reviewed; Region: dadX; PRK03646 930944003414 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, Proteobacterial Alanine Racemases; Region: PLPDE_III_AR_proteobact; cd06827 930944003415 active site 930944003416 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 930944003417 substrate binding site [chemical binding]; other site 930944003418 catalytic residues [active] 930944003419 dimer interface [polypeptide binding]; other site 930944003420 D-amino acid dehydrogenase small subunit; Validated; Region: PRK00711 930944003421 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 930944003422 hydroxyglutarate oxidase; Provisional; Region: PRK11728 930944003423 SpoVR family protein; Provisional; Region: PRK11767 930944003424 Uncharacterized conserved protein [Function unknown]; Region: SpoVR; COG2719 930944003425 fatty acid metabolism regulator; Provisional; Region: PRK04984 930944003426 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 930944003427 DNA-binding site [nucleotide binding]; DNA binding site 930944003428 FadR C-terminal domain; Region: FadR_C; pfam07840 930944003429 sodium/proton antiporter; Reviewed; Region: nhaB; PRK09547 930944003430 disulfide bond formation protein B; Provisional; Region: PRK01749 930944003431 Udp N-acetylglucosamine O-acyltransferase; Domain 2; Region: Acetyltransf_11; pfam13720 930944003432 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 930944003433 Transposase; Region: DEDD_Tnp_IS110; pfam01548 930944003434 hypothetical protein; Provisional; Region: PRK05170 930944003435 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 930944003436 hypothetical protein; Provisional; Region: PRK10691 930944003437 lytic murein transglycosylase; Region: MltB_2; TIGR02283 930944003438 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 930944003439 N-acetyl-D-glucosamine binding site [chemical binding]; other site 930944003440 catalytic residue [active] 930944003441 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3100 930944003442 septum formation inhibitor; Reviewed; Region: minC; PRK03511 930944003443 Septum formation inhibitor MinC, N-terminal domain; Region: MinC_N; pfam05209 930944003444 Septum formation inhibitor MinC, C-terminal domain; Region: MinC_C; pfam03775 930944003445 cell division inhibitor MinD; Provisional; Region: PRK10818 930944003446 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 930944003447 Switch I; other site 930944003448 Switch II; other site 930944003449 cell division topological specificity factor MinE; Reviewed; Region: minE; PRK00296 930944003450 ribonuclease D; Provisional; Region: PRK10829 930944003451 DEDDy 3'-5' exonuclease domain of Ribonuclease D and similar proteins; Region: RNaseD_exo; cd06142 930944003452 catalytic site [active] 930944003453 putative active site [active] 930944003454 putative substrate binding site [chemical binding]; other site 930944003455 HRDC domain; Region: HRDC; pfam00570 930944003456 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK08974 930944003457 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 930944003458 Prokaryotic long-chain fatty acid CoA synthetases similar to Escherichia coli FadD; Region: FC-FACS_FadD_like; cd05936 930944003459 acyl-activating enzyme (AAE) consensus motif; other site 930944003460 putative AMP binding site [chemical binding]; other site 930944003461 putative active site [active] 930944003462 putative CoA binding site [chemical binding]; other site 930944003463 Starvation-inducible outer membrane lipoprotein [Cell envelope biogenesis, outer membrane]; Region: Slp; COG3065 930944003464 tRNA threonylcarbamoyl adenosine modification protein YeaZ; Region: T6A_YeaZ; TIGR03725 930944003465 Glycoprotease family; Region: Peptidase_M22; pfam00814 930944003466 Rad3-related DNA helicases [Transcription / DNA replication, recombination, and repair]; Region: DinG; COG1199 930944003467 CRISPR/Cas system-associated DinG family helicase Csf4; Region: Csf4_U; cl17460 930944003468 Helicase C-terminal domain; Region: Helicase_C_2; pfam13307 930944003469 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; cl10015 930944003470 homotrimer interaction site [polypeptide binding]; other site 930944003471 putative active site [active] 930944003472 multidrug efflux system protein MdtI; Provisional; Region: PRK10650 930944003473 multidrug efflux system protein MdtJ; Provisional; Region: PRK10452 930944003474 keto-hydroxyglutarate-aldolase/keto-deoxy- phosphogluconate aldolase; Provisional; Region: PRK05718 930944003475 KDPG and KHG aldolase; Region: KDPG_aldolase; cd00452 930944003476 active site 930944003477 intersubunit interface [polypeptide binding]; other site 930944003478 catalytic residue [active] 930944003479 glucose-6-phosphate 1-dehydrogenase; Validated; Region: PRK05722 930944003480 Glucose-6-phosphate dehydrogenase, NAD binding domain; Region: G6PD_N; pfam00479 930944003481 Glucose-6-phosphate dehydrogenase, C-terminal domain; Region: G6PD_C; pfam02781 930944003482 DNA-binding transcriptional regulator HexR; Provisional; Region: PRK11302 930944003483 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 930944003484 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 930944003485 putative active site [active] 930944003486 pyruvate kinase; Provisional; Region: PRK05826 930944003487 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 930944003488 domain interfaces; other site 930944003489 active site 930944003490 Bacterial lipid A biosynthesis acyltransferase; Region: Lip_A_acyltrans; pfam03279 930944003491 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 930944003492 putative acyl-acceptor binding pocket; other site 930944003493 putative peptidase; Provisional; Region: PRK11649 930944003494 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 930944003495 Peptidase family M23; Region: Peptidase_M23; pfam01551 930944003496 high-affinity zinc transporter periplasmic component; Reviewed; Region: znuA; PRK09545 930944003497 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 930944003498 metal binding site [ion binding]; metal-binding site 930944003499 high-affinity zinc transporter ATPase; Reviewed; Region: znuC; PRK09544 930944003500 ATP-binding cassette domain of the metal-type transporters; Region: ABC_Metallic_Cations; cd03235 930944003501 ABC-type Mn2+/Zn2+ transport systems, permease components [Inorganic ion transport and metabolism]; Region: ZnuB; COG1108 930944003502 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 930944003503 ABC-ATPase subunit interface; other site 930944003504 dimer interface [polypeptide binding]; other site 930944003505 putative PBP binding regions; other site 930944003506 dipeptide/tripeptide permease B; Provisional; Region: PRK10207 930944003507 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 930944003508 putative substrate translocation pore; other site 930944003509 POT family; Region: PTR2; pfam00854 930944003510 Holliday junction DNA helicase RuvB; Reviewed; Region: ruvB; PRK00080 930944003511 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 930944003512 Walker A motif; other site 930944003513 ATP binding site [chemical binding]; other site 930944003514 Walker B motif; other site 930944003515 arginine finger; other site 930944003516 Holliday junction DNA helicase ruvB C-terminus; Region: RuvB_C; pfam05491 930944003517 Holliday junction DNA helicase RuvA; Reviewed; Region: ruvA; PRK00116 930944003518 RuvA N terminal domain; Region: RuvA_N; pfam01330 930944003519 RuvA, C-terminal domain; Region: RuvA_C; pfam07499 930944003520 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 930944003521 active site 930944003522 putative DNA-binding cleft [nucleotide binding]; other site 930944003523 dimer interface [polypeptide binding]; other site 930944003524 hypothetical protein; Validated; Region: PRK00110 930944003525 Members of the Nudix hydrolase superfamily catalyze the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+, for their activity and contain a highly...; Region: Nudix_Hydrolase_7; cd04664 930944003526 nudix motif; other site 930944003527 aspartyl-tRNA synthetase; Validated; Region: aspS; PRK00476 930944003528 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 930944003529 dimer interface [polypeptide binding]; other site 930944003530 anticodon binding site; other site 930944003531 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 930944003532 homodimer interface [polypeptide binding]; other site 930944003533 motif 1; other site 930944003534 active site 930944003535 motif 2; other site 930944003536 GAD domain; Region: GAD; pfam02938 930944003537 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 930944003538 active site 930944003539 motif 3; other site 930944003540 Isochorismatase family; Region: Isochorismatase; pfam00857 930944003541 Cysteine hydrolases; This family contains amidohydrolases, like CSHase (N-carbamoylsarcosine amidohydrolase), involved in creatine metabolism and nicotinamidase, converting nicotinamide to nicotinic acid and ammonia in the pyridine nucleotide cycle. It...; Region: cysteine_hydrolases; cd00431 930944003542 catalytic triad [active] 930944003543 conserved cis-peptide bond; other site 930944003544 hypothetical protein; Provisional; Region: PRK10302 930944003545 Uncharacterized relative of glutathione S-transferase, MAPEG superfamily [General function prediction only]; Region: COG3788 930944003546 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 930944003547 S-adenosylmethionine binding site [chemical binding]; other site 930944003548 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 930944003549 S-adenosylmethionine binding site [chemical binding]; other site 930944003550 DNA-binding transcriptional regulator AgaR; Provisional; Region: PRK09802 930944003551 DeoR-like helix-turn-helix domain; Region: HTH_DeoR; pfam08220 930944003552 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 930944003553 tagatose 6-phosphate aldolase subunit KbaZ; Provisional; Region: PRK15458 930944003554 PTS_IIB, PTS system, Mannose/sorbose specific IIB subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIB_man; cd00001 930944003555 active site 930944003556 phosphorylation site [posttranslational modification] 930944003557 Phosphotransferase system, mannose/fructose/N-acetylgalactosamine-specific component IIC [Carbohydrate transport and metabolism]; Region: ManY; COG3715 930944003558 Phosphotransferase system, mannose/fructose/N-acetylgalactosamine-specific component IID [Carbohydrate transport and metabolism]; Region: ManZ; COG3716 930944003559 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 930944003560 active pocket/dimerization site; other site 930944003561 active site 930944003562 phosphorylation site [posttranslational modification] 930944003563 putative sugar isomerase, AgaS family; Region: agaS_fam; TIGR02815 930944003564 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 930944003565 dimer interface [polypeptide binding]; other site 930944003566 active site 930944003567 AgaS-like protein. AgaS contains a SIS (Sugar ISomerase) domain which is found in many phosphosugar isomerases and phosphosugar binding proteins. AgaS is a putative isomerase in Escherichia coli. It is similar to the glucosamine-6-phosphate synthases; Region: SIS_AgaS_like; cd05010 930944003568 putative active site [active] 930944003569 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 930944003570 fructose-bisphosphate aldolase; Provisional; Region: PRK09197 930944003571 intersubunit interface [polypeptide binding]; other site 930944003572 active site 930944003573 zinc binding site [ion binding]; other site 930944003574 Na+ binding site [ion binding]; other site 930944003575 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 930944003576 Peptidase family M23; Region: Peptidase_M23; pfam01551 930944003577 potential frameshift: common BLAST hit: gi|332161490|ref|YP_004298067.1| transposase for IS1668 930944003578 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 930944003579 potential frameshift: common BLAST hit: gi|332161948|ref|YP_004298525.1| transposase for IS1668 930944003580 Transposase domain (DUF772); Region: DUF772; pfam05598 930944003581 hypothetical protein; Provisional; Region: PRK09273 930944003582 Ribose 5-phosphate isomerase RpiB [Carbohydrate transport and metabolism]; Region: RpiB; COG0698 930944003583 Ribose-5-phosphate isomerase; Region: DUF3666; pfam12408 930944003584 Pertactin-like passenger domains (virulence factors) of autotransporter proteins of the type V secretion system. Autotransporters are proteins used by Gram-negative bacteria to transport proteins across their outer membranes. The C-terminal (beta) domain...; Region: PL_Passenger_AT; cl00185 930944003585 Autotransporter beta-domain; Region: Autotransporter; smart00869 930944003586 zinc/cadmium-binding protein; Provisional; Region: PRK10306 930944003587 HutD; Region: HutD; pfam05962 930944003588 N-formimino-L-glutamate deiminase; Validated; Region: PRK09229 930944003589 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 930944003590 active site 930944003591 histidine utilization repressor, proteobacterial; Region: his_ut_repres; TIGR02018 930944003592 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 930944003593 DNA-binding site [nucleotide binding]; DNA binding site 930944003594 UTRA domain; Region: UTRA; pfam07702 930944003595 imidazolonepropionase; Validated; Region: PRK09356 930944003596 Imidazolonepropionase/imidazolone-5-propionate hydrolase (Imidazolone-5PH) catalyzes the third step in the histidine degradation pathway, the hydrolysis of (S)-3-(5-oxo-4,5-dihydro-3H-imidazol-4-yl)propanoate to N-formimidoyl-L-glutamate. In bacteria; Region: Imidazolone-5PH; cd01296 930944003597 active site 930944003598 N-formylglutamate amidohydrolase; Region: FGase; cl01522 930944003599 Helix-turn-helix domain; Region: HTH_28; pfam13518 930944003600 putative transposase OrfB; Reviewed; Region: PHA02517 930944003601 Integrase core domain; Region: rve; pfam00665 930944003602 Integrase core domain; Region: rve_3; pfam13683 930944003603 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 930944003604 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 930944003605 trimer interface [polypeptide binding]; other site 930944003606 eyelet of channel; other site 930944003607 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 930944003608 Transposase; Region: DEDD_Tnp_IS110; pfam01548 930944003609 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 930944003610 Peptidase M14 Succinylglutamate desuccinylase (ASTE) subfamily; Region: M14_ASTE; cd03855 930944003611 Succinylglutamate desuccinylase / Aspartoacylase family; Region: AstE_AspA; pfam04952 930944003612 putative active site [active] 930944003613 Zn binding site [ion binding]; other site 930944003614 potential frameshift: common BLAST hit: gi|332161478|ref|YP_004298055.1| succinylarginine dihydrolase 930944003615 Succinylarginine dihydrolase; Region: AstB; cl01511 930944003616 Succinylarginine dihydrolase; Region: AstB; cl01511 930944003617 succinylglutamic semialdehyde dehydrogenase; Reviewed; Region: astD; PRK09457 930944003618 N-succinylglutamate 5-semialdehyde dehydrogenase, AstD-like; Region: ALDH_SGSD_AstD; cd07095 930944003619 NAD(P) binding site [chemical binding]; other site 930944003620 catalytic residues [active] 930944003621 arginine succinyltransferase; Provisional; Region: PRK10456 930944003622 Arginine/ornithine N-succinyltransferase beta subunit [Amino acid transport and metabolism]; Region: AstA; COG3138 930944003623 bifunctional succinylornithine transaminase/acetylornithine transaminase; Provisional; Region: PRK12381 930944003624 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 930944003625 inhibitor-cofactor binding pocket; inhibition site 930944003626 pyridoxal 5'-phosphate binding site [chemical binding]; other site 930944003627 catalytic residue [active] 930944003628 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 930944003629 DNA-binding site [nucleotide binding]; DNA binding site 930944003630 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 930944003631 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 930944003632 pyridoxal 5'-phosphate binding site [chemical binding]; other site 930944003633 homodimer interface [polypeptide binding]; other site 930944003634 catalytic residue [active] 930944003635 Bacterial Cytochrome Ubiquinol Oxidase; Region: Bac_Ubq_Cox; pfam01654 930944003636 Cytochrome oxidase subunit II; Region: Cyto_ox_2; pfam02322 930944003637 cytochrome d ubiquinol oxidase subunit 2; Provisional; Region: PRK15003; cl12219 930944003638 Protein of unknown function (DUF2474); Region: DUF2474; pfam10617 930944003639 nitrate/nitrite sensor protein NarX; Provisional; Region: PRK10600 930944003640 Type IV pili methyl-accepting chemotaxis transducer N-term; Region: PilJ; pfam13675 930944003641 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 930944003642 dimerization interface [polypeptide binding]; other site 930944003643 Histidine kinase; Region: HisKA_3; pfam07730 930944003644 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 930944003645 ATP binding site [chemical binding]; other site 930944003646 Mg2+ binding site [ion binding]; other site 930944003647 G-X-G motif; other site 930944003648 transcriptional regulator Cbl; Reviewed; Region: cbl; PRK12679 930944003649 The C-terminal substrate domain of LysR-type transcriptional regulators CysB-like contains type 2 periplasmic binding fold; Region: PBP2_CysB_like; cd08413 930944003650 substrate binding site [chemical binding]; other site 930944003651 dimerization interface [polypeptide binding]; other site 930944003652 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 930944003653 Transposase; Region: DEDD_Tnp_IS110; pfam01548 930944003654 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 930944003655 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 930944003656 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 930944003657 putative substrate translocation pore; other site 930944003658 Siderophore-interacting protein [Inorganic ion transport and metabolism]; Region: ViuB; COG2375 930944003659 Siderophore interacting proteins share the domain structure of the ferredoxin reductase like family. Siderophores are produced in various bacteria (and some plants) to extract iron from hosts. Binding constants are high, so iron can be pilfered from...; Region: siderophore_interacting; cd06193 930944003660 FAD binding pocket [chemical binding]; other site 930944003661 FAD binding motif [chemical binding]; other site 930944003662 phosphate binding motif [ion binding]; other site 930944003663 NAD binding pocket [chemical binding]; other site 930944003664 calcium/sodium:proton antiporter; Provisional; Region: PRK10599 930944003665 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 930944003666 Uncharacterized membrane protein, putative virulence factor [General function prediction only]; Region: MviN; COG0728 930944003667 MurJ/MviN, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_MurJ_like; cd13123 930944003668 potential frameshift: common BLAST hit: gi|384126210|ref|YP_005508824.1| putative oxidoreductase 930944003669 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 930944003670 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 930944003671 hypothetical protein; Provisional; Region: PRK11239 930944003672 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3132 930944003673 ribosomal-protein-S5-alanine N-acetyltransferase; Provisional; Region: PRK10809 930944003674 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 930944003675 Protein of unknown function (DUF4225); Region: DUF4225; pfam13988 930944003676 multidrug resistance protein MdtH; Provisional; Region: PRK11646 930944003677 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 930944003678 putative substrate translocation pore; other site 930944003679 lipoprotein; Provisional; Region: PRK10598 930944003680 Uncharacterized component of anaerobic dehydrogenases [General function prediction only]; Region: TorD; COG3381 930944003681 putative hydrolase; Validated; Region: PRK09248 930944003682 Polymerase and Histidinol Phosphatase domain of Ycdx like; Region: PHP_HisPPase_Ycdx_like; cd07437 930944003683 active site 930944003684 bifunctional glyoxylate/hydroxypyruvate reductase A; Provisional; Region: ghrA; PRK15469 930944003685 Putative glycerate dehydrogenase and related proteins of the D-specific 2-hydroxy dehydrogenase family; Region: GDH_like_2; cd12164 930944003686 putative ligand binding site [chemical binding]; other site 930944003687 NAD binding site [chemical binding]; other site 930944003688 dimerization interface [polypeptide binding]; other site 930944003689 catalytic site [active] 930944003690 Glycerophosphoryl diester phosphodiesterase [Energy production and conversion]; Region: UgpQ; COG0584 930944003691 Catalytic domain of phosphoinositide-specific phospholipase C-like phosphodiesterases superfamily; Region: PI-PLCc_GDPD_SF; cl14615 930944003692 active site 930944003693 catalytic site [active] 930944003694 5TMR of 5TMR-LYT; Region: 5TM-5TMR_LYT; pfam07694 930944003695 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 930944003696 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 930944003697 metal binding site [ion binding]; metal-binding site 930944003698 active site 930944003699 I-site; other site 930944003700 putative transporter; Provisional; Region: PRK11660 930944003701 Sulfate transporter N-terminal domain with GLY motif; Region: Sulfate_tra_GLY; pfam13792 930944003702 Sulfate transporter family; Region: Sulfate_transp; pfam00916 930944003703 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 930944003704 2-dehydro-3-deoxyphosphooctonate aldolase; Provisional; Region: PRK05198 930944003705 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 930944003706 hypothetical protein; Provisional; Region: PRK10941 930944003707 Transglutaminase-like superfamily; Region: Transglut_core2; pfam13369 930944003708 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 930944003709 binding surface 930944003710 TPR motif; other site 930944003711 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3094 930944003712 N5-glutamine S-adenosyl-L-methionine-dependent methyltransferase; Provisional; Region: PRK09328 930944003713 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 930944003714 peptide chain release factor 1; Validated; Region: prfA; PRK00591 930944003715 This domain is found in peptide chain release factors; Region: PCRF; smart00937 930944003716 RF-1 domain; Region: RF-1; pfam00472 930944003717 glutamyl-tRNA reductase; Reviewed; Region: hemA; PRK00045 930944003718 NADP-binding domain of glutamyl-tRNA reductase; Region: NAD_bind_Glutamyl_tRNA_reduct; cd05213 930944003719 tRNA; other site 930944003720 putative tRNA binding site [nucleotide binding]; other site 930944003721 putative NADP binding site [chemical binding]; other site 930944003722 Glutamyl-tRNAGlu reductase, dimerisation domain; Region: GlutR_dimer; pfam00745 930944003723 outer membrane lipoprotein LolB; Provisional; Region: lolB; PRK00022 930944003724 Outer membrane lipoprotein LolB; Region: LolB; pfam03550 930944003725 4-diphosphocytidyl-2-C-methyl-D-erythritol kinase; Provisional; Region: ipk; PRK00343 930944003726 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 930944003727 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 930944003728 ribose-phosphate pyrophosphokinase; Provisional; Region: PRK01259 930944003729 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 930944003730 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 930944003731 active site 930944003732 hypothetical protein; Provisional; Region: PRK10692 930944003733 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 930944003734 putative active site [active] 930944003735 catalytic residue [active] 930944003736 GTP-binding protein YchF; Reviewed; Region: PRK09601 930944003737 YchF GTPase; Region: YchF; cd01900 930944003738 G1 box; other site 930944003739 GTP/Mg2+ binding site [chemical binding]; other site 930944003740 Switch I region; other site 930944003741 G2 box; other site 930944003742 Switch II region; other site 930944003743 G3 box; other site 930944003744 G4 box; other site 930944003745 G5 box; other site 930944003746 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 930944003747 beta-lactamase/D-alanine carboxypeptidase; Provisional; Region: ampC; PRK11289 930944003748 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 930944003749 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 930944003750 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 930944003751 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 930944003752 dimerization interface [polypeptide binding]; other site 930944003753 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2979 930944003754 tellurium resistance terB-like protein, subgroup 3; Region: terB_like_YebE; cd07178 930944003755 putative metal binding site [ion binding]; other site 930944003756 Predicted acetyltransferases and hydrolases with the alpha/beta hydrolase fold [General function prediction only]; Region: LipA; COG1075 930944003757 Lipase (class 2); Region: Lipase_2; pfam01674 930944003758 Endolysins and autolysins are found in viruses and bacteria, respectively. The ds DNA phages of eubacteria use endolysins or muralytic enzymes in conjunction with hollin, a small membrane protein, to degrade the peptidoglycan found in bacterial cell...; Region: endolysin_autolysin; cd00737 930944003759 catalytic residues [active] 930944003760 Phage antitermination protein Q; Region: Phage_antitermQ; pfam06530 930944003761 Acetyltransferase (isoleucine patch superfamily) [General function prediction only]; Region: WbbJ; COG0110 930944003762 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 930944003763 trimer interface [polypeptide binding]; other site 930944003764 active site 930944003765 substrate binding site [chemical binding]; other site 930944003766 CoA binding site [chemical binding]; other site 930944003767 transcriptional repressor DicA; Reviewed; Region: PRK09706 930944003768 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 930944003769 non-specific DNA binding site [nucleotide binding]; other site 930944003770 salt bridge; other site 930944003771 sequence-specific DNA binding site [nucleotide binding]; other site 930944003772 Transcriptional regulator [Transcription]; Region: LysR; COG0583 930944003773 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 930944003774 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 930944003775 putative effector binding pocket; other site 930944003776 dimerization interface [polypeptide binding]; other site 930944003777 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 930944003778 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 930944003779 putative substrate translocation pore; other site 930944003780 Phage major capsid protein, P2 family; Region: Phage_cap_P2; cl04947 930944003781 Phage holin family (Lysis protein S); Region: Phage_holin_3; cl04938 930944003782 D-alanyl-D-alanine carboxypeptidase; Region: Peptidase_M15_4; pfam13539 930944003783 phage lysis regulatory protein, LysB family; Region: phage_LysB; TIGR03495 930944003784 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 930944003785 P2 phage tail completion protein R (GpR); Region: P2_Phage_GpR; pfam06891 930944003786 Phage virion morphogenesis family; Region: Phage_tail_S; pfam05069 930944003787 TIR domain; Region: TIR_2; pfam13676 930944003788 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3514 930944003789 Protein of unknown function (DUF497); Region: DUF497; pfam04365 930944003790 phage baseplate assembly protein V; Region: phage_P2_V; TIGR01644 930944003791 Phage P2 baseplate assembly protein gpV [General function prediction only]; Region: gpV; COG4540 930944003792 Gene 25-like lysozyme; Region: GPW_gp25; cl01403 930944003793 baseplate assembly protein; Provisional; Region: J; PHA02568 930944003794 Bacteriophage P2-related tail formation protein [General function prediction only]; Region: gpI; COG4385 930944003795 Phage tail-collar fibre protein; Region: DUF3751; pfam12571 930944003796 Phage tail-collar fibre protein; Region: DUF3751; pfam12571 930944003797 Phage tail fibre repeat; Region: Phage_fiber_2; pfam03406 930944003798 Phage Tail Collar Domain; Region: Collar; pfam07484 930944003799 potential frameshift: common BLAST hit: gi|123442205|ref|YP_001006186.1| phage tail fiber assembly protein 930944003800 Caudovirales tail fibre assembly protein; Region: Caudo_TAP; pfam02413 930944003801 DNA-damage-inducible protein J [DNA replication, recombination, and repair]; Region: RelB; COG3077 930944003802 Pleckstrin homology-like domain; Region: PH-like; cl17171 930944003803 Uncharacterized conserved protein [Function unknown]; Region: COG5464 930944003804 putative transposase; Provisional; Region: PRK09857 930944003805 Putative transposase, YhgA-like; Region: Transposase_31; pfam04754 930944003806 DNA replication protein [DNA replication, recombination, and repair]; Region: DnaC; COG1484 930944003807 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 930944003808 Walker A motif; other site 930944003809 ATP binding site [chemical binding]; other site 930944003810 Walker B motif; other site 930944003811 arginine finger; other site 930944003812 Transposase, Mutator family; Region: Transposase_mut; pfam00872 930944003813 MULE transposase domain; Region: MULE; pfam10551 930944003814 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 930944003815 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 930944003816 DNA-binding interface [nucleotide binding]; DNA binding site 930944003817 Integrase core domain; Region: rve; pfam00665 930944003818 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 930944003819 Site-specific recombinase XerC [DNA replication, recombination, and repair]; Region: XerC; COG4973 930944003820 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 930944003821 active site 930944003822 DNA binding site [nucleotide binding] 930944003823 Int/Topo IB signature motif; other site 930944003824 integrase; Provisional; Region: int; PHA02601 930944003825 Phage HP1 integrase, C-terminal catalytic domain. Bacteriophage HP1 and related integrases are found in eubacteria, plasmids and temperate bacteriophages of the P2 family. They belong to the DNA breaking-rejoining enzyme superfamily, which includes...; Region: HP1_INT_C; cd00797 930944003826 dimer interface [polypeptide binding]; other site 930944003827 active site 930944003828 catalytic residues [active] 930944003829 Int/Topo IB signature motif; other site 930944003830 NAD-dependent DNA ligase (contains BRCT domain type II) [DNA replication, recombination, and repair]; Region: Lig; COG0272 930944003831 Bacteriophage CI repressor helix-turn-helix domain; Region: Phage_CI_repr; pfam07022 930944003832 Phage regulatory protein CII (CP76); Region: Phage_CP76; pfam06892 930944003833 Protein of unknown function (DUF2724); Region: DUF2724; pfam10893 930944003834 Protein of unknown function (DUF2732); Region: DUF2732; pfam10809 930944003835 Bacteriophage replication gene A protein (GPA); Region: Phage_GPA; pfam05840 930944003836 portal vertex protein; Provisional; Region: Q; PHA02536 930944003837 Phage portal protein; Region: Phage_portal; pfam04860 930944003838 terminase ATPase subunit; Provisional; Region: P; PHA02535 930944003839 terminase ATPase subunit; Provisional; Region: P; PHA02535 930944003840 Putative ATPase subunit of terminase (gpP-like); Region: Terminase_5; pfam06056 930944003841 Mu-like prophage FluMu protein gp28 [General function prediction only]; Region: COG4373 930944003842 Phage capsid scaffolding protein (GPO) serine peptidase; Region: Phage_GPO; pfam05929 930944003843 capsid protein; Provisional; Region: N; PHA02538 930944003844 terminase endonuclease subunit; Provisional; Region: M; PHA02537 930944003845 Phage small terminase subunit; Region: Phage_term_smal; pfam05944 930944003846 Phage head completion protein (GPL); Region: Phage_GPL; pfam05926 930944003847 Phage Tail Protein X; Region: Phage_tail_X; pfam05489 930944003848 Endolysins and autolysins are found in viruses and bacteria, respectively. The ds DNA phages of eubacteria use endolysins or muralytic enzymes in conjunction with hollin, a small membrane protein, to degrade the peptidoglycan found in bacterial cell...; Region: endolysin_autolysin; cd00737 930944003849 catalytic residues [active] 930944003850 phage lysis regulatory protein, LysB family; Region: phage_LysB; TIGR03495 930944003851 P2 phage tail completion protein R (GpR); Region: P2_Phage_GpR; pfam06891 930944003852 Phage virion morphogenesis family; Region: Phage_tail_S; pfam05069 930944003853 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 930944003854 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 930944003855 non-specific DNA binding site [nucleotide binding]; other site 930944003856 salt bridge; other site 930944003857 sequence-specific DNA binding site [nucleotide binding]; other site 930944003858 RT_Bac_retron_II: Reverse transcriptases (RTs) in bacterial retrotransposons or retrons. The polymerase reaction of this enzyme leads to the production of a unique RNA-DNA complex called msDNA (multicopy single-stranded (ss)DNA) in which a small ssDNA...; Region: RT_Bac_retron_II; cd03487 930944003859 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 930944003860 putative active site [active] 930944003861 putative NTP binding site [chemical binding]; other site 930944003862 putative nucleic acid binding site [nucleotide binding]; other site 930944003863 phage baseplate assembly protein V; Region: phage_P2_V; TIGR01644 930944003864 Phage P2 baseplate assembly protein gpV [General function prediction only]; Region: gpV; COG4540 930944003865 baseplate wedge subunit; Provisional; Region: W; PHA02516 930944003866 baseplate assembly protein; Provisional; Region: J; PHA02568 930944003867 Bacteriophage P2-related tail formation protein [General function prediction only]; Region: gpI; COG4385 930944003868 Phage tail-collar fibre protein; Region: DUF3751; pfam12571 930944003869 Phage tail fibre repeat; Region: Phage_fiber_2; pfam03406 930944003870 major tail sheath protein; Provisional; Region: FI; PHA02560 930944003871 major tail tube protein; Provisional; Region: FII; PHA02600 930944003872 Mu-like prophage FluMu protein gp41; Region: FluMu_gp41; pfam10109 930944003873 Phage P2 GpE; Region: Phage_P2_GpE; pfam06528 930944003874 phage tail tape measure protein, TP901 family, core region; Region: tape_meas_TP901; TIGR01760 930944003875 Phage P2 GpU; Region: Phage_P2_GpU; pfam06995 930944003876 tail protein; Provisional; Region: D; PHA02561 930944003877 DNA-binding transcriptional regulator; Provisional; Region: PRK09678 930944003878 Ogr/Delta-like zinc finger; Region: Ogr_Delta; pfam04606 930944003879 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 930944003880 excinuclease ABC subunit C; Validated; Region: uvrC; PRK00558 930944003881 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 930944003882 GIY-YIG motif/motif A; other site 930944003883 active site 930944003884 catalytic site [active] 930944003885 putative DNA binding site [nucleotide binding]; other site 930944003886 metal binding site [ion binding]; metal-binding site 930944003887 UvrB/uvrC motif; Region: UVR; pfam02151 930944003888 UvrC Helix-hairpin-helix N-terminal; Region: UvrC_HhH_N; pfam08459 930944003889 response regulator; Provisional; Region: PRK09483 930944003890 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 930944003891 active site 930944003892 phosphorylation site [posttranslational modification] 930944003893 intermolecular recognition site; other site 930944003894 dimerization interface [polypeptide binding]; other site 930944003895 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 930944003896 DNA binding residues [nucleotide binding] 930944003897 dimerization interface [polypeptide binding]; other site 930944003898 hypothetical protein; Provisional; Region: PRK10613 930944003899 GlpM protein; Region: GlpM; pfam06942 930944003900 cytoplasmic alpha-amylase; Reviewed; Region: PRK09441 930944003901 Alpha amylase catalytic domain found in bacterial and fungal Alpha amylases (also called 1,4-alpha-D-glucan-4-glucanohydrolase); Region: AmyAc_bac_fung_AmyA; cd11318 930944003902 active site 930944003903 Na/Ca binding site [ion binding]; other site 930944003904 catalytic site [active] 930944003905 Methyltransferase domain; Region: Methyltransf_31; pfam13847 930944003906 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 930944003907 S-adenosylmethionine binding site [chemical binding]; other site 930944003908 HTH-like domain; Region: HTH_21; pfam13276 930944003909 Integrase core domain; Region: rve_3; pfam13683 930944003910 Transposase; Region: HTH_Tnp_1; pfam01527 930944003911 D-alanine/D-serine/glycine permease; Provisional; Region: PRK11049 930944003912 pyrimidine utilization regulatory protein R; Region: RutR; TIGR03613 930944003913 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 930944003914 YcdC-like protein, C-terminal region; Region: TetR_C_3; pfam08362 930944003915 pyrimidine utilization protein A; Region: RutA; TIGR03612 930944003916 Isochorismatase family; Region: Isochorismatase; pfam00857 930944003917 Cysteine hydrolases; This family contains amidohydrolases, like CSHase (N-carbamoylsarcosine amidohydrolase), involved in creatine metabolism and nicotinamidase, converting nicotinamide to nicotinic acid and ammonia in the pyridine nucleotide cycle. It...; Region: cysteine_hydrolases; cd00431 930944003918 catalytic triad [active] 930944003919 conserved cis-peptide bond; other site 930944003920 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 930944003921 homotrimer interaction site [polypeptide binding]; other site 930944003922 putative active site [active] 930944003923 potential frameshift: common BLAST hit: gi|332161378|ref|YP_004297955.1| putative hydrolase 930944003924 pyrimidine utilization protein D; Region: RutD; TIGR03611 930944003925 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 930944003926 Nitroreductase-like family 5. A subfamily of the nitroreductase family containing uncharacterized proteins that are similar to nitroreductase. Nitroreductase catalyzes the reduction of nitroaromatic compounds such as nitrotoluenes, nitrofurans and...; Region: Nitroreductase_5; cd02148 930944003927 putative FMN binding site [chemical binding]; other site 930944003928 pyrimidine utilization flavin reductase protein F; Region: RutF; TIGR03615 930944003929 potential frameshift: common BLAST hit: gi|123442218|ref|YP_001006199.1| putative membrane permease 930944003930 pyrimidine utilization transport protein G; Region: RutG; TIGR03616 930944003931 pyrimidine utilization transport protein G; Region: RutG; TIGR03616 930944003932 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 930944003933 N-acetylneuraminic acid mutarotase; Provisional; Region: PRK14131 930944003934 Kelch motif; Region: Kelch_1; pfam01344 930944003935 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 930944003936 non-specific DNA binding site [nucleotide binding]; other site 930944003937 salt bridge; other site 930944003938 sequence-specific DNA binding site [nucleotide binding]; other site 930944003939 2TM domain; Region: 2TM; pfam13239 930944003940 NAD(P)H:quinone oxidoreductase; Provisional; Region: PRK03767 930944003941 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 930944003942 Predicted iron-dependent peroxidase [Inorganic ion transport and metabolism]; Region: COG2837 930944003943 Tat-translocated enzyme; Region: tat_substr_1; TIGR01412 930944003944 inactive ferrous ion transporter periplasmic protein EfeO; Provisional; Region: PRK10378 930944003945 Cupredoxin-like domain; Region: Cupredoxin_1; pfam13473 930944003946 Imelysin; Region: Peptidase_M75; pfam09375 930944003947 FTR1 family protein; Region: TIGR00145 930944003948 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 930944003949 Na(+)/proline cotransporter PutP and related proteins; solute binding domain; Region: SLC5sbd_PutP; cd11475 930944003950 Na binding site [ion binding]; other site 930944003951 trifunctional transcriptional regulator/proline dehydrogenase/pyrroline-5-carboxylate dehydrogenase; Reviewed; Region: putA; PRK11809 930944003952 Predicted transcriptional regulator [Transcription]; Region: COG3905 930944003953 Proline dehydrogenase [Amino acid transport and metabolism]; Region: PutA; COG0506 930944003954 Delta(1)-pyrroline-5-carboxylate dehydrogenase, PutA; Region: ALDH_PutA-P5CDH; cd07125 930944003955 Glutamate binding site [chemical binding]; other site 930944003956 NAD binding site [chemical binding]; other site 930944003957 catalytic residues [active] 930944003958 MarR family; Region: MarR_2; cl17246 930944003959 putative amino-acid ABC transporter ATP-binding protein YecC; Provisional; Region: PRK11264 930944003960 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 930944003961 Walker A/P-loop; other site 930944003962 ATP binding site [chemical binding]; other site 930944003963 Q-loop/lid; other site 930944003964 ABC transporter signature motif; other site 930944003965 Walker B; other site 930944003966 D-loop; other site 930944003967 H-loop/switch region; other site 930944003968 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 930944003969 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 930944003970 dimer interface [polypeptide binding]; other site 930944003971 conserved gate region; other site 930944003972 putative PBP binding loops; other site 930944003973 ABC-ATPase subunit interface; other site 930944003974 cystine transporter subunit; Provisional; Region: PRK11260 930944003975 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 930944003976 substrate binding pocket [chemical binding]; other site 930944003977 membrane-bound complex binding site; other site 930944003978 hinge residues; other site 930944003979 D-cysteine desulfhydrase; Validated; Region: PRK03910 930944003980 Aminocyclopropane-1-carboxylate deaminase (ACCD): Pyridoxal phosphate (PLP)-dependent enzyme which catalyzes the conversion of 1-aminocyclopropane-L-carboxylate (ACC), a precursor of the plant hormone ethylene, to alpha-ketobutyrate and ammonia; Region: ACCD; cd06449 930944003981 pyridoxal 5'-phosphate binding site [chemical binding]; other site 930944003982 catalytic residue [active] 930944003983 flagella biosynthesis protein FliZ; Provisional; Region: PRK11582 930944003984 flagellar biosynthesis sigma factor; Validated; Region: fliA; PRK06986 930944003985 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 930944003986 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 930944003987 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 930944003988 DNA binding residues [nucleotide binding] 930944003989 flagellin; Validated; Region: PRK06819 930944003990 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 930944003991 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 930944003992 flagellin; Validated; Region: PRK06819 930944003993 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 930944003994 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 930944003995 flagellin; Validated; Region: PRK06819 930944003996 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 930944003997 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 930944003998 flagellar capping protein; Reviewed; Region: fliD; PRK08032 930944003999 Flagellar hook-associated protein 2 C-terminus; Region: FliD_N; pfam02465 930944004000 Flagellar hook-associated protein 2 C-terminus; Region: FliD_C; pfam07195 930944004001 flagellar protein FliS; Validated; Region: fliS; PRK05685 930944004002 flagellar biosynthesis protein FliT; Provisional; Region: PRK10548 930944004003 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 930944004004 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 930944004005 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 930944004006 Zn2+ binding site [ion binding]; other site 930944004007 Mg2+ binding site [ion binding]; other site 930944004008 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 930944004009 3-methyladenine DNA glycosylase/8-oxoguanine DNA glycosylase [DNA replication, recombination, and repair]; Region: AlkA; COG0122 930944004010 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 930944004011 minor groove reading motif; other site 930944004012 helix-hairpin-helix signature motif; other site 930944004013 active site 930944004014 DinI-like family; Region: DinI; cl11630 930944004015 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 930944004016 flagellar hook-basal body protein FliE; Reviewed; Region: fliE; PRK00253 930944004017 flagellar MS-ring protein; Reviewed; Region: fliF; PRK06007 930944004018 Secretory protein of YscJ/FliF family; Region: YscJ_FliF; pfam01514 930944004019 Flagellar M-ring protein C-terminal; Region: YscJ_FliF_C; pfam08345 930944004020 flagellar motor switch protein G; Validated; Region: fliG; PRK05686 930944004021 FliG C-terminal domain; Region: FliG_C; pfam01706 930944004022 flagellar assembly protein H; Validated; Region: fliH; PRK05687 930944004023 Essential protein Yae1, N terminal; Region: Yae1_N; pfam09811 930944004024 Flagellar assembly protein FliH; Region: FliH; pfam02108 930944004025 flagellum-specific ATP synthase; Validated; Region: fliI; PRK07960 930944004026 Flagellum-specific ATPase/type III secretory pathway virulence-related protein. This group of ATPases are responsible for the export of flagellum and virulence-related proteins. The bacterial flagellar motor is similar to the F0F1-ATPase, in that they...; Region: ATPase_flagellum-secretory_path_III; cd01136 930944004027 Walker A motif/ATP binding site; other site 930944004028 Walker B motif; other site 930944004029 flagellar biosynthesis chaperone; Validated; Region: fliJ; PRK05689 930944004030 Flagellar biosynthesis chaperone [Cell motility and secretion / Intracellular trafficking and secretion / Posttranslational modification, protein turnover, chaperones]; Region: FliJ; COG2882 930944004031 Flagellar hook-length control protein FliK; Region: Flg_hook; cl17777 930944004032 Flagellar hook-length control protein [Cell motility and secretion]; Region: FliK; COG3144 930944004033 flagellar basal body-associated protein FliL; Reviewed; Region: fliL; PRK07021 930944004034 flagellar motor switch protein FliM; Validated; Region: fliM; PRK06666 930944004035 Surface presentation of antigens (SPOA); Region: SpoA; pfam01052 930944004036 flagellar motor switch protein FliN; Validated; Region: fliN; PRK07963 930944004037 Flagellar biogenesis protein [Cell motility and secretion]; Region: FliO; COG3190 930944004038 flagellar biosynthesis protein FliP; Reviewed; Region: fliP; PRK05699 930944004039 flagellar biosynthesis protein FliQ; Validated; Region: fliQ; PRK05700 930944004040 flagellar biosynthesis protein FliR; Reviewed; Region: fliR; PRK05701 930944004041 flagellar hook-associated protein FlgL; Reviewed; Region: flgL; PRK08027 930944004042 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 930944004043 flagellar hook-associated protein FlgK; Validated; Region: flgK; PRK08147 930944004044 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 930944004045 flagellar rod assembly protein/muramidase FlgJ; Validated; Region: flgJ; PRK05684 930944004046 Rod binding protein [Cell envelope biogenesis, outer membrane / Cell motility and secretion / Posttranslational modification, protein turnover, chaperones]; Region: COG3951 930944004047 Muramidase (flagellum-specific) [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FlgJ; COG1705 930944004048 flagellar basal body P-ring protein; Reviewed; Region: flgI; cl14622 930944004049 flagellar basal body P-ring protein; Provisional; Region: flgI; PRK05303 930944004050 Flagellar basal body L-ring protein [Cell motility and secretion]; Region: FlgH; COG2063 930944004051 flagellar basal body L-ring protein; Reviewed; Region: flgH; PRK00249 930944004052 flagellar basal body rod protein FlgG; Provisional; Region: flgG; PRK12693 930944004053 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 930944004054 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 930944004055 Flagellar basal body rod protein [Cell motility and secretion]; Region: FlgF; COG4787 930944004056 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 930944004057 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 930944004058 flagellar hook protein FlgE; Validated; Region: flgE; PRK05682 930944004059 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 930944004060 Flagellar basal body protein FlaE; Region: FlaE; pfam07559 930944004061 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 930944004062 flagellar basal body rod modification protein; Reviewed; Region: flgD; PRK06655 930944004063 Flagellar hook capping protein - N-terminal region; Region: FlgD; pfam03963 930944004064 FlgD Tudor-like domain; Region: FLgD_tudor; pfam13861 930944004065 flagellar basal body rod protein FlgC; Reviewed; Region: flgC; PRK05681 930944004066 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 930944004067 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 930944004068 flagellar basal body rod protein FlgB; Reviewed; Region: flgB; PRK05680 930944004069 flagellar basal body rod protein FlgB; Reviewed; Region: flgB; PRK07182 930944004070 flagellar basal body P-ring biosynthesis protein FlgA; Reviewed; Region: flgA; PRK07018 930944004071 SAF domains of the flagella basal body P-ring formation protein FlgA and the flp pilus assembly CpaB; Region: SAF_CpaB_FlgA_like; cd11614 930944004072 Domains similar to fish antifreeze type III protein; Region: SAF; cl00555 930944004073 anti-sigma28 factor FlgM; Provisional; Region: PRK10810 930944004074 Flagellar biosynthesis/type III secretory pathway chaperone [Cell motility and secretion / Intracellular trafficking and secretion / Posttranslational modification, protein turnover, chaperones]; Region: COG3418 930944004075 Protein of unknown function (DUF3442); Region: DUF3442; pfam11924 930944004076 Bacterial Ig-like domain (group 1); Region: Big_1; pfam02369 930944004077 Invasin, domain 3; Region: Invasin_D3; pfam09134 930944004078 Intimin C-type lectin domain; Region: Intimin_C; pfam07979 930944004079 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 930944004080 Transposase; Region: DEDD_Tnp_IS110; pfam01548 930944004081 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 930944004082 Flagellar protein FlhE; Region: FlhE; pfam06366 930944004083 flagellar biosynthesis protein FlhA; Validated; Region: flhA; PRK06012 930944004084 FHIPEP family; Region: FHIPEP; pfam00771 930944004085 flagellar biosynthesis protein FlhB; Reviewed; Region: flhB; PRK12468 930944004086 Uncharacterized homolog of the cytoplasmic domain of flagellar protein FhlB [Function unknown]; Region: COG2257 930944004087 Peptidase S8 family domain, uncharacterized subfamily 15; Region: Peptidases_S8_15; cd07498 930944004088 active site 930944004089 catalytic triad [active] 930944004090 chemotaxis regulator CheZ; Provisional; Region: PRK11166 930944004091 chemotaxis regulatory protein CheY; Provisional; Region: PRK10610 930944004092 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 930944004093 active site 930944004094 phosphorylation site [posttranslational modification] 930944004095 intermolecular recognition site; other site 930944004096 dimerization interface [polypeptide binding]; other site 930944004097 chemotaxis-specific methylesterase; Provisional; Region: PRK00742 930944004098 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 930944004099 active site 930944004100 phosphorylation site [posttranslational modification] 930944004101 intermolecular recognition site; other site 930944004102 dimerization interface [polypeptide binding]; other site 930944004103 CheB methylesterase; Region: CheB_methylest; pfam01339 930944004104 chemotaxis methyltransferase CheR; Provisional; Region: PRK10611 930944004105 CheR methyltransferase, all-alpha domain; Region: CheR_N; pfam03705 930944004106 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 930944004107 methyl-accepting protein IV; Provisional; Region: PRK09793 930944004108 ligand binding domain of Tar- and Tsr-related chemoreceptors; Region: Tar_Tsr_LBD; cd00181 930944004109 dimer interface [polypeptide binding]; other site 930944004110 ligand binding site [chemical binding]; other site 930944004111 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 930944004112 dimerization interface [polypeptide binding]; other site 930944004113 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 930944004114 dimer interface [polypeptide binding]; other site 930944004115 putative CheW interface [polypeptide binding]; other site 930944004116 methyl-accepting chemotaxis protein I; Provisional; Region: PRK15041 930944004117 ligand binding domain of Tar- and Tsr-related chemoreceptors; Region: Tar_Tsr_LBD; cd00181 930944004118 dimer interface [polypeptide binding]; other site 930944004119 ligand binding site [chemical binding]; other site 930944004120 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 930944004121 dimerization interface [polypeptide binding]; other site 930944004122 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 930944004123 dimer interface [polypeptide binding]; other site 930944004124 putative CheW interface [polypeptide binding]; other site 930944004125 purine-binding chemotaxis protein; Provisional; Region: PRK10612 930944004126 chemotaxis protein CheA; Provisional; Region: PRK10547 930944004127 Histidine Phosphotransfer domain, involved in signalling through a two part component systems in which an autophosphorylating histidine protein kinase serves as a phosphoryl donor to a response regulator protein; the response regulator protein is...; Region: HPT; cd00088 930944004128 putative binding surface; other site 930944004129 active site 930944004130 CheY binding; Region: CheY-binding; pfam09078 930944004131 Signal transducing histidine kinase, homodimeric domain; Region: H-kinase_dim; pfam02895 930944004132 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 930944004133 ATP binding site [chemical binding]; other site 930944004134 Mg2+ binding site [ion binding]; other site 930944004135 G-X-G motif; other site 930944004136 CheA regulatory domain; CheA is a histidine protein kinase present in bacteria and archea. Activated by the chemotaxis receptor a histidine phosphoryl group from CheA is passed directly to an aspartate in the response regulator CheY. This signalling...; Region: CheA_reg; cd00731 930944004137 flagellar motor protein MotB; Validated; Region: motB; PRK09041 930944004138 Membrane MotB of proton-channel complex MotA/MotB; Region: MotB_plug; pfam13677 930944004139 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 930944004140 ligand binding site [chemical binding]; other site 930944004141 Flagellar motor component [Cell motility and secretion]; Region: MotA; COG1291 930944004142 flagellar motor protein MotA; Validated; Region: PRK09110 930944004143 transcriptional activator FlhC; Provisional; Region: PRK12722 930944004144 transcriptional activator FlhD; Provisional; Region: PRK02909 930944004145 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 930944004146 Ligand Binding Site [chemical binding]; other site 930944004147 Putative NADP-dependent oxidoreductases [General function prediction only]; Region: COG2130 930944004148 Prostaglandin dehydrogenases; Region: PGDH; cd05288 930944004149 NAD(P) binding site [chemical binding]; other site 930944004150 substrate binding site [chemical binding]; other site 930944004151 dimer interface [polypeptide binding]; other site 930944004152 magnesium-transporting ATPase; Provisional; Region: PRK15122 930944004153 Cation transporter/ATPase, N-terminus; Region: Cation_ATPase_N; smart00831 930944004154 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 930944004155 Putative hydrolase of sodium-potassium ATPase alpha subunit; Region: Hydrolase_like2; pfam13246 930944004156 Soluble P-type ATPase [General function prediction only]; Region: COG4087 930944004157 Cation transporting ATPase, C-terminus; Region: Cation_ATPase_C; pfam00689 930944004158 magnesium transport protein MgtC; Provisional; Region: PRK15385 930944004159 MgtC family; Region: MgtC; pfam02308 930944004160 potential frameshift: common BLAST hit: gi|333932922|ref|YP_004506500.1| L-carnitine dehydratase/bile acid-inducible protein F 930944004161 ligand binding domain of Tar- and Tsr-related chemoreceptors; Region: Tar_Tsr_LBD; cd00181 930944004162 dimer interface [polypeptide binding]; other site 930944004163 ligand binding site [chemical binding]; other site 930944004164 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 930944004165 dimerization interface [polypeptide binding]; other site 930944004166 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 930944004167 dimer interface [polypeptide binding]; other site 930944004168 Methyl-accepting chemotaxis protein (MCP) signalling domain; Region: MCPsignal; pfam00015 930944004169 putative CheW interface [polypeptide binding]; other site 930944004170 hypothetical protein; Provisional; Region: PRK10708 930944004171 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 930944004172 DNA-binding site [nucleotide binding]; DNA binding site 930944004173 RNA-binding motif; other site 930944004174 lac repressor; Reviewed; Region: lacI; PRK09526 930944004175 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 930944004176 DNA binding site [nucleotide binding] 930944004177 domain linker motif; other site 930944004178 Ligand-binding domain of DNA transcription repressor LacI specific for lactose, a member of the LacI-GalR family of bacterial transcription regulators; Region: PBP1_LacI; cd01574 930944004179 ligand binding site [chemical binding]; other site 930944004180 dimerization interface (open form) [polypeptide binding]; other site 930944004181 dimerization interface (closed form) [polypeptide binding]; other site 930944004182 beta-D-galactosidase; Reviewed; Region: lacZ; PRK09525 930944004183 Glycosyl hydrolases family 2, sugar binding domain; Region: Glyco_hydro_2_N; pfam02837 930944004184 Glycosyl hydrolases family 2; Region: Glyco_hydro_2; pfam00703 930944004185 Glycosyl hydrolases family 2, TIM barrel domain; Region: Glyco_hydro_2_C; pfam02836 930944004186 Beta galactosidase small chain; Region: Bgal_small_N; smart01038 930944004187 Transposase, Mutator family; Region: Transposase_mut; pfam00872 930944004188 MULE transposase domain; Region: MULE; pfam10551 930944004189 putative NAD(P)H quinone oxidoreductase, PIG3 family; Region: quinone_pig3; TIGR02824 930944004190 PIG3 p53-inducible quinone oxidoreductase; Region: p53_inducible_oxidoreductase; cd05276 930944004191 NAD(P) binding site [chemical binding]; other site 930944004192 sigma70 family sigma factor YlaC; Region: YlaC; pfam10777 930944004193 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 930944004194 AsnC-type helix-turn-helix domain; Region: HTH_AsnC-type; pfam13404 930944004195 AsnC family; Region: AsnC_trans_reg; pfam01037 930944004196 3-deoxy-D-manno-oct-2-ulosonic acid (Kdo) hydroxylase; Region: Kdo_hydroxy; pfam11004 930944004197 3-deoxy-D-manno-oct-2-ulosonic acid (Kdo) hydroxylase; Region: Kdo_hydroxy; pfam11004 930944004198 YdfZ protein; Region: YdfZ; pfam14001 930944004199 glucose-1-phosphatase/inositol phosphatase; Provisional; Region: PRK10173 930944004200 Histidine phosphatase domain found in histidine acid phosphatases and phytases; contains a His residue which is phosphorylated during the reaction; Region: HP_HAP_like; cd07061 930944004201 catalytic core [active] 930944004202 Histidine phosphatase domain found in histidine acid phosphatases and phytases; contains a His residue which is phosphorylated during the reaction; Region: HP_HAP_like; cd07061 930944004203 glucose-1-phosphate adenylyltransferase; Provisional; Region: glgC; PRK00725 930944004204 ADP-glucose pyrophosphorylase is involved in the biosynthesis of glycogen or starch; Region: ADP_Glucose_PP; cd02508 930944004205 ligand binding site; other site 930944004206 oligomer interface; other site 930944004207 Glucose-1-phosphate adenylyltransferase, C-terminal Left-handed parallel beta helix (LbH) domain: Glucose-1-phosphate adenylyltransferase is also known as ADP-glucose synthase or ADP-glucose pyrophosphorylase. It catalyzes the first committed and...; Region: LbH_G1P_AT_C; cd04651 930944004208 dimer interface [polypeptide binding]; other site 930944004209 N-terminal domain interface [polypeptide binding]; other site 930944004210 sulfate 1 binding site; other site 930944004211 potential frameshift: common BLAST hit: gi|332163183|ref|YP_004299760.1| putative transposase for IS1667 930944004212 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 930944004213 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 930944004214 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl17173 930944004215 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 930944004216 Transposase; Region: DEDD_Tnp_IS110; pfam01548 930944004217 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 930944004218 Gram-negative pili assembly chaperone, N-terminal domain; Region: Pili_assembly_N; pfam00345 930944004219 Gram-negative pili assembly chaperone, C-terminal domain; Region: Pili_assembly_C; pfam02753 930944004220 P pilus assembly protein, porin PapC [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimD; COG3188 930944004221 PapC N-terminal domain; Region: PapC_N; pfam13954 930944004222 Type VII secretion system (T7SS), usher protein; Region: Usher; pfam00577 930944004223 PapC C-terminal domain; Region: PapC_C; pfam13953 930944004224 Protein of unknown function (DUF1120); Region: DUF1120; cl05856 930944004225 Protein of unknown function (DUF1120); Region: DUF1120; cl05856 930944004226 Protein of unknown function (DUF1120); Region: DUF1120; cl05856 930944004227 L-xylulose kinases; a subfamily of the FGGY family of carbohydrate kinases; Region: FGGY_L-XK; cd07802 930944004228 Sugar (pentulose and hexulose) kinases [Carbohydrate transport and metabolism]; Region: XylB; COG1070 930944004229 putative N- and C-terminal domain interface [polypeptide binding]; other site 930944004230 putative active site [active] 930944004231 putative xylulose binding site [chemical binding]; other site 930944004232 MgATP binding site [chemical binding]; other site 930944004233 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 930944004234 DgsA anti-repressor MtfA; Provisional; Region: PRK15410 930944004235 integrase; Provisional; Region: PRK09692 930944004236 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 930944004237 active site 930944004238 Int/Topo IB signature motif; other site 930944004239 DNA-binding transcriptional regulator HcaR; Provisional; Region: PRK09906 930944004240 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 930944004241 The C-terminal substrate binding domain of LysR-type transcriptional regulators involved in the catabolism of aromatic compounds and that of other related regulators, contains type 2 periplasmic binding fold; Region: PBP2_LTTR_aromatics_like; cd08414 930944004242 dimerization interface [polypeptide binding]; other site 930944004243 substrate binding pocket [chemical binding]; other site 930944004244 Polymerase and Histidinol Phosphatase domain; Region: PHP; cl17102 930944004245 DNA replication protein [DNA replication, recombination, and repair]; Region: DnaC; COG1484 930944004246 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 930944004247 Walker A motif; other site 930944004248 ATP binding site [chemical binding]; other site 930944004249 Walker B motif; other site 930944004250 arginine finger; other site 930944004251 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 930944004252 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 930944004253 DNA-binding interface [nucleotide binding]; DNA binding site 930944004254 Integrase core domain; Region: rve; pfam00665 930944004255 Domain of unknown function (DUF1738); Region: DUF1738; pfam08401 930944004256 potential frameshift: common BLAST hit: gi|320158530|ref|YP_004190908.1| exonuclease SbcC 930944004257 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: SbcC; COG0419 930944004258 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 930944004259 ABC transporter signature motif; other site 930944004260 Walker B; other site 930944004261 D-loop; other site 930944004262 H-loop/switch region; other site 930944004263 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 930944004264 AAA domain; Region: AAA_23; pfam13476 930944004265 Walker A/P-loop; other site 930944004266 ATP binding site [chemical binding]; other site 930944004267 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 930944004268 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 930944004269 Predicted hydrolase (metallo-beta-lactamase superfamily) [General function prediction only]; Region: ComEC; COG2333 930944004270 RES domain; Region: RES; smart00953 930944004271 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 930944004272 active site 930944004273 phosphorylation site [posttranslational modification] 930944004274 intermolecular recognition site; other site 930944004275 dimerization interface [polypeptide binding]; other site 930944004276 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 930944004277 DNA binding residues [nucleotide binding] 930944004278 dimerization interface [polypeptide binding]; other site 930944004279 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 930944004280 Bacterial periplasmic substrate-binding proteins; Region: PBPb; smart00062 930944004281 substrate binding pocket [chemical binding]; other site 930944004282 membrane-bound complex binding site; other site 930944004283 hinge residues; other site 930944004284 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 930944004285 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 930944004286 substrate binding pocket [chemical binding]; other site 930944004287 membrane-bound complex binding site; other site 930944004288 hinge residues; other site 930944004289 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 930944004290 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 930944004291 dimer interface [polypeptide binding]; other site 930944004292 phosphorylation site [posttranslational modification] 930944004293 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 930944004294 ATP binding site [chemical binding]; other site 930944004295 Mg2+ binding site [ion binding]; other site 930944004296 G-X-G motif; other site 930944004297 Response regulator receiver domain; Region: Response_reg; pfam00072 930944004298 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 930944004299 active site 930944004300 phosphorylation site [posttranslational modification] 930944004301 intermolecular recognition site; other site 930944004302 dimerization interface [polypeptide binding]; other site 930944004303 Hpt domain; Region: Hpt; pfam01627 930944004304 P pilus assembly protein, pilin FimA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimA; COG3539 930944004305 P pilus assembly protein, chaperone PapD [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimC; COG3121 930944004306 Gram-negative pili assembly chaperone, N-terminal domain; Region: Pili_assembly_N; pfam00345 930944004307 Gram-negative pili assembly chaperone, C-terminal domain; Region: Pili_assembly_C; pfam02753 930944004308 P pilus assembly protein, porin PapC [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimD; COG3188 930944004309 PapC N-terminal domain; Region: PapC_N; pfam13954 930944004310 Type VII secretion system (T7SS), usher protein; Region: Usher; pfam00577 930944004311 PapC C-terminal domain; Region: PapC_C; pfam13953 930944004312 Fimbrial protein; Region: Fimbrial; cl01416 930944004313 P pilus assembly protein, chaperone PapD [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimC; COG3121 930944004314 Gram-negative pili assembly chaperone, N-terminal domain; Region: Pili_assembly_N; pfam00345 930944004315 Gram-negative pili assembly chaperone, C-terminal domain; Region: Pili_assembly_C; pfam02753 930944004316 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 930944004317 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 930944004318 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 930944004319 active site 930944004320 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3122 930944004321 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 930944004322 active site 930944004323 phosphorylation site [posttranslational modification] 930944004324 Sugar (and other) transporter; Region: Sugar_tr; pfam00083 930944004325 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 930944004326 putative substrate translocation pore; other site 930944004327 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 930944004328 Aspartyl/asparaginyl beta-hydroxylase and related dioxygenases [Posttranslational modification, protein turnover, chaperones]; Region: COG3555 930944004329 Phosphopantetheinyl transferase component of siderophore synthetase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntD; COG2977 930944004330 4'-phosphopantetheinyl transferase superfamily; Region: ACPS; pfam01648 930944004331 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 930944004332 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; pfam03480 930944004333 TRAP-type C4-dicarboxylate transport system, small permease component [Carbohydrate transport and metabolism]; Region: DctM; COG3090 930944004334 DctM-like transporters; Region: DctM; pfam06808 930944004335 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; COG1593 930944004336 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 930944004337 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cd00625 930944004338 transmembrane helices; other site 930944004339 triphosphoribosyl-dephospho-CoA synthase CitG; Region: citrate_citG; TIGR03125 930944004340 Apo-citrate lyase phosphoribosyl-dephospho-CoA transferase; Region: CitX; pfam03802 930944004341 Citrate lyase, alpha subunit [Energy production and conversion]; Region: CitF; COG3051 930944004342 Acetyl-CoA hydrolase/transferase C-terminal domain; Region: AcetylCoA_hyd_C; pfam13336 930944004343 HpcH/HpaI aldolase/citrate lyase family; Region: HpcH_HpaI; cl17231 930944004344 citrate lyase subunit gamma; Provisional; Region: PRK13253 930944004345 Citrate lyase synthetase [Energy production and conversion]; Region: CitC; COG3053 930944004346 Citrate lyase ligase; Region: Citrate_lyase_ligase; cd02169 930944004347 putative active site [active] 930944004348 (T/H)XGH motif; other site 930944004349 sensor histidine kinase DpiB; Provisional; Region: dpiB; PRK15053 930944004350 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 930944004351 putative active site [active] 930944004352 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 930944004353 ATP binding site [chemical binding]; other site 930944004354 Mg2+ binding site [ion binding]; other site 930944004355 G-X-G motif; other site 930944004356 two-component response regulator DpiA; Provisional; Region: dpiA; PRK10046 930944004357 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 930944004358 active site 930944004359 phosphorylation site [posttranslational modification] 930944004360 intermolecular recognition site; other site 930944004361 dimerization interface [polypeptide binding]; other site 930944004362 Transcriptional regulator; Region: CitT; pfam12431 930944004363 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 930944004364 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 930944004365 active site 930944004366 phosphorylation site [posttranslational modification] 930944004367 intermolecular recognition site; other site 930944004368 dimerization interface [polypeptide binding]; other site 930944004369 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 930944004370 DNA binding residues [nucleotide binding] 930944004371 dimerization interface [polypeptide binding]; other site 930944004372 Signal transduction histidine kinase, glucose-6-phosphate specific [Signal transduction mechanisms]; Region: UhpB; COG3851 930944004373 MASE1; Region: MASE1; pfam05231 930944004374 Histidine kinase; Region: HisKA_3; pfam07730 930944004375 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 930944004376 ATP binding site [chemical binding]; other site 930944004377 Mg2+ binding site [ion binding]; other site 930944004378 G-X-G motif; other site 930944004379 regulatory protein UhpC; Provisional; Region: PRK11663 930944004380 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 930944004381 putative substrate translocation pore; other site 930944004382 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 930944004383 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 930944004384 ABC-type Fe3+ transport system, permease component [Inorganic ion transport and metabolism]; Region: ThiP; COG1178 930944004385 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 930944004386 dimer interface [polypeptide binding]; other site 930944004387 conserved gate region; other site 930944004388 putative PBP binding loops; other site 930944004389 ABC-ATPase subunit interface; other site 930944004390 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 930944004391 dimer interface [polypeptide binding]; other site 930944004392 conserved gate region; other site 930944004393 putative PBP binding loops; other site 930944004394 ABC-ATPase subunit interface; other site 930944004395 ferric transporter ATP-binding subunit; Provisional; Region: fbpC; PRK11432 930944004396 ATP-binding cassette domain of the carbohydrate and solute transporters-like; Region: ABC_Carb_Solutes_like; cd03259 930944004397 Walker A/P-loop; other site 930944004398 ATP binding site [chemical binding]; other site 930944004399 Q-loop/lid; other site 930944004400 ABC transporter signature motif; other site 930944004401 Walker B; other site 930944004402 D-loop; other site 930944004403 H-loop/switch region; other site 930944004404 TOBE domain; Region: TOBE_2; pfam08402 930944004405 2-dehydropantoate 2-reductase; Provisional; Region: PRK12921 930944004406 Ketopantoate reductase PanE/ApbA; Region: ApbA; pfam02558 930944004407 Ketopantoate reductase PanE/ApbA C terminal; Region: ApbA_C; pfam08546 930944004408 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 930944004409 DNA-binding site [nucleotide binding]; DNA binding site 930944004410 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 930944004411 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 930944004412 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 930944004413 Chemotaxis signal transduction protein [Cell motility and secretion / Signal transduction mechanisms]; Region: CheW; COG0835 930944004414 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 930944004415 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 930944004416 active site 930944004417 phosphorylation site [posttranslational modification] 930944004418 intermolecular recognition site; other site 930944004419 dimerization interface [polypeptide binding]; other site 930944004420 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 930944004421 Beta-lactamase; Region: Beta-lactamase; pfam00144 930944004422 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 930944004423 helix_turn_helix, Deoxyribose operon repressor; Region: HTH_DEOR; smart00420 930944004424 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 930944004425 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 930944004426 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 930944004427 Alpha amylase catalytic domain family; Region: AmyAc_family; cl07893 930944004428 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 930944004429 phosphate binding site [ion binding]; other site 930944004430 potential frameshift: common BLAST hit: gi|332161232|ref|YP_004297809.1| putative phosphotransferase system protein 930944004431 PTS system, beta-glucoside-specific IIABC component; Region: PTS-II-ABC-beta; TIGR01995 930944004432 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 930944004433 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Thermotoga marina NorM; Region: MATE_NorM_like; cd13137 930944004434 argininosuccinate synthase; Validated; Region: PRK05370 930944004435 Gene 25-like lysozyme; Region: GPW_gp25; cl01403 930944004436 Protein of avirulence locus involved in temperature-dependent protein secretion [General function prediction only]; Region: ImpE; COG4455 930944004437 ImpE protein; Region: ImpE; pfam07024 930944004438 PAAR motif; Region: PAAR_motif; pfam05488 930944004439 Uncharacterized protein conserved in bacteria [Function unknown]; Region: VgrG; COG3501 930944004440 Phage late control gene D protein (GPD); Region: Phage_GPD; pfam05954 930944004441 Phage-related baseplate assembly protein; Region: Phage_base_V; pfam04717 930944004442 Type VI protein secretion system component VasK [Intracellular trafficking, secretion, and vesicular transport]; Region: IcmF; COG3523 930944004443 Intracellular multiplication and human macrophage-killing; Region: IcmF-related; pfam06761 930944004444 Protein of unknown function (DUF1215); Region: DUF1215; pfam06744 930944004445 hypothetical protein; Provisional; Region: PRK07033 930944004446 Uncharacterized protein conserved in bacteria (DUF2077); Region: DUF2077; pfam09850 930944004447 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 930944004448 ligand binding site [chemical binding]; other site 930944004449 Predicted component of the type VI protein secretion system [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3522 930944004450 Bacterial protein of unknown function (DUF876); Region: DUF876; pfam05936 930944004451 type VI secretion lipoprotein, VC_A0113 family; Region: VI_chp_3; TIGR03352 930944004452 Protein of unknown function (DUF796); Region: DUF796; pfam05638 930944004453 Predicted component of the type VI protein secretion system [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3517 930944004454 Protein of unknown function (DUF877); Region: DUF877; pfam05943 930944004455 Predicted component of the type VI protein secretion system [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3516 930944004456 P pilus assembly protein, pilin FimA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimA; COG3539 930944004457 P pilus assembly protein, porin PapC [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimD; COG3188 930944004458 PapC N-terminal domain; Region: PapC_N; pfam13954 930944004459 Type VII secretion system (T7SS), usher protein; Region: Usher; pfam00577 930944004460 PapC C-terminal domain; Region: PapC_C; pfam13953 930944004461 putative chaperone protein EcpD; Provisional; Region: PRK09926 930944004462 Gram-negative pili assembly chaperone, N-terminal domain; Region: Pili_assembly_N; pfam00345 930944004463 Gram-negative pili assembly chaperone, C-terminal domain; Region: Pili_assembly_C; pfam02753 930944004464 P pilus assembly protein, pilin FimA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimA; COG3539 930944004465 type VI secretion ATPase, ClpV1 family; Region: VI_ClpV1; TIGR03345 930944004466 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 930944004467 Walker A motif; other site 930944004468 ATP binding site [chemical binding]; other site 930944004469 Walker B motif; other site 930944004470 arginine finger; other site 930944004471 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 930944004472 Walker A motif; other site 930944004473 ATP binding site [chemical binding]; other site 930944004474 Walker B motif; other site 930944004475 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 930944004476 Type VI protein secretion system component VasA [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3519 930944004477 Bacterial protein of unknown function (DUF879); Region: DUF879; pfam05947 930944004478 Predicted component of the type VI protein secretion system [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3520 930944004479 Predicted component of the type VI protein secretion system [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3515 930944004480 ImpA-related N-terminal; Region: ImpA-rel_N; pfam06812 930944004481 Fimbrial protein; Region: Fimbrial; pfam00419 930944004482 Glycosyltransferase (GlcNAc); Region: GlcNAc; pfam11397 930944004483 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 930944004484 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 930944004485 ligand binding site [chemical binding]; other site 930944004486 Domain of unknown function (DUF1795); Region: DUF1795; cl02256 930944004487 potential frameshift: common BLAST hit: gi|332161204|ref|YP_004297781.1| LuxR family regulatory protein 930944004488 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 930944004489 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 930944004490 DNA binding residues [nucleotide binding] 930944004491 dimerization interface [polypeptide binding]; other site 930944004492 nucleoside transporter; Region: 2A0110; TIGR00889 930944004493 Phosphoribosyltransferase; Region: DBI_PRT; pfam02277 930944004494 Nicotinate-nucleotide-dimethylbenzimidazole phosphoribosyltransferase (DMB-PRT), also called CobT; Region: DMB-PRT_CobT; cd02439 930944004495 putative dimer interface [polypeptide binding]; other site 930944004496 active site pocket [active] 930944004497 putative cataytic base [active] 930944004498 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 930944004499 catalytic core [active] 930944004500 cobalamin synthase; Reviewed; Region: cobS; PRK00235 930944004501 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 930944004502 homotrimer interface [polypeptide binding]; other site 930944004503 Walker A motif; other site 930944004504 GTP binding site [chemical binding]; other site 930944004505 Walker B motif; other site 930944004506 cobyric acid synthase; Provisional; Region: PRK00784 930944004507 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 930944004508 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 930944004509 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyric Acid Synthase (CobQ); Region: GATase1_CobQ; cd01750 930944004510 catalytic triad [active] 930944004511 cobalt transporter ATP-binding subunit; Provisional; Region: cbiO; PRK13638 930944004512 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 930944004513 Walker A/P-loop; other site 930944004514 ATP binding site [chemical binding]; other site 930944004515 Q-loop/lid; other site 930944004516 ABC transporter signature motif; other site 930944004517 Walker B; other site 930944004518 D-loop; other site 930944004519 H-loop/switch region; other site 930944004520 cobalt transport protein CbiQ; Provisional; Region: PRK15485 930944004521 cobalt transport protein CbiN; Provisional; Region: PRK02898 930944004522 potential frameshift: common BLAST hit: gi|332161194|ref|YP_004297771.1| cobalt transport protein CbiM 930944004523 ABC-type Co2+ transport system, permease component [Inorganic ion transport and metabolism]; Region: CbiM; cl00397 930944004524 Cobalt uptake substrate-specific transmembrane region; Region: CbiM; pfam01891 930944004525 ABC-type Co2+ transport system, permease component [Inorganic ion transport and metabolism]; Region: CbiM; cl00397 930944004526 Cobalt uptake substrate-specific transmembrane region; Region: CbiM; pfam01891 930944004527 Precorrin-2 C20-methyltransferase, also named CobI or CbiL; Region: Precorrin_2_C20_MT; cd11645 930944004528 active site 930944004529 SAM binding site [chemical binding]; other site 930944004530 homodimer interface [polypeptide binding]; other site 930944004531 Cobalamin biosynthesis protein CbiK, Co2+ chelatase [Coenzyme metabolism]; Region: CbiK; COG4822 930944004532 Anaerobic cobalamin biosynthetic cobalt chelatase (CbiK), N-terminal domain. CbiK is part of the cobalt-early path for cobalamin biosynthesis. It catalyzes the insertion of cobalt into the oxidized form of precorrin-2, factor II (sirohydrochlorin), the...; Region: CbiK_N; cd03412 930944004533 active site 930944004534 C-terminal domain interface [polypeptide binding]; other site 930944004535 Anaerobic cobalamin biosynthetic cobalt chelatase (CbiK), C-terminal domain. CbiK is part of the cobalt-early path for cobalamin biosynthesis. It catalyzes the insertion of cobalt into the oxidized form of precorrin-2, factor II (sirohydrochlorin), the...; Region: CbiK_C; cd03413 930944004536 active site 930944004537 N-terminal domain interface [polypeptide binding]; other site 930944004538 cobalt-precorrin-6x reductase; Reviewed; Region: PRK08057 930944004539 Precorrin-6x reductase [Coenzyme metabolism]; Region: CobK; COG2099 930944004540 Precorrin-3B C(17)-methyltransferase (CobJ/CbiH); Region: Precorrin_3B_C17_MT; cd11646 930944004541 active site 930944004542 SAM binding site [chemical binding]; other site 930944004543 homodimer interface [polypeptide binding]; other site 930944004544 cobalamin biosynthesis protein CbiG; Validated; Region: PRK05788 930944004545 Cobalamin synthesis G N-terminal; Region: CbiG_N; pfam11760 930944004546 Cobalamin biosynthesis central region; Region: CbiG_mid; pfam11761 930944004547 Cobalamin synthesis G C-terminus; Region: CbiG_C; pfam01890 930944004548 Precorrin-4 C11-methyltransferase (CbiF/CobM); Region: Precorrin-4_C11-MT; cd11641 930944004549 active site 930944004550 SAM binding site [chemical binding]; other site 930944004551 homodimer interface [polypeptide binding]; other site 930944004552 cobalt-precorrin-6Y C(15)-methyltransferase; Validated; Region: PRK08287 930944004553 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 930944004554 S-adenosylmethionine binding site [chemical binding]; other site 930944004555 Precorrin-6Y methyltransferase, the cobalamin biosynthesis enzyme CbiE; Region: Precorrin-6Y-methylase; cd11644 930944004556 active site 930944004557 putative homodimer interface [polypeptide binding]; other site 930944004558 SAM binding site [chemical binding]; other site 930944004559 cobalt-precorrin-6A synthase; Reviewed; Region: cbiD; PRK00075 930944004560 cobalt-precorrin-8X methylmutase; Validated; Region: cbiC; PRK08286 930944004561 Precorrin-8X methylmutase; Region: CbiC; pfam02570 930944004562 cobalamin biosynthesis protein; Provisional; Region: cobD; PRK01209 930944004563 cobyrinic acid a,c-diamide synthase; Validated; Region: PRK01077 930944004564 dithiobiotin synthetase; Reviewed; Region: bioD; PRK00090 930944004565 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyrinic Acid a,c-Diamide Synthase; Region: GATase1_CobB; cd03130 930944004566 catalytic triad [active] 930944004567 Predicted sensor domain [Signal transduction mechanisms / Transcription]; Region: PocR; COG4936 930944004568 Sensory domain found in PocR; Region: PocR; pfam10114 930944004569 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 930944004570 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 930944004571 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 930944004572 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 930944004573 amphipathic channel; other site 930944004574 Asn-Pro-Ala signature motifs; other site 930944004575 Carbon dioxide concentrating mechanism/carboxysome shell protein [Secondary metabolites biosynthesis, transport, and catabolism / Energy production and conversion]; Region: CcmK; COG4577 930944004576 Carbon dioxide concentrating mechanism K (CcmK)-like proteins, Bacterial Micro-Compartment (BMC) domain; Region: BMC_CcmK_like; cd07045 930944004577 Hexamer interface [polypeptide binding]; other site 930944004578 Hexagonal pore residue; other site 930944004579 propanediol utilization protein PduB; Provisional; Region: PRK15415 930944004580 1,2-propanediol utilization protein B (PduB), Bacterial Micro-Compartment (BMC) domain repeat 1; Region: BMC_PduB_repeat1; cd07047 930944004581 putative hexamer interface [polypeptide binding]; other site 930944004582 putative hexagonal pore; other site 930944004583 1,2-propanediol utilization protein B (PduB), Bacterial Micro-Compartment (BMC) domain repeat 2; Region: BMC_PduB_repeat2; cd07048 930944004584 putative hexamer interface [polypeptide binding]; other site 930944004585 putative hexagonal pore; other site 930944004586 Propanediol dehydratase, large subunit [Secondary metabolites biosynthesis, transport, and catabolism]; Region: PduC; COG4909 930944004587 Dehydratase large subunit. This family contains the large (alpha) subunit of B12-dependent glycerol dehydratases (GDHs) and B12-dependent diol dehydratases (DDHs). GDH is isofunctional with DDH. These enzymes can each catalyze the conversion of 1; Region: Dehydratase_LU; cd03687 930944004588 alpha-alpha subunit/dimer interface [polypeptide binding]; other site 930944004589 alpha-beta subunit interface [polypeptide binding]; other site 930944004590 alpha-gamma subunit interface [polypeptide binding]; other site 930944004591 active site 930944004592 substrate and K+ binding site; other site 930944004593 K+ binding site [ion binding]; other site 930944004594 cobalamin binding site [chemical binding]; other site 930944004595 propanediol dehydratase medium subunit; Provisional; Region: pduD; PRK15042 930944004596 Propanediol dehydratase, small subunit [Secondary metabolites biosynthesis, transport, and catabolism]; Region: PduE; COG4910 930944004597 Diol dehydratase reactivase ATPase-like domain; Region: DDR; pfam08841 930944004598 Dehydratase medium subunit; Region: Dehydratase_MU; pfam02288 930944004599 Carbon dioxide concentrating mechanism/carboxysome shell protein [Secondary metabolites biosynthesis, transport, and catabolism / Energy production and conversion]; Region: CcmK; COG4577 930944004600 1,2-propanediol utilization protein A (PduA), Bacterial Micro-Compartment (BMC) domain; Region: BMC_PduA; cd07059 930944004601 Hexamer interface [polypeptide binding]; other site 930944004602 Putative hexagonal pore residue; other site 930944004603 Carbon dioxide concentrating mechanism/carboxysome shell protein [Secondary metabolites biosynthesis, transport, and catabolism / Energy production and conversion]; Region: CcmK; COG4577 930944004604 Bacterial Micro-Compartment (BMC) domain; Region: BMC; cl01982 930944004605 Hexamer interface [polypeptide binding]; other site 930944004606 Hexagonal pore residue; other site 930944004607 propanediol utilization phosphotransacylase; Provisional; Region: PRK15070 930944004608 Propanediol utilisation protein PduL; Region: PduL; pfam06130 930944004609 Propanediol utilisation protein PduL; Region: PduL; pfam06130 930944004610 putative propanediol utilization protein PduM; Provisional; Region: PRK15428 930944004611 Ethanolamine utilisation protein and carboxysome structural protein domain family; Region: EutN_CcmL; cd01614 930944004612 Hexamer/Pentamer interface [polypeptide binding]; other site 930944004613 central pore; other site 930944004614 Cobalamin adenosyltransferase; Region: Cob_adeno_trans; pfam01923 930944004615 Uncharacterized protein, possibly involved in utilization of glycolate and propanediol [General function prediction only]; Region: GlcG; COG3193 930944004616 NAD-dependent aldehyde dehydrogenases [Energy production and conversion]; Region: PutA; COG1012 930944004617 Ethanolamine utilization protein EutE-like; Region: ALDH_EutE; cd07121 930944004618 putative catalytic cysteine [active] 930944004619 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 930944004620 1,3-propanediol dehydrogenase (PPD) catalyzes the reduction of 3-hydroxypropionaldehyde (3-HPA) to 1,3-propanediol in glycerol metabolism; Region: PDD; cd08180 930944004621 putative active site [active] 930944004622 metal binding site [ion binding]; metal-binding site 930944004623 Respiratory-chain NADH dehydrogenase 51 Kd subunit; Region: Complex1_51K; pfam01512 930944004624 SLBB domain; Region: SLBB; pfam10531 930944004625 4Fe-4S dicluster domain; Region: Fer4_17; pfam13534 930944004626 RnfC Barrel sandwich hybrid domain; Region: RnfC_N; pfam13375 930944004627 PduT-like ethanolamine utilization protein; Region: eut_PduT; TIGR02526 930944004628 1,2-propanediol utilization protein T (PduT), Bacterial Micro-Compartment (BMC) domain repeat 1; Region: BMC_PduT_repeat1; cd07053 930944004629 putative hexamer interface [polypeptide binding]; other site 930944004630 putative hexagonal pore; other site 930944004631 1,2-propanediol utilization protein T (PduT), Bacterial Micro-Compartment (BMC) domain repeat 2; Region: BMC_PduT_repeat2; cd07054 930944004632 putative hexamer interface [polypeptide binding]; other site 930944004633 putative hexagonal pore; other site 930944004634 1,2-propanediol utilization protein U (PduU)/ethanolamine utilization protein S (EutS), Bacterial Micro-Compartment (BMC) domain; Region: BMC_PduU-EutS; cd07046 930944004635 putative hexamer interface [polypeptide binding]; other site 930944004636 putative hexagonal pore; other site 930944004637 Ethanolamine utilisation - propanediol utilisation; Region: PduV-EutP; pfam10662 930944004638 Switch I region; other site 930944004639 G3 box; other site 930944004640 Switch II region; other site 930944004641 GTP/Mg2+ binding site [chemical binding]; other site 930944004642 G4 box; other site 930944004643 G5 box; other site 930944004644 Acetokinase family; Region: Acetate_kinase; cl17229 930944004645 propionate/acetate kinase; Provisional; Region: PRK12379 930944004646 Uroporphyrin-III C-methyltransferase (S-Adenosyl-L-methionine:uroporphyrinogen III methyltransferase, SUMT); Region: SUMT; cd11642 930944004647 active site 930944004648 SAM binding site [chemical binding]; other site 930944004649 homodimer interface [polypeptide binding]; other site 930944004650 threonine-phosphate decarboxylase; Provisional; Region: PRK08056 930944004651 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 930944004652 pyridoxal 5'-phosphate binding site [chemical binding]; other site 930944004653 homodimer interface [polypeptide binding]; other site 930944004654 catalytic residue [active] 930944004655 Protein involved in propanediol utilization, and related proteins (includes coumermycin biosynthetic protein), possible kinase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: PduX; COG4542 930944004656 Periplasmic binding domain of autoinducer-2 (AI-2) receptor LsrB from Salmonella typhimurium and its close homologs; Region: PBP1_LsrB_Quorum_Sensing; cd06302 930944004657 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 930944004658 ligand binding site [chemical binding]; other site 930944004659 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 930944004660 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 930944004661 Walker A/P-loop; other site 930944004662 ATP binding site [chemical binding]; other site 930944004663 Q-loop/lid; other site 930944004664 ABC transporter signature motif; other site 930944004665 Walker B; other site 930944004666 D-loop; other site 930944004667 H-loop/switch region; other site 930944004668 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 930944004669 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 930944004670 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 930944004671 TM-ABC transporter signature motif; other site 930944004672 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 930944004673 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 930944004674 TM-ABC transporter signature motif; other site 930944004675 hypothetical protein; Provisional; Region: PRK05423 930944004676 Predicted membrane protein [Function unknown]; Region: COG1289 930944004677 Fusaric acid resistance protein-like; Region: FUSC_2; pfam13515 930944004678 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 930944004679 NAD(P) binding site [chemical binding]; other site 930944004680 active site 930944004681 exonuclease I; Provisional; Region: sbcB; PRK11779 930944004682 N-terminal DEDDh 3'-5' exonuclease domain of Escherichia coli exonuclease I and similar proteins; Region: ExoI_N; cd06138 930944004683 active site 930944004684 catalytic site [active] 930944004685 substrate binding site [chemical binding]; other site 930944004686 Exonuclease C-terminal; Region: Exonuc_X-T_C; pfam08411 930944004687 Amino acid transporters [Amino acid transport and metabolism]; Region: PotE; COG0531 930944004688 Glycerol dehydrogenase and related enzymes [Energy production and conversion]; Region: GldA; COG0371 930944004689 Glycerol dehydrogenases-like; Region: GlyDH-like1; cd08172 930944004690 putative active site [active] 930944004691 metal binding site [ion binding]; metal-binding site 930944004692 potential frameshift: common BLAST hit: gi|332161146|ref|YP_004297723.1| putative ABC transport system ATP-binding protein 930944004693 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 930944004694 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 930944004695 Walker A/P-loop; other site 930944004696 ATP binding site [chemical binding]; other site 930944004697 Q-loop/lid; other site 930944004698 ABC transporter signature motif; other site 930944004699 Walker B; other site 930944004700 D-loop; other site 930944004701 H-loop/switch region; other site 930944004702 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 930944004703 Walker A/P-loop; other site 930944004704 ATP binding site [chemical binding]; other site 930944004705 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 930944004706 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 930944004707 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 930944004708 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 930944004709 TM-ABC transporter signature motif; other site 930944004710 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 930944004711 atypical (a) SDRs, subgroup 4; Region: SDR_a4; cd05266 930944004712 putative NAD(P) binding site [chemical binding]; other site 930944004713 ATP phosphoribosyltransferase; Reviewed; Region: hisG; PRK00489 930944004714 ATP phosphoribosyltransferase; Region: hisG; TIGR00070 930944004715 ATP phosphoribosyltransferase, C-terminal domain; Region: HisG_C-term; TIGR03455 930944004716 Histidinol dehydrogenase [Amino acid transport and metabolism]; Region: HisD; COG0141 930944004717 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 930944004718 NAD binding site [chemical binding]; other site 930944004719 dimerization interface [polypeptide binding]; other site 930944004720 product binding site; other site 930944004721 substrate binding site [chemical binding]; other site 930944004722 zinc binding site [ion binding]; other site 930944004723 catalytic residues [active] 930944004724 histidinol-phosphate aminotransferase; Provisional; Region: PRK01688 930944004725 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 930944004726 pyridoxal 5'-phosphate binding site [chemical binding]; other site 930944004727 homodimer interface [polypeptide binding]; other site 930944004728 catalytic residue [active] 930944004729 imidazole glycerol-phosphate dehydratase/histidinol phosphatase; Provisional; Region: PRK05446 930944004730 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 930944004731 active site 930944004732 motif I; other site 930944004733 motif II; other site 930944004734 Imidazoleglycerol-phosphate dehydratase; Region: IGPD; cd07914 930944004735 putative active site pocket [active] 930944004736 4-fold oligomerization interface [polypeptide binding]; other site 930944004737 metal binding residues [ion binding]; metal-binding site 930944004738 3-fold/trimer interface [polypeptide binding]; other site 930944004739 imidazole glycerol phosphate synthase subunit HisH; Provisional; Region: hisH; PRK13170 930944004740 Type 1 glutamine amidotransferase (GATase1) domain found in imidazole glycerol phosphate synthase (IGPS); Region: GATase1_IGP_Synthase; cd01748 930944004741 putative active site [active] 930944004742 oxyanion strand; other site 930944004743 catalytic triad [active] 930944004744 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 930944004745 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 930944004746 catalytic residues [active] 930944004747 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 930944004748 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 930944004749 substrate binding site [chemical binding]; other site 930944004750 glutamase interaction surface [polypeptide binding]; other site 930944004751 Phosphoribosyl-AMP cyclohydrolase [Amino acid transport and metabolism]; Region: HisI; COG0139 930944004752 bifunctional phosphoribosyl-AMP cyclohydrolase/phosphoribosyl-ATP pyrophosphatase protein; Reviewed; Region: PRK02759 930944004753 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 930944004754 metal binding site [ion binding]; metal-binding site 930944004755 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 930944004756 6-phosphogluconate dehydrogenase; Validated; Region: PRK09287 930944004757 6-phosphogluconate dehydrogenase, C-terminal domain; Region: 6PGD; pfam00393 930944004758 Prokaryotic UGPase catalyses the synthesis of UDP-glucose; Region: UGPase_prokaryotic; cd02541 930944004759 active site 930944004760 tetramer interface; other site 930944004761 Prokaryotic UGPase catalyses the synthesis of UDP-glucose; Region: UGPase_prokaryotic; cd02541 930944004762 active site 930944004763 tetramer interface; other site 930944004764 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 930944004765 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 930944004766 bifunctional hexulose-6-phosphate synthase/ribonuclease regulator; Validated; Region: PRK07028 930944004767 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 930944004768 active site 930944004769 Demethylmenaquinone methyltransferase; Region: Methyltransf_6; cl00480 930944004770 Integrase core domain; Region: rve_3; pfam13683 930944004771 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 930944004772 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 930944004773 dTDP-6-deoxy-L-lyxo-4-hexulose reductase and related proteins, extended (e) SDRs; Region: dTDP_HR_like_SDR_e; cd05254 930944004774 RmlD substrate binding domain; Region: RmlD_sub_bind; pfam04321 930944004775 NADP binding site [chemical binding]; other site 930944004776 active site 930944004777 putative substrate binding site [chemical binding]; other site 930944004778 dTDP-4-dehydrorhamnose 3,5-epimerase; Region: dTDP_sugar_isom; pfam00908 930944004779 ABC-type polysaccharide/polyol phosphate transport system, ATPase component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: TagH; COG1134 930944004780 ATP-binding cassette component of polysaccharide transport system; Region: ABC_KpsT_Wzt; cd03220 930944004781 Walker A/P-loop; other site 930944004782 ATP binding site [chemical binding]; other site 930944004783 Q-loop/lid; other site 930944004784 ABC transporter signature motif; other site 930944004785 Walker B; other site 930944004786 D-loop; other site 930944004787 H-loop/switch region; other site 930944004788 ABC-type polysaccharide/polyol phosphate export systems, permease component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: TagG; COG1682 930944004789 RfbF is a putative dTDP-rhamnosyl transferase; Region: GT2_RfbF_like; cd02526 930944004790 L-rhamnosyltransferase; Region: rhamnosyltran; TIGR01556 930944004791 Ligand binding site; other site 930944004792 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 930944004793 Subfamily of Glycosyltransferase Family GT2 of unknown function; Region: GT_2_like_d; cd04196 930944004794 Probable Catalytic site; other site 930944004795 G1P_TT_short is the short form of glucose-1-phosphate thymidylyltransferase; Region: G1P_TT_short; cd02538 930944004796 glucose-1-phosphate thymidylyltransferase, short form; Region: rmlA; TIGR01207 930944004797 substrate binding site; other site 930944004798 tetramer interface; other site 930944004799 Transposase domain (DUF772); Region: DUF772; pfam05598 930944004800 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 930944004801 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 930944004802 Membrane protein TerC, possibly involved in tellurium resistance [Inorganic ion transport and metabolism]; Region: TerC; COG0861 930944004803 magnesium/cobalt efflux protein CorC; Provisional; Region: PRK15094 930944004804 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 930944004805 Transporter associated domain; Region: CorC_HlyC; smart01091 930944004806 C4-dicarboxylate transporter DcuC; Provisional; Region: dcuC; PRK10654 930944004807 C4-dicarboxylate anaerobic carrier; Region: DcuC; pfam03606 930944004808 putative assembly protein; Provisional; Region: PRK10833 930944004809 AsmA-like C-terminal region; Region: AsmA_2; pfam13502 930944004810 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 930944004811 trimer interface [polypeptide binding]; other site 930944004812 active site 930944004813 Uridine kinase [Nucleotide transport and metabolism]; Region: Udk; COG0572 930944004814 Uridine monophosphate kinase (UMPK, EC 2.7.1.48), also known as uridine kinase or uridine-cytidine kinase (UCK), catalyzes the reversible phosphoryl transfer from ATP to uridine or cytidine to yield UMP or CMP. In the primidine nucleotide-salvage pathway; Region: UMPK; cd02023 930944004815 ATP-binding site [chemical binding]; other site 930944004816 Sugar specificity; other site 930944004817 Pyrimidine base specificity; other site 930944004818 antiporter inner membrane protein; Provisional; Region: PRK11670 930944004819 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 930944004820 methionyl-tRNA synthetase; Reviewed; Region: metG; PRK00133 930944004821 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 930944004822 active site 930944004823 KMSKS motif; other site 930944004824 Anticodon-binding domain of methionyl tRNA synthetases; Region: Anticodon_Ia_Met; cd07957 930944004825 tRNA binding surface [nucleotide binding]; other site 930944004826 anticodon binding site; other site 930944004827 tRNA-binding-domain-containing Escherichia coli methionyl-tRNA synthetase (EcMetRS)-like proteins. This family includes EcMetRS and Aquifex aeolicus Trbp111 (AaTrbp111). This domain has general tRNA binding properties. MetRS aminoacylates methionine...; Region: tRNA_bind_EcMetRS_like; cd02800 930944004828 dimer interface [polypeptide binding]; other site 930944004829 putative tRNA-binding site [nucleotide binding]; other site 930944004830 Methylthioribose-binding protein-like of 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_methylthioribose_binding_like; cd06305 930944004831 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 930944004832 putative ligand binding site [chemical binding]; other site 930944004833 Uncharacterized conserved protein [Function unknown]; Region: COG5276 930944004834 putative transporter; Provisional; Region: PRK10054 930944004835 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 930944004836 putative substrate translocation pore; other site 930944004837 hypothetical protein; Provisional; Region: PRK01821 930944004838 hypothetical protein; Provisional; Region: PRK10711 930944004839 cytidine deaminase; Provisional; Region: PRK09027 930944004840 Cytidine deaminase zinc-binding domain. These enzymes are Zn dependent. The zinc ion in the active site plays a central role in the proposed catalytic mechanism, activating a water molecule to form a hydroxide ion that performs a nucleophilic attack on...; Region: cytidine_deaminase; cd01283 930944004841 active site 930944004842 catalytic motif [active] 930944004843 Zn binding site [ion binding]; other site 930944004844 Cytidine deaminase zinc-binding domain. These enzymes are Zn dependent. The zinc ion in the active site plays a central role in the proposed catalytic mechanism, activating a water molecule to form a hydroxide ion that performs a nucleophilic attack on...; Region: cytidine_deaminase; cd01283 930944004845 active site 930944004846 catalytic motif [active] 930944004847 Zn binding site [ion binding]; other site 930944004848 malate dehydrogenase; Provisional; Region: PRK13529 930944004849 Malic enzyme, N-terminal domain; Region: malic; pfam00390 930944004850 NAD(P) binding domain of malic enzyme (ME), subgroup 1; Region: NAD_bind_1_malic_enz; cd05312 930944004851 NAD(P) binding site [chemical binding]; other site 930944004852 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 930944004853 putative active site [active] 930944004854 HupF/HypC family; Region: HupF_HypC; cl00394 930944004855 Hydrogenase expression/synthesis hypA family; Region: HypA; cl17671 930944004856 hydrogenase nickel incorporation protein; Validated; Region: hypA; PRK03681 930944004857 Fe-S-cluster-containing hydrogenase components 2 [Energy production and conversion]; Region: HycB; COG1142 930944004858 4Fe-4S binding domain; Region: Fer4; pfam00037 930944004859 hydrogenase 4 subunit B; Validated; Region: PRK06521 930944004860 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 930944004861 Formate hydrogenlyase subunit 4 [Energy production and conversion]; Region: HyfC; COG0650 930944004862 NADH dehydrogenase; Region: NADHdh; cl00469 930944004863 Formate hydrogenlyase subunit 4 [Energy production and conversion]; Region: HyfC; COG0650 930944004864 NADH dehydrogenase; Region: NADHdh; cl00469 930944004865 hydrogenase 4 subunit D; Validated; Region: PRK06525 930944004866 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 930944004867 hydrogenase 4 membrane subunit; Provisional; Region: hyfE; PRK11492 930944004868 hydrogenase 4 subunit F; Validated; Region: PRK06458 930944004869 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 930944004870 Ni,Fe-hydrogenase III component G [Energy production and conversion]; Region: HycE; COG3262 930944004871 NADH dehydrogenase subunit D; Validated; Region: PRK06075; cl17338 930944004872 Ni,Fe-hydrogenase III large subunit [Energy production and conversion]; Region: HycE; COG3261 930944004873 hydrogenase 4 subunit H; Validated; Region: PRK08222 930944004874 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 930944004875 Ni,Fe-hydrogenase III small subunit [Energy production and conversion]; Region: COG3260 930944004876 formate hydrogenlyase maturation protein HycH; Provisional; Region: PRK15084 930944004877 Endopeptidases belonging to membrane-bound hydrogen evolving hydrogenase group. In hydrogenase 3 from E coli, the maturation of the large subunit (HycE) requires the cleavage of a C-terminal peptide by the endopeptidase HycI, before the final formation...; Region: H2MP_MemB-H2evol; cd06067 930944004878 nickel binding site [ion binding]; other site 930944004879 formate dehydrogenase-H ferredoxin subunit; Provisional; Region: PRK10330 930944004880 4Fe-4S binding domain; Region: Fer4; cl02805 930944004881 formate dehydrogenase, alpha subunit, archaeal-type; Region: Fdh-alpha; TIGR01591 930944004882 Formate dehydrogenase H (Formate-Dh-H) catalyzes the reversible oxidation of formate to CO2 with the release of a proton and two electrons. It is a component of the anaerobic formate hydrogen lyase complex. The E. coli formate dehydrogenase H (Fdh-H) is...; Region: MopB_Formate-Dh-H; cd02753 930944004883 [4Fe-4S] binding site [ion binding]; other site 930944004884 molybdopterin cofactor binding site; other site 930944004885 Formate dehydrogenase H (Formate-Dh-H) catalyzes the reversible oxidation of formate to CO2 with the release of a proton and two electrons. It is a component of the anaerobic formate hydrogen lyase complex. The E. coli formate dehydrogenase H (Fdh-H) is...; Region: MopB_CT_Formate-Dh_H; cd02790 930944004886 molybdopterin cofactor binding site; other site 930944004887 formate hydrogenlyase transcriptional activator FhlA; Provisional; Region: PRK15429 930944004888 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 930944004889 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 930944004890 Walker A motif; other site 930944004891 ATP binding site [chemical binding]; other site 930944004892 Walker B motif; other site 930944004893 arginine finger; other site 930944004894 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 930944004895 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 930944004896 TM-ABC transporter signature motif; other site 930944004897 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 930944004898 galactose/methyl galaxtoside transporter ATP-binding protein; Provisional; Region: PRK10982 930944004899 Walker A/P-loop; other site 930944004900 ATP binding site [chemical binding]; other site 930944004901 Q-loop/lid; other site 930944004902 ABC transporter signature motif; other site 930944004903 Walker B; other site 930944004904 D-loop; other site 930944004905 H-loop/switch region; other site 930944004906 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 930944004907 methyl-galactoside ABC transporter galactose-binding periplasmic protein MglB; Provisional; Region: PRK15395 930944004908 Periplasmic glucose/galactose-binding protein (GGBP) involved in chemotaxis towards, and active transport of, glucose and galactose in various bacterial species; Region: PBP1_GGBP; cd01539 930944004909 ligand binding site [chemical binding]; other site 930944004910 calcium binding site [ion binding]; other site 930944004911 DNA-binding transcriptional regulator GalS; Provisional; Region: PRK10401 930944004912 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 930944004913 DNA binding site [nucleotide binding] 930944004914 domain linker motif; other site 930944004915 Ligand binding domain of DNA transcription iso-repressor GalS, which is one of two regulatory proteins involved in galactose transport and metabolism; Region: PBP1_GalS_like; cd06270 930944004916 dimerization interface (closed form) [polypeptide binding]; other site 930944004917 ligand binding site [chemical binding]; other site 930944004918 Predicted membrane protein [Function unknown]; Region: COG2311 930944004919 hypothetical protein; Provisional; Region: PRK10835 930944004920 GTP cyclohydrolase I; Provisional; Region: folE; PRK09347 930944004921 active site 930944004922 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 930944004923 Major Facilitator Superfamily; Region: MFS_1; pfam07690 930944004924 putative substrate translocation pore; other site 930944004925 Transcriptional regulator [Transcription]; Region: LysR; COG0583 930944004926 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 930944004927 The C-terminal substrate binding domain of LysR-type transcriptional regulators, YofA and SoxR, contains the type 2 periplasmic binding fold; Region: PBP2_YofA_SoxR_like; cd08442 930944004928 putative dimerization interface [polypeptide binding]; other site 930944004929 class III alcohol dehydrogenases; Region: alcohol_DH_class_III; cd08300 930944004930 S-(hydroxymethyl)glutathione dehydrogenase/class III alcohol dehydrogenase; Region: adh_III_F_hyde; TIGR02818 930944004931 substrate binding site [chemical binding]; other site 930944004932 catalytic Zn binding site [ion binding]; other site 930944004933 NAD binding site [chemical binding]; other site 930944004934 structural Zn binding site [ion binding]; other site 930944004935 dimer interface [polypeptide binding]; other site 930944004936 S-formylglutathione hydrolase; Region: PLN02442 930944004937 S-formylglutathione hydrolase; Region: fghA_ester_D; TIGR02821 930944004938 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 930944004939 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 930944004940 HlyD family secretion protein; Region: HlyD_3; pfam13437 930944004941 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 930944004942 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 930944004943 Walker A/P-loop; other site 930944004944 ATP binding site [chemical binding]; other site 930944004945 Q-loop/lid; other site 930944004946 ABC transporter signature motif; other site 930944004947 Walker B; other site 930944004948 D-loop; other site 930944004949 H-loop/switch region; other site 930944004950 Arylsulfatase regulator (Fe-S oxidoreductase) [General function prediction only]; Region: AslB; COG0641 930944004951 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 930944004952 FeS/SAM binding site; other site 930944004953 radical SAM additional 4Fe4S-binding SPASM domain; Region: rSAM_more_4Fe4S; TIGR04085 930944004954 Bacterial protein of unknown function (DUF924); Region: DUF924; pfam06041 930944004955 molybdopterin biosynthesis protein MoeA; Provisional; Region: PRK10680 930944004956 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 930944004957 dimer interface [polypeptide binding]; other site 930944004958 putative functional site; other site 930944004959 putative MPT binding site; other site 930944004960 molybdopterin biosynthesis protein MoeB; Provisional; Region: PRK05690 930944004961 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 930944004962 ATP binding site [chemical binding]; other site 930944004963 substrate interface [chemical binding]; other site 930944004964 Yersinia protein of unknown function (DUF3831); Region: DUF3831; pfam12908 930944004965 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 930944004966 Transposase; Region: DEDD_Tnp_IS110; pfam01548 930944004967 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 930944004968 ABC transporter ATP-binding protein; Provisional; Region: PRK15064 930944004969 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 930944004970 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 930944004971 Walker A/P-loop; other site 930944004972 ATP binding site [chemical binding]; other site 930944004973 ABC transporter signature motif; other site 930944004974 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 930944004975 Walker B; other site 930944004976 ABC transporter; Region: ABC_tran_2; pfam12848 930944004977 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 930944004978 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 930944004979 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 930944004980 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 930944004981 active site 930944004982 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: COG3965 930944004983 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 930944004984 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 930944004985 outer membrane protein X; Provisional; Region: ompX; PRK09408 930944004986 threonine and homoserine efflux system; Provisional; Region: PRK10532 930944004987 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 930944004988 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 930944004989 Coenzyme A binding pocket [chemical binding]; other site 930944004990 Secreted and surface protein containing fasciclin-like repeats [Cell envelope biogenesis, outer membrane]; Region: COG2335 930944004991 Fasciclin domain; Region: Fasciclin; pfam02469 930944004992 RNA polymerase sigma factor; Provisional; Region: PRK12534 930944004993 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 930944004994 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 930944004995 DNA binding residues [nucleotide binding] 930944004996 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5343 930944004997 Anti-sigma-K factor rskA; Region: RskA; pfam10099 930944004998 Trans-aconitate methyltransferase [General function prediction only]; Region: Tam; COG4106 930944004999 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 930944005000 S-adenosylmethionine binding site [chemical binding]; other site 930944005001 DNA-binding ferritin-like protein (oxidative damage protectant) [Inorganic ion transport and metabolism]; Region: Dps; COG0783 930944005002 DPS protein, ferritin-like diiron-binding domain; Region: DPS; cd01043 930944005003 dimerization interface [polypeptide binding]; other site 930944005004 DPS ferroxidase diiron center [ion binding]; other site 930944005005 ion pore; other site 930944005006 hypothetical protein; Provisional; Region: PRK11019 930944005007 glutamine ABC transporter periplasmic protein; Reviewed; Region: glnH; PRK09495 930944005008 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 930944005009 substrate binding pocket [chemical binding]; other site 930944005010 membrane-bound complex binding site; other site 930944005011 hinge residues; other site 930944005012 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 930944005013 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 930944005014 dimer interface [polypeptide binding]; other site 930944005015 conserved gate region; other site 930944005016 putative PBP binding loops; other site 930944005017 ABC-ATPase subunit interface; other site 930944005018 glutamine ABC transporter ATP-binding protein; Reviewed; Region: glnQ; PRK09493 930944005019 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 930944005020 Walker A/P-loop; other site 930944005021 ATP binding site [chemical binding]; other site 930944005022 Q-loop/lid; other site 930944005023 ABC transporter signature motif; other site 930944005024 Walker B; other site 930944005025 D-loop; other site 930944005026 H-loop/switch region; other site 930944005027 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 930944005028 PAS domain; Region: PAS_9; pfam13426 930944005029 putative active site [active] 930944005030 heme pocket [chemical binding]; other site 930944005031 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 930944005032 PAS domain; Region: PAS_9; pfam13426 930944005033 putative active site [active] 930944005034 heme pocket [chemical binding]; other site 930944005035 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 930944005036 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 930944005037 dimer interface [polypeptide binding]; other site 930944005038 putative CheW interface [polypeptide binding]; other site 930944005039 Protein of unknown function (DUF890); Region: Methyltransf_10; pfam05971 930944005040 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 930944005041 S-adenosylmethionine binding site [chemical binding]; other site 930944005042 Conserved protein/domain typically associated with flavoprotein oxygenases, DIM6/NTAB family [General function prediction only]; Region: COG1853 930944005043 Protein of unknown function (DUF1471); Region: DUF1471; cl11507 930944005044 potential frameshift: common BLAST hit: gi|332161049|ref|YP_004297626.1| putative peptidase 930944005045 Peptidase M3-like family, a zincin metallopeptidase, includes M3 and M32 families; Region: M3_like; cd06258 930944005046 active site 930944005047 Zn binding site [ion binding]; other site 930944005048 glycosyl transferase family protein; Provisional; Region: PRK08136 930944005049 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 930944005050 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 930944005051 amphipathic channel; other site 930944005052 Asn-Pro-Ala signature motifs; other site 930944005053 ATP-dependent DNA helicase DinG; Provisional; Region: dinG; PRK11747 930944005054 DEAD_2; Region: DEAD_2; pfam06733 930944005055 Helicase C-terminal domain; Region: Helicase_C_2; pfam13307 930944005056 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 930944005057 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 930944005058 trimer interface [polypeptide binding]; other site 930944005059 eyelet of channel; other site 930944005060 Alginate lyase; Region: Alginate_lyase; pfam05426 930944005061 putative DMT superfamily transporter inner membrane protein; Provisional; Region: PRK11272 930944005062 EamA-like transporter family; Region: EamA; pfam00892 930944005063 EamA-like transporter family; Region: EamA; pfam00892 930944005064 Transcriptional regulator [Transcription]; Region: LysR; COG0583 930944005065 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 930944005066 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 930944005067 putative effector binding pocket; other site 930944005068 dimerization interface [polypeptide binding]; other site 930944005069 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 930944005070 short chain dehydrogenase; Provisional; Region: PRK07041 930944005071 NAD(P) binding site [chemical binding]; other site 930944005072 active site 930944005073 ABC-type phosphate/phosphonate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: PhnD; COG3221 930944005074 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 930944005075 dimer interface [polypeptide binding]; other site 930944005076 conserved gate region; other site 930944005077 putative PBP binding loops; other site 930944005078 ABC-ATPase subunit interface; other site 930944005079 ABC-type proline/glycine betaine transport systems, ATPase components [Amino acid transport and metabolism]; Region: OpuBA; COG1125 930944005080 ATP-binding cassette domain of the osmoprotectant transporter; Region: ABC_OpuCA_Osmoprotection; cd03295 930944005081 Walker A/P-loop; other site 930944005082 ATP binding site [chemical binding]; other site 930944005083 Q-loop/lid; other site 930944005084 ABC transporter signature motif; other site 930944005085 Walker B; other site 930944005086 D-loop; other site 930944005087 H-loop/switch region; other site 930944005088 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 930944005089 ABC-type proline/glycine betaine transport systems, permease component [Amino acid transport and metabolism]; Region: OpuBB; COG1174 930944005090 Periplasmic glycine betaine/choline-binding (lipo)protein of an ABC-type transport system (osmoprotectant binding protein) [Cell envelope biogenesis, outer membrane]; Region: OpuBC; COG1732 930944005091 The membrane fatty acid desaturase (Membrane_FADS)-like CD includes membrane FADSs, alkane hydroxylases, beta carotene ketolases (CrtW-like), hydroxylases (CrtR-like), and other related proteins. They are present in all groups of organisms with the...; Region: Membrane-FADS-like; cl00615 930944005092 putative di-iron ligands [ion binding]; other site 930944005093 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 930944005094 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 930944005095 3-mercaptopyruvate sulfurtransferase; Provisional; Region: sseA; PRK11493 930944005096 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 930944005097 active site residue [active] 930944005098 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 930944005099 active site residue [active] 930944005100 urea ABC transporter, ATP-binding protein UrtE; Region: urea_trans_UrtE; TIGR03410 930944005101 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 930944005102 Walker A/P-loop; other site 930944005103 ATP binding site [chemical binding]; other site 930944005104 Q-loop/lid; other site 930944005105 ABC transporter signature motif; other site 930944005106 Walker B; other site 930944005107 D-loop; other site 930944005108 H-loop/switch region; other site 930944005109 Uncharacterized ABC-type transport system, ATPase component [General function prediction only]; Region: COG4674 930944005110 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 930944005111 Walker A/P-loop; other site 930944005112 ATP binding site [chemical binding]; other site 930944005113 Q-loop/lid; other site 930944005114 ABC transporter signature motif; other site 930944005115 Walker B; other site 930944005116 D-loop; other site 930944005117 H-loop/switch region; other site 930944005118 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 930944005119 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 930944005120 TM-ABC transporter signature motif; other site 930944005121 HEAT repeats; Region: HEAT_2; pfam13646 930944005122 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 930944005123 TM-ABC transporter signature motif; other site 930944005124 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 930944005125 Periplasmic component (FmdD) of an active transport system for short-chain amides and urea (FmdDEF); Region: PBP1_FmdD_like; cd06355 930944005126 putative ligand binding site [chemical binding]; other site 930944005127 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4807 930944005128 Protein of unknown function (DUF1456); Region: DUF1456; pfam07308 930944005129 Protein of unknown function (DUF1456); Region: DUF1456; pfam07308 930944005130 phosphonate ABC transporter, permease protein PhnE; Region: PhnE; TIGR01097 930944005131 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 930944005132 dimer interface [polypeptide binding]; other site 930944005133 conserved gate region; other site 930944005134 putative PBP binding loops; other site 930944005135 ABC-ATPase subunit interface; other site 930944005136 phosphonate ABC transporter, permease protein PhnE; Region: PhnE; TIGR01097 930944005137 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 930944005138 dimer interface [polypeptide binding]; other site 930944005139 conserved gate region; other site 930944005140 putative PBP binding loops; other site 930944005141 ABC-ATPase subunit interface; other site 930944005142 phosphonate ABC transporter, periplasmic phosphonate binding protein; Region: PhnD; TIGR03431 930944005143 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 930944005144 substrate binding pocket [chemical binding]; other site 930944005145 membrane-bound complex binding site; other site 930944005146 hinge residues; other site 930944005147 ABC-type phosphate/phosphonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: COG3638 930944005148 ATP-binding cassette domain of the binding protein-dependent phosphonate transport system; Region: ABC_PhnC_transporter; cd03256 930944005149 Walker A/P-loop; other site 930944005150 ATP binding site [chemical binding]; other site 930944005151 Q-loop/lid; other site 930944005152 ABC transporter signature motif; other site 930944005153 Walker B; other site 930944005154 D-loop; other site 930944005155 H-loop/switch region; other site 930944005156 hypothetical protein; Provisional; Region: PRK10457 930944005157 Suppressor of fused protein (SUFU); Region: SUFU; pfam05076 930944005158 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 930944005159 active site 930944005160 Adenylyl cyclase (AC) class IV-like, a subgroup of the CYTH-like superfamily; Region: CYTH-like_AC_IV-like; cd07890 930944005161 putative active site [active] 930944005162 putative metal binding residues [ion binding]; other site 930944005163 signature motif; other site 930944005164 putative triphosphate binding site [ion binding]; other site 930944005165 dimer interface [polypeptide binding]; other site 930944005166 D-lactate dehydrogenase; Provisional; Region: PRK11183 930944005167 FAD binding domain; Region: FAD_binding_4; pfam01565 930944005168 D-lactate dehydrogenase, membrane binding; Region: Lact-deh-memb; pfam09330 930944005169 D-alanyl-D-alanine endopeptidase; Provisional; Region: pbpG; PRK11669 930944005170 D-alanyl-D-alanine carboxypeptidase; Region: Peptidase_S11; pfam00768 930944005171 Mg/Co/Ni transporter MgtE (contains CBS domain) [Inorganic ion transport and metabolism]; Region: MgtE; COG2239 930944005172 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 930944005173 Divalent cation transporter; Region: MgtE; pfam01769 930944005174 tRNA-dihydrouridine synthase C; Provisional; Region: PRK10550 930944005175 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 930944005176 FMN binding site [chemical binding]; other site 930944005177 active site 930944005178 catalytic residues [active] 930944005179 substrate binding site [chemical binding]; other site 930944005180 ATP-dependent RNA helicase RhlE; Provisional; Region: PRK10590 930944005181 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 930944005182 ATP binding site [chemical binding]; other site 930944005183 Mg++ binding site [ion binding]; other site 930944005184 motif III; other site 930944005185 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 930944005186 nucleotide binding region [chemical binding]; other site 930944005187 ATP-binding site [chemical binding]; other site 930944005188 putative DNA-binding transcriptional regulator; Provisional; Region: PRK11552 930944005189 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 930944005190 Domain of unknown function (DUF1956); Region: DUF1956; pfam09209 930944005191 putative efflux pump membrane fusion protein; Provisional; Region: PRK03598 930944005192 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 930944005193 HlyD family secretion protein; Region: HlyD_3; pfam13437 930944005194 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 930944005195 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 930944005196 Walker A/P-loop; other site 930944005197 ATP binding site [chemical binding]; other site 930944005198 Q-loop/lid; other site 930944005199 ABC transporter signature motif; other site 930944005200 Walker B; other site 930944005201 D-loop; other site 930944005202 H-loop/switch region; other site 930944005203 ABC-type Na+ transport system, ATPase component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatA; COG4555 930944005204 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 930944005205 Walker A/P-loop; other site 930944005206 ATP binding site [chemical binding]; other site 930944005207 Q-loop/lid; other site 930944005208 ABC transporter signature motif; other site 930944005209 Walker B; other site 930944005210 D-loop; other site 930944005211 H-loop/switch region; other site 930944005212 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 930944005213 ABC-2 family transporter protein; Region: ABC2_membrane_2; pfam12679 930944005214 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 930944005215 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 930944005216 Integral membrane protein, interacts with FtsH [General function prediction only]; Region: COG0670 930944005217 Bacterial BAX inhibitor (BI)-1/YccA-like proteins; Region: BI-1-like_bacterial; cd10432 930944005218 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 930944005219 MoaE homodimer interface [polypeptide binding]; other site 930944005220 MoaD interaction [polypeptide binding]; other site 930944005221 active site residues [active] 930944005222 Ubiquitin domain of MoaD-like proteins; Region: MoaD; cd00754 930944005223 MoaE interaction surface [polypeptide binding]; other site 930944005224 MoeB interaction surface [polypeptide binding]; other site 930944005225 thiocarboxylated glycine; other site 930944005226 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 930944005227 trimer interface [polypeptide binding]; other site 930944005228 dimer interface [polypeptide binding]; other site 930944005229 putative active site [active] 930944005230 molybdenum cofactor biosynthesis protein A; Reviewed; Region: moaA; PRK00164 930944005231 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 930944005232 FeS/SAM binding site; other site 930944005233 Molybdenum Cofactor Synthesis C; Region: Mob_synth_C; pfam06463 930944005234 conserved hypothetical protein, cofD-related; Region: CofD_related; TIGR01826 930944005235 family of mostly uncharacterized proteins similar to B.subtilis YvcK; Region: YvcK_like; cd07187 930944005236 phosphate binding site [ion binding]; other site 930944005237 putative substrate binding pocket [chemical binding]; other site 930944005238 dimer interface [polypeptide binding]; other site 930944005239 Uncharacterized conserved protein (DUF2132); Region: DUF2132; pfam09905 930944005240 excinuclease ABC subunit B; Provisional; Region: PRK05298 930944005241 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 930944005242 ATP binding site [chemical binding]; other site 930944005243 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 930944005244 nucleotide binding region [chemical binding]; other site 930944005245 ATP-binding site [chemical binding]; other site 930944005246 Ultra-violet resistance protein B; Region: UvrB; pfam12344 930944005247 UvrB/uvrC motif; Region: UVR; pfam02151 930944005248 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 930944005249 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 930944005250 Walker A/P-loop; other site 930944005251 ATP binding site [chemical binding]; other site 930944005252 Q-loop/lid; other site 930944005253 ABC transporter signature motif; other site 930944005254 Walker B; other site 930944005255 D-loop; other site 930944005256 H-loop/switch region; other site 930944005257 AAA domain; Region: AAA_26; pfam13500 930944005258 dithiobiotin synthetase; Reviewed; Region: bioD; PRK00090 930944005259 biotin biosynthesis protein BioC; Region: BioC; TIGR02072 930944005260 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 930944005261 S-adenosylmethionine binding site [chemical binding]; other site 930944005262 8-amino-7-oxononanoate synthase; Reviewed; Region: PRK05958 930944005263 pyridoxal phosphate-dependent acyltransferase, putative; Region: gly_Cac_T_rel; TIGR01825 930944005264 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 930944005265 catalytic residue [active] 930944005266 biotin synthase; Provisional; Region: PRK15108 930944005267 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 930944005268 FeS/SAM binding site; other site 930944005269 Biotin and Thiamin Synthesis associated domain; Region: BATS; smart00876 930944005270 adenosylmethionine--8-amino-7-oxononanoate transaminase; Validated; Region: PRK07986 930944005271 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 930944005272 inhibitor-cofactor binding pocket; inhibition site 930944005273 pyridoxal 5'-phosphate binding site [chemical binding]; other site 930944005274 catalytic residue [active] 930944005275 6-phosphogluconolactonase; Provisional; Region: PRK11028 930944005276 pyridoxal phosphate (PLP) phosphatase; Provisional; Region: PRK10530 930944005277 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 930944005278 active site 930944005279 motif I; other site 930944005280 motif II; other site 930944005281 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 930944005282 molybdate transporter ATP-binding protein; Provisional; Region: modC; PRK11144 930944005283 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 930944005284 Walker A/P-loop; other site 930944005285 ATP binding site [chemical binding]; other site 930944005286 Q-loop/lid; other site 930944005287 ABC transporter signature motif; other site 930944005288 Walker B; other site 930944005289 D-loop; other site 930944005290 H-loop/switch region; other site 930944005291 TOBE domain; Region: TOBE; cl01440 930944005292 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 930944005293 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 930944005294 dimer interface [polypeptide binding]; other site 930944005295 conserved gate region; other site 930944005296 putative PBP binding loops; other site 930944005297 ABC-ATPase subunit interface; other site 930944005298 potential frameshift: common BLAST hit: gi|332160950|ref|YP_004297527.1| molybdate transporter periplasmic protein 930944005299 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 930944005300 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 930944005301 Protein of unknown function (DUF2592); Region: DUF2592; pfam10766 930944005302 DNA-binding transcriptional regulator ModE; Provisional; Region: PRK10676 930944005303 N-terminal domain of molybdenum-binding protein [General function prediction only]; Region: ModE; COG2005 930944005304 molybdenum-pterin binding domain; Region: Mop; TIGR00638 930944005305 Molybdopterin-binding protein [Coenzyme metabolism]; Region: MopI; COG3585 930944005306 putative molybdenum transport ATP-binding protein ModF; Provisional; Region: PRK10938 930944005307 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cd00267 930944005308 Walker A/P-loop; other site 930944005309 ATP binding site [chemical binding]; other site 930944005310 Q-loop/lid; other site 930944005311 ABC transporter signature motif; other site 930944005312 Walker B; other site 930944005313 D-loop; other site 930944005314 H-loop/switch region; other site 930944005315 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 930944005316 Walker A/P-loop; other site 930944005317 ATP binding site [chemical binding]; other site 930944005318 Q-loop/lid; other site 930944005319 ABC transporter signature motif; other site 930944005320 Walker B; other site 930944005321 D-loop; other site 930944005322 H-loop/switch region; other site 930944005323 CAAX protease self-immunity; Region: Abi; pfam02517 930944005324 UDP-galactose-4-epimerase; Provisional; Region: PRK10675 930944005325 UDP-glucose 4 epimerase, subgroup 1, extended (e) SDRs; Region: UDP_G4E_1_SDR_e; cd05247 930944005326 NAD binding site [chemical binding]; other site 930944005327 homodimer interface [polypeptide binding]; other site 930944005328 active site 930944005329 substrate binding site [chemical binding]; other site 930944005330 galactose-1-phosphate uridylyltransferase; Provisional; Region: PRK11720 930944005331 Galactose-1-phosphate uridyl transferase (GalT): This enzyme plays a key role in galactose metabolism by catalysing the transfer of a uridine 5'-phosphoryl group from UDP-galactose 1-phosphate. The structure of E.coli GalT reveals that the enzyme...; Region: GalT; cd00608 930944005332 dimer interface [polypeptide binding]; other site 930944005333 active site 930944005334 galactokinase; Provisional; Region: PRK05101 930944005335 Galactokinase galactose-binding signature; Region: GalKase_gal_bdg; pfam10509 930944005336 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 930944005337 galactose mutarotase_like; Region: galactose_mutarotase_like; cd09019 930944005338 active site 930944005339 catalytic residues [active] 930944005340 psiF repeat; Region: PsiF_repeat; pfam07769 930944005341 psiF repeat; Region: PsiF_repeat; pfam07769 930944005342 Peptidase S8 family domain in Thiazoline oxidase/subtilisin-like proteases; Region: Peptidases_S8_thiazoline_oxidase_subtilisin-like_p; cd07476 930944005343 putative active site [active] 930944005344 putative catalytic triad [active] 930944005345 cyanobactin maturation protease, PatA/PatG family; Region: protease_PatA; TIGR03895 930944005346 DNA/RNA non-specific endonuclease; prokaryotic and eukaryotic double- and single-stranded DNA and RNA endonucleases also present in phosphodiesterases. They exists as monomers and homodimers; Region: NUC; cd00091 930944005347 DNA/RNA non-specific endonuclease; Region: Endonuclease_NS; smart00892 930944005348 active site 930944005349 substrate binding site [chemical binding]; other site 930944005350 Mg2+ binding site [ion binding]; other site 930944005351 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 930944005352 catalytic core [active] 930944005353 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 930944005354 phospho-2-dehydro-3-deoxyheptonate aldolase; Validated; Region: PRK09261 930944005355 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 930944005356 Cation efflux family; Region: Cation_efflux; cl00316 930944005357 nicotinamide riboside transporter PnuC; Provisional; Region: PRK15397 930944005358 quinolinate synthetase; Provisional; Region: PRK09375 930944005359 tol-pal system protein YbgF; Provisional; Region: PRK10803 930944005360 Tetratricopeptide repeat; Region: TPR_6; pfam13174 930944005361 peptidoglycan-associated outer membrane lipoprotein; Provisional; Region: PRK10802 930944005362 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 930944005363 ligand binding site [chemical binding]; other site 930944005364 translocation protein TolB; Provisional; Region: tolB; PRK03629 930944005365 TolB amino-terminal domain; Region: TolB_N; pfam04052 930944005366 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 930944005367 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 930944005368 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 930944005369 cell envelope integrity inner membrane protein TolA; Provisional; Region: tolA; PRK09510 930944005370 TolA C-terminal; Region: TolA; pfam06519 930944005371 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 930944005372 colicin uptake protein TolR; Provisional; Region: PRK11024 930944005373 colicin uptake protein TolQ; Provisional; Region: PRK10801 930944005374 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 930944005375 active site 930944005376 Cyd operon protein YbgE (Cyd_oper_YbgE); Region: Cyd_oper_YbgE; cl11451 930944005377 Membrane bound YbgT-like protein; Region: YbgT_YccB; pfam08173 930944005378 cytochrome d ubiquinol oxidase subunit 2; Provisional; Region: PRK15003; cl12219 930944005379 Cytochrome oxidase subunit II; Region: Cyto_ox_2; pfam02322 930944005380 cytochrome d terminal oxidase subunit 1; Provisional; Region: PRK15097 930944005381 Bacterial Cytochrome Ubiquinol Oxidase; Region: Bac_Ubq_Cox; cl00562 930944005382 5'-nucleotidase/2',3'-cyclic phosphodiesterase and related esterases [Nucleotide transport and metabolism]; Region: UshA; COG0737 930944005383 Escherichia coli CpdB and related proteins, N-terminal metallophosphatase domain; Region: MPP_CpdB_N; cd07410 930944005384 active site 930944005385 metal binding site [ion binding]; metal-binding site 930944005386 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 930944005387 succinyl-CoA synthetase subunit alpha; Validated; Region: PRK05678 930944005388 CoA binding domain; Region: CoA_binding; smart00881 930944005389 CoA-ligase; Region: Ligase_CoA; pfam00549 930944005390 succinyl-CoA synthetase subunit beta; Provisional; Region: sucC; PRK00696 930944005391 ATP-grasp domain; Region: ATP-grasp_2; pfam08442 930944005392 CoA-ligase; Region: Ligase_CoA; pfam00549 930944005393 dihydrolipoamide succinyltransferase; Validated; Region: PRK05704 930944005394 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 930944005395 E3 interaction surface; other site 930944005396 lipoyl attachment site [posttranslational modification]; other site 930944005397 e3 binding domain; Region: E3_binding; pfam02817 930944005398 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 930944005399 2-oxoglutarate dehydrogenase E1 component; Reviewed; Region: sucA; PRK09404 930944005400 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 930944005401 TPP-binding site [chemical binding]; other site 930944005402 Transketolase, pyrimidine binding domain; Region: Transket_pyr; pfam02779 930944005403 dimer interface [polypeptide binding]; other site 930944005404 PYR/PP interface [polypeptide binding]; other site 930944005405 TPP binding site [chemical binding]; other site 930944005406 succinate dehydrogenase iron-sulfur subunit; Reviewed; Region: sdhB; PRK05950 930944005407 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_3; pfam13085 930944005408 succinate dehydrogenase flavoprotein subunit; Reviewed; Region: sdhA; PRK08958 930944005409 L-aspartate oxidase; Provisional; Region: PRK06175 930944005410 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 930944005411 Succinate:quinone oxidoreductase (SQR) Type C subfamily, Succinate dehydrogenase D (SdhD) subunit; SQR catalyzes the oxidation of succinate to fumarate coupled to the reduction of quinone to quinol. E. coli SQR, a member of this subfamily, reduces the...; Region: SQR_TypeC_SdhD; cd03494 930944005412 SdhC subunit interface [polypeptide binding]; other site 930944005413 proximal heme binding site [chemical binding]; other site 930944005414 cardiolipin binding site; other site 930944005415 Iron-sulfur protein interface; other site 930944005416 proximal quinone binding site [chemical binding]; other site 930944005417 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 930944005418 proximal heme binding site [chemical binding]; other site 930944005419 SdhD (CybS) interface [polypeptide binding]; other site 930944005420 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 930944005421 Citrate synthase [Energy production and conversion]; Region: GltA; COG0372 930944005422 dimer interface [polypeptide binding]; other site 930944005423 active site 930944005424 citrylCoA binding site [chemical binding]; other site 930944005425 NADH binding [chemical binding]; other site 930944005426 cationic pore residues; other site 930944005427 oxalacetate/citrate binding site [chemical binding]; other site 930944005428 coenzyme A binding site [chemical binding]; other site 930944005429 catalytic triad [active] 930944005430 Pyroglutamyl peptidase (PGP) type I, also known as pyrrolidone carboxyl peptidase (pcp) type I: Enzymes responsible for cleaving pyroglutamate (pGlu) from the N-terminal end of specialized proteins. The N-terminal pGlu protects these proteins from...; Region: Peptidase_C15; cd00501 930944005431 putative substrate binding pocket [chemical binding]; other site 930944005432 AC domain interface; other site 930944005433 catalytic triad [active] 930944005434 AB domain interface; other site 930944005435 interchain disulfide; other site 930944005436 Predicted membrane protein [Function unknown]; Region: COG3817 930944005437 Protein of unknown function (DUF979); Region: DUF979; pfam06166 930944005438 Predicted membrane protein [Function unknown]; Region: COG3819 930944005439 Escherichia coli putative lactam utilization protein YbgL and similar proteins; Region: LamB_YcsF_YbgL_like; cd10800 930944005440 putative active site [active] 930944005441 Allophanate hydrolase subunit 2 [Amino acid transport and metabolism]; Region: DUR1; COG1984 930944005442 Allophanate hydrolase subunit 1 [Amino acid transport and metabolism]; Region: DUR1; cl00896 930944005443 Uncharacterized conserved protein [Function unknown]; Region: COG0327 930944005444 NIF3 (NGG1p interacting factor 3); Region: NIF3; cl15371 930944005445 cAMP phosphodiesterases class-II; Region: PDEase_II; cl17776 930944005446 deoxyribodipyrimidine photolyase; Provisional; Region: PRK10674 930944005447 DNA photolyase; Region: DNA_photolyase; pfam00875 930944005448 hypothetical protein; Provisional; Region: PRK10167 930944005449 V-type ATP synthase subunit H; Validated; Region: PRK08404 930944005450 Yersinia/Haemophilus virulence surface antigen; Region: Peptidase_C58; cl04145 930944005451 Peptidase C80 family; Region: Peptidase_C80; pfam11713 930944005452 RTX toxins and related Ca2+-binding proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG2931 930944005453 RTX toxin acyltransferase family; Region: HlyC; pfam02794 930944005454 Protein of unknown function (DUF2517); Region: DUF2517; pfam10725 930944005455 potassium-transporting ATPase subunit A; Provisional; Region: PRK05482 930944005456 potassium-transporting ATPase subunit B; Provisional; Region: PRK01122 930944005457 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 930944005458 potassium-transporting ATPase subunit C; Reviewed; Region: PRK00315 930944005459 sensor protein KdpD; Provisional; Region: PRK10490 930944005460 Osmosensitive K+ channel His kinase sensor domain; Region: KdpD; pfam02702 930944005461 USP domain is located between the N-terminal sensor domain and C-terminal catalytic domain of this Osmosensitive K+ channel histidine kinase family. The family of KdpD sensor kinase proteins regulates the kdpFABC operon responsible for potassium...; Region: USP_OKCHK; cd01987 930944005462 Ligand Binding Site [chemical binding]; other site 930944005463 Domain of unknown function (DUF4118); Region: DUF4118; pfam13493 930944005464 GAF domain; Region: GAF_3; pfam13492 930944005465 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 930944005466 dimer interface [polypeptide binding]; other site 930944005467 phosphorylation site [posttranslational modification] 930944005468 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 930944005469 ATP binding site [chemical binding]; other site 930944005470 Mg2+ binding site [ion binding]; other site 930944005471 G-X-G motif; other site 930944005472 DNA-binding transcriptional activator KdpE; Provisional; Region: PRK10529 930944005473 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 930944005474 active site 930944005475 phosphorylation site [posttranslational modification] 930944005476 intermolecular recognition site; other site 930944005477 dimerization interface [polypeptide binding]; other site 930944005478 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 930944005479 DNA binding site [nucleotide binding] 930944005480 Predicted membrane protein [Function unknown]; Region: COG2510 930944005481 RTX toxins and related Ca2+-binding proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG2931 930944005482 phosphoglucomutase; Validated; Region: PRK07564 930944005483 This bacterial PGM-like (phosphoglucomutase-like) protein of unknown function belongs to the alpha-D-phosphohexomutase superfamily. The alpha-D-phosphohexomutases include several related enzymes that catalyze a reversible intramolecular phosphoryl...; Region: PGM_like3; cd05801 930944005484 active site 930944005485 substrate binding site [chemical binding]; other site 930944005486 metal binding site [ion binding]; metal-binding site 930944005487 replication initiation regulator SeqA; Provisional; Region: PRK11187 930944005488 acyl-CoA esterase; Provisional; Region: PRK10673 930944005489 PGAP1-like protein; Region: PGAP1; pfam07819 930944005490 LexA regulated protein; Provisional; Region: PRK11675 930944005491 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cl01054 930944005492 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 930944005493 dimer interface [polypeptide binding]; other site 930944005494 putative CheW interface [polypeptide binding]; other site 930944005495 flavodoxin FldA; Validated; Region: PRK09267 930944005496 ferric uptake regulator; Provisional; Region: fur; PRK09462 930944005497 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 930944005498 metal binding site 2 [ion binding]; metal-binding site 930944005499 putative DNA binding helix; other site 930944005500 metal binding site 1 [ion binding]; metal-binding site 930944005501 dimer interface [polypeptide binding]; other site 930944005502 structural Zn2+ binding site [ion binding]; other site 930944005503 Putative carbohydrate binding domain; Region: CHB_HEX; smart01081 930944005504 N-acetyl-beta-hexosaminidase [Carbohydrate transport and metabolism]; Region: Chb; COG3525 930944005505 Glycosyl hydrolase family 20, domain 2; Region: Glyco_hydro_20b; pfam02838 930944005506 The chitobiase of Serratia marcescens is a beta-N-1,4-acetylhexosaminidase with a glycosyl hydrolase family 20 (GH20) domain that hydrolyzes the beta-1,4-glycosidic linkages in oligomers derived from chitin. Chitin is degraded by a two step process: i) a...; Region: GH20_Sm-chitobiase-like; cd06569 930944005507 active site 930944005508 C-terminal Early set domain associated with the catalytic domain of chitobiase (also called N-acetylglucosaminidase); Region: E_set_Chitobiase_C; cd02847 930944005509 Prokaryotic membrane lipoprotein lipid attachment site; Region: LPAM_1; pfam08139 930944005510 YbfN-like lipoprotein; Region: YbfN; pfam13982 930944005511 outer membrane porin, OprD family; Region: OprD; pfam03573 930944005512 glutaminyl-tRNA synthetase; Provisional; Region: PRK05347 930944005513 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 930944005514 active site 930944005515 HIGH motif; other site 930944005516 nucleotide binding site [chemical binding]; other site 930944005517 catalytic core domain of glutaminyl-tRNA synthetase; Region: GlnRS_core; cd00807 930944005518 KMSKS motif; other site 930944005519 tRNA synthetases class I (E and Q), anti-codon binding domain; Region: tRNA-synt_1c_C; pfam03950 930944005520 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 930944005521 PTS system N-acetyl glucosamine specific transporter subunits IIABC; Provisional; Region: PRK10255 930944005522 PTS_IIB, PTS system, glucose/sucrose specific IIB subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIB_glc; cd00212 930944005523 active site turn [active] 930944005524 phosphorylation site [posttranslational modification] 930944005525 PTS_IIA, PTS system, glucose/sucrose 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_glc; cd00210 930944005526 HPr interaction site; other site 930944005527 glycerol kinase (GK) interaction site [polypeptide binding]; other site 930944005528 active site 930944005529 phosphorylation site [posttranslational modification] 930944005530 6-phosphogluconolactonase/Glucosamine-6-phosphate isomerase/deaminase [Carbohydrate transport and metabolism]; Region: NagB; COG0363 930944005531 GlcN6P_deaminase: Glucosamine-6-phosphate (GlcN6P) deaminase subfamily; GlcN6P deaminase catalyzes the reversible conversion of GlcN6P to D-fructose-6-phosphate (Fru6P) and ammonium. The reaction is an aldo-keto isomerization coupled with an amination or...; Region: GlcN6P_deaminase; cd01399 930944005532 active site 930944005533 trimer interface [polypeptide binding]; other site 930944005534 allosteric site; other site 930944005535 active site lid [active] 930944005536 hexamer (dimer of trimers) interface [polypeptide binding]; other site 930944005537 N-acetylglucosamine-6-phosphate deacetylase [Carbohydrate transport and metabolism]; Region: NagA; COG1820 930944005538 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 930944005539 active site 930944005540 dimer interface [polypeptide binding]; other site 930944005541 MarR family; Region: MarR; pfam01047 930944005542 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 930944005543 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 930944005544 nucleotide binding site [chemical binding]; other site 930944005545 UMP phosphatase; Provisional; Region: PRK10444 930944005546 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 930944005547 active site 930944005548 motif I; other site 930944005549 motif II; other site 930944005550 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 930944005551 asparagine synthetase B; Provisional; Region: asnB; PRK09431 930944005552 Glutamine amidotransferases class-II (GATase) asparagine synthase_B type. Asparagine synthetase B catalyses the ATP-dependent conversion of aspartate to asparagine. This enzyme is a homodimer, with each monomer composed of a glutaminase domain and a...; Region: AsnB; cd00712 930944005553 active site 930944005554 dimer interface [polypeptide binding]; other site 930944005555 The C-terminal domain of Asparagine Synthase B. This domain is always found associated n-terminal amidotransferase domain. Family members that contain this domain catalyse the conversion of aspartate to asparagine. Asparagine synthetase B catalyzes the...; Region: Asn_Synthase_B_C; cd01991 930944005556 Ligand Binding Site [chemical binding]; other site 930944005557 Molecular Tunnel; other site 930944005558 2-octaprenyl-3-methyl-6-methoxy-1,4-benzoquinol hydroxylase; Reviewed; Region: ubiF; PRK08020 930944005559 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 930944005560 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional; Region: PRK14325 930944005561 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 930944005562 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 930944005563 FeS/SAM binding site; other site 930944005564 TRAM domain; Region: TRAM; pfam01938 930944005565 Phosphate starvation-inducible protein PhoH, predicted ATPase [Signal transduction mechanisms]; Region: PhoH; COG1702 930944005566 PhoH-like protein; Region: PhoH; pfam02562 930944005567 metal-binding heat shock protein; Provisional; Region: PRK00016 930944005568 magnesium/cobalt efflux protein CorC; Provisional; Region: PRK15094 930944005569 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 930944005570 Transporter associated domain; Region: CorC_HlyC; smart01091 930944005571 apolipoprotein N-acyltransferase; Reviewed; Region: lnt; PRK00302 930944005572 Apolipoprotein N-acyl transferase (class 9 nitrilases); Region: ALP_N-acyl_transferase; cd07571 930944005573 putative active site [active] 930944005574 catalytic triad [active] 930944005575 putative dimer interface [polypeptide binding]; other site 930944005576 PPOX class probable FMN-dependent enzyme, DR_2398 family; Region: PPOX_FMN_DR2398; TIGR04025 930944005577 glutamate and aspartate transporter subunit; Provisional; Region: PRK10797 930944005578 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 930944005579 substrate binding pocket [chemical binding]; other site 930944005580 membrane-bound complex binding site; other site 930944005581 hinge residues; other site 930944005582 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 930944005583 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 930944005584 dimer interface [polypeptide binding]; other site 930944005585 conserved gate region; other site 930944005586 putative PBP binding loops; other site 930944005587 ABC-ATPase subunit interface; other site 930944005588 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 930944005589 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 930944005590 dimer interface [polypeptide binding]; other site 930944005591 conserved gate region; other site 930944005592 putative PBP binding loops; other site 930944005593 ABC-ATPase subunit interface; other site 930944005594 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 930944005595 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 930944005596 Walker A/P-loop; other site 930944005597 ATP binding site [chemical binding]; other site 930944005598 Q-loop/lid; other site 930944005599 ABC transporter signature motif; other site 930944005600 Walker B; other site 930944005601 D-loop; other site 930944005602 H-loop/switch region; other site 930944005603 hypothetical protein; Provisional; Region: PRK11032 930944005604 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; cl14057 930944005605 leucyl-tRNA synthetase; Validated; Region: leuS; PRK00390 930944005606 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 930944005607 HIGH motif; other site 930944005608 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 930944005609 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 930944005610 active site 930944005611 KMSKS motif; other site 930944005612 Anticodon-binding domain of bacterial and eukaryotic mitochondrial leucyl tRNA synthetases; Region: Anticodon_Ia_Leu_BEm; cd07958 930944005613 tRNA binding surface [nucleotide binding]; other site 930944005614 LPS-assembly lipoprotein RlpB; Provisional; Region: PRK10796 930944005615 DNA polymerase III subunit delta; Reviewed; Region: holA; PRK05574 930944005616 DNA polymerase III, delta subunit; Region: DNA_pol3_delta; pfam06144 930944005617 nicotinic acid mononucleotide adenylyltransferase; Provisional; Region: nadD; PRK00071 930944005618 Nicotinamide/nicotinate mononucleotide adenylyltransferase; Region: NMNAT; cd02165 930944005619 active site 930944005620 (T/H)XGH motif; other site 930944005621 ribosome-associated protein; Provisional; Region: PRK11538 930944005622 rRNA large subunit methyltransferase; Provisional; Region: PRK00103 930944005623 penicillin-binding protein 2; Provisional; Region: PRK10795 930944005624 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 930944005625 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 930944005626 cell wall shape-determining protein; Provisional; Region: PRK10794 930944005627 rare lipoprotein A; Provisional; Region: PRK10672 930944005628 Rare lipoprotein A (RlpA)-like double-psi beta-barrel; Region: DPBB_1; pfam03330 930944005629 Sporulation related domain; Region: SPOR; pfam05036 930944005630 D-alanyl-D-alanine carboxypeptidase fraction A; Provisional; Region: PRK10793 930944005631 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 930944005632 Penicillin-binding protein 5, C-terminal domain; Region: PBP5_C; smart00936 930944005633 hypothetical protein; Provisional; Region: PRK04998 930944005634 lipoate-protein ligase B; Provisional; Region: PRK14342 930944005635 lipoyl synthase; Provisional; Region: PRK05481 930944005636 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 930944005637 FeS/SAM binding site; other site 930944005638 twin arginine translocase protein A; Validated; Region: tatE; PRK01614 930944005639 MASE2 domain; Region: MASE2; pfam05230 930944005640 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 930944005641 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 930944005642 metal binding site [ion binding]; metal-binding site 930944005643 active site 930944005644 I-site; other site 930944005645 chromosome condensation membrane protein; Provisional; Region: PRK14196 930944005646 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 930944005647 DNA-binding site [nucleotide binding]; DNA binding site 930944005648 RNA-binding motif; other site 930944005649 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 930944005650 DNA-binding site [nucleotide binding]; DNA binding site 930944005651 RNA-binding motif; other site 930944005652 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 930944005653 DNA binding residues [nucleotide binding] 930944005654 dimerization interface [polypeptide binding]; other site 930944005655 Predicted O-acyltransferase [General function prediction only]; Region: COG3274 930944005656 PrpA and PrpB, metallophosphatase domain; Region: MPP_PrpA_PrpB; cd07424 930944005657 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 930944005658 active site 930944005659 metal binding site [ion binding]; metal-binding site 930944005660 Glycogen synthesis protein; Region: GlgS; cl11663 930944005661 Uncharacterized conserved protein [Function unknown]; Region: COG1359 930944005662 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 930944005663 ABC-type transport system involved in Fe-S cluster assembly, permease and ATPase components [Posttranslational modification, protein turnover, chaperones]; Region: ATM1; COG5265 930944005664 ATP-binding cassette domain of iron-sulfur clusters transporter, subfamily C; Region: ABCC_ATM1_transporter; cd03253 930944005665 Walker A/P-loop; other site 930944005666 ATP binding site [chemical binding]; other site 930944005667 Q-loop/lid; other site 930944005668 ABC transporter signature motif; other site 930944005669 Walker B; other site 930944005670 D-loop; other site 930944005671 H-loop/switch region; other site 930944005672 3-octaprenyl-4-hydroxybenzoate carboxy-lyase; Region: UbiD; pfam01977 930944005673 Phenylalanine ammonia-lyase (PAL) and histidine ammonia-lyase (HAL); Region: PAL-HAL; cd00332 930944005674 active sites [active] 930944005675 tetramer interface [polypeptide binding]; other site 930944005676 Uncharacterized conserved protein [Function unknown]; Region: COG2850 930944005677 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 930944005678 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 930944005679 Predicted transcriptional regulator [Transcription]; Region: AlpA; COG3311 930944005680 Phage derived protein Gp49-like (DUF891); Region: Gp49; cl01470 930944005681 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4643 930944005682 Zinc-binding domain of primase-helicase; Region: Prim_Zn_Ribbon; smart00778 930944005683 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 930944005684 D5 N terminal like; Region: D5_N; smart00885 930944005685 phage/plasmid primase, P4 family, C-terminal domain; Region: primase_Cterm; TIGR01613 930944005686 Poxvirus D5 protein-like; Region: Pox_D5; pfam03288 930944005687 Nucleotidyl transferase of unknown function (DUF1814); Region: DUF1814; pfam08843 930944005688 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 930944005689 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional; Region: PRK10792 930944005690 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 930944005691 NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080 930944005692 homodimer interface [polypeptide binding]; other site 930944005693 NADP binding site [chemical binding]; other site 930944005694 substrate binding site [chemical binding]; other site 930944005695 ribosome-associated protein; Provisional; Region: PRK11507 930944005696 cysteinyl-tRNA synthetase; Validated; Region: cysS; PRK00260 930944005697 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 930944005698 active site 930944005699 HIGH motif; other site 930944005700 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 930944005701 KMSKS motif; other site 930944005702 Anticodon-binding domain of cysteinyl tRNA synthetases; Region: Anticodon_Ia_Cys; cd07963 930944005703 tRNA binding surface [nucleotide binding]; other site 930944005704 anticodon binding site; other site 930944005705 cyclophilin_EcCYP_like: cyclophilin-type A-like peptidylprolyl cis- trans isomerase (PPIase) domain similar to the cytosolic E. coli cyclophilin A and Streptomyces antibioticus SanCyp18. Compared to the archetypal cyclophilin Human cyclophilin A, these...; Region: cyclophilin_EcCYP_like; cd01920 930944005706 substrate binding site [chemical binding]; other site 930944005707 Escherichia coli YbbF/LpxH and related proteins, metallophosphatase domain; Region: MPP_YbbF-LpxH; cd07398 930944005708 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 930944005709 putative active site [active] 930944005710 putative metal binding site [ion binding]; other site 930944005711 Phosphoribosylcarboxyaminoimidazole (NCAIR) mutase [Nucleotide transport and metabolism]; Region: PurE; COG0041 930944005712 phosphoribosylaminoimidazole carboxylase ATPase subunit; Reviewed; Region: PRK06019 930944005713 ATP-grasp domain; Region: ATP-grasp; pfam02222 930944005714 potential frameshift: common BLAST hit: gi|332160820|ref|YP_004297397.1| putative permease 930944005715 FtsX-like permease family; Region: FtsX; pfam02687 930944005716 Predicted ABC-type transport system involved in lysophospholipase L1 biosynthesis, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3127 930944005717 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 930944005718 FtsX-like permease family; Region: FtsX; pfam02687 930944005719 putative ABC transporter ATP-binding protein YbbA; Provisional; Region: PRK10584 930944005720 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 930944005721 Walker A/P-loop; other site 930944005722 ATP binding site [chemical binding]; other site 930944005723 Q-loop/lid; other site 930944005724 ABC transporter signature motif; other site 930944005725 Walker B; other site 930944005726 D-loop; other site 930944005727 H-loop/switch region; other site 930944005728 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 930944005729 active site 930944005730 catalytic triad [active] 930944005731 oxyanion hole [active] 930944005732 switch loop; other site 930944005733 oxidoreductase; Provisional; Region: PRK08017 930944005734 17beta hydroxysteroid dehydrogenase-like, classical (c) SDRs; Region: 17beta-HSD-like_SDR_c; cd05374 930944005735 NADP binding site [chemical binding]; other site 930944005736 active site 930944005737 steroid binding site; other site 930944005738 Thioredoxin domain-containing protein [Posttranslational modification, protein turnover, chaperones]; Region: COG3118 930944005739 ybbN protein family; ybbN is a hypothetical protein containing a redox-inactive TRX-like domain. Its gene has been sequenced from several gammaproteobacteria and actinobacteria; Region: ybbN; cd02956 930944005740 CRISPR/Cas system-associated protein Cas1; Region: Cas1_I-II-III; cl00656 930944005741 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 930944005742 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 930944005743 Membrane protein implicated in regulation of membrane protease activity [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: COG1585 930944005744 DNA-binding transcriptional regulator CueR; Provisional; Region: PRK10227 930944005745 Helix-Turn-Helix DNA binding domain of CueR-like transcription regulators; Region: HTH_CueR; cd01108 930944005746 DNA binding residues [nucleotide binding] 930944005747 dimer interface [polypeptide binding]; other site 930944005748 copper binding site [ion binding]; other site 930944005749 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 930944005750 metal-binding site [ion binding] 930944005751 copper exporting ATPase; Provisional; Region: copA; PRK10671 930944005752 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 930944005753 metal-binding site [ion binding] 930944005754 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 930944005755 metal-binding site [ion binding] 930944005756 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 930944005757 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 930944005758 motif II; other site 930944005759 TraB family; Region: TraB; cl12050 930944005760 This CD includes cysteinyl-tRNA(Pro) deacylases from Haemophilus influenzae and Escherichia coli and other related bacterial proteins. These trans-acting, single-domain proteins are homologs of ProX and also the cis-acting prolyl-tRNA synthetase (ProRS)...; Region: YbaK_deacylase; cd00002 930944005761 putative deacylase active site [active] 930944005762 bifunctional UDP-sugar hydrolase/5'-nucleotidase periplasmic precursor; Reviewed; Region: ushA; PRK09558 930944005763 Escherichia coli UshA and related proteins, N-terminal metallophosphatase domain; Region: MPP_UshA_N; cd07405 930944005764 active site 930944005765 metal binding site [ion binding]; metal-binding site 930944005766 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 930944005767 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 930944005768 Major Facilitator Superfamily; Region: MFS_1; pfam07690 930944005769 putative substrate translocation pore; other site 930944005770 putative cation:proton antiport protein; Provisional; Region: PRK10669 930944005771 Kef-type K+ transport system, predicted NAD-binding component [Inorganic ion transport and metabolism]; Region: RosB; COG4651 930944005772 TrkA-N domain; Region: TrkA_N; pfam02254 930944005773 inosine/guanosine kinase; Provisional; Region: PRK15074 930944005774 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 930944005775 substrate binding site [chemical binding]; other site 930944005776 ATP binding site [chemical binding]; other site 930944005777 UDP-glucose 4-epimerase; Region: PLN02240 930944005778 UDP-glucose 4 epimerase, subgroup 1, extended (e) SDRs; Region: UDP_G4E_1_SDR_e; cd05247 930944005779 NAD binding site [chemical binding]; other site 930944005780 homodimer interface [polypeptide binding]; other site 930944005781 active site 930944005782 substrate binding site [chemical binding]; other site 930944005783 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 930944005784 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 930944005785 UDP-Glcnac (UDP-linked N-acetylglucosamine) inverting 4,6-dehydratase, extended (e) SDRs; Region: UDP_invert_4-6DH_SDR_e; cd05237 930944005786 Polysaccharide biosynthesis protein; Region: Polysacc_synt_2; pfam02719 930944005787 NAD(P) binding site [chemical binding]; other site 930944005788 homodimer interface [polypeptide binding]; other site 930944005789 substrate binding site [chemical binding]; other site 930944005790 active site 930944005791 UDP-N-acetylmuramyl pentapeptide phosphotransferase/UDP-N- acetylglucosamine-1-phosphate transferase [Cell envelope biogenesis, outer membrane]; Region: Rfe; COG0472 930944005792 The members of this subfamily catalyze the formation of a phosphodiester bond between a membrane-associated undecaprenyl-phosphate (Und-P) molecule and N-acetylhexosamine 1-phosphate, which is usually donated by a soluble UDP-N-acetylhexosamine precursor; Region: GT_WbpL_WbcO_like; cd06854 930944005793 Mg++ binding site [ion binding]; other site 930944005794 putative catalytic motif [active] 930944005795 putative substrate binding site [chemical binding]; other site 930944005796 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 930944005797 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 930944005798 This family is most closely related to the GT1 family of glycosyltransferases. AmSD in Erwinia amylovora has been shown to be involved in the biosynthesis of amylovoran, the acidic exopolysaccharide acting as a virulence factor. This enzyme may be...; Region: GT1_amsD_like; cd03820 930944005799 putative ADP-binding pocket [chemical binding]; other site 930944005800 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 930944005801 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 930944005802 active site 930944005803 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 930944005804 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 930944005805 active site 930944005806 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 930944005807 Wzx, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_Wzx_like; cd13128 930944005808 ferrochelatase; Reviewed; Region: hemH; PRK00035 930944005809 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 930944005810 C-terminal domain interface [polypeptide binding]; other site 930944005811 active site 930944005812 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 930944005813 active site 930944005814 N-terminal domain interface [polypeptide binding]; other site 930944005815 adenylate kinase; Reviewed; Region: adk; PRK00279 930944005816 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 930944005817 AMP-binding site [chemical binding]; other site 930944005818 ATP-AMP (Ap5A)-binding site [chemical binding]; other site 930944005819 heat shock protein 90; Provisional; Region: PRK05218 930944005820 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 930944005821 ATP binding site [chemical binding]; other site 930944005822 Mg2+ binding site [ion binding]; other site 930944005823 G-X-G motif; other site 930944005824 Recombinational DNA repair protein (RecF pathway) [DNA replication, recombination, and repair]; Region: RecR; COG0353 930944005825 RecR protein; Region: RecR; pfam02132 930944005826 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 930944005827 putative active site [active] 930944005828 putative metal-binding site [ion binding]; other site 930944005829 tetramer interface [polypeptide binding]; other site 930944005830 hypothetical protein; Validated; Region: PRK00153 930944005831 DNA polymerase III subunits gamma and tau; Validated; Region: PRK07994 930944005832 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 930944005833 Walker A motif; other site 930944005834 ATP binding site [chemical binding]; other site 930944005835 Walker B motif; other site 930944005836 arginine finger; other site 930944005837 DNA polymerase III subunits gamma and tau domain III; Region: DNA_pol3_gamma3; pfam12169 930944005838 DNA polymerase III subunits tau domain IV DnaB-binding; Region: DNA_pol3_tau_4; pfam12168 930944005839 DNA polymerase III tau subunit V interacting with alpha; Region: DNA_pol3_tau_5; pfam12170 930944005840 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 930944005841 active site 930944005842 Primosomal replication protein priB and priC; Region: priB_priC; pfam07445 930944005843 hypothetical protein; Provisional; Region: PRK11038 930944005844 hypothetical protein; Provisional; Region: PRK11281 930944005845 Mechanosensitive ion channel inner membrane domain 1; Region: MscS_TM; pfam12794 930944005846 Mechanosensitive ion channel; Region: MS_channel; pfam00924 930944005847 Uncharacterized conserved protein involved in intracellular sulfur reduction [Inorganic ion transport and metabolism]; Region: DsrE; COG1553 930944005848 DNA-binding transcriptional repressor AcrR; Provisional; Region: PRK10668 930944005849 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 930944005850 MAATS-type transcriptional repressor, C-terminal region; Region: TetR_C_2; pfam08361 930944005851 multidrug efflux system transporter AcrA; Provisional; Region: PRK15030 930944005852 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 930944005853 HlyD family secretion protein; Region: HlyD_3; pfam13437 930944005854 multidrug efflux system protein AcrB; Provisional; Region: PRK15127 930944005855 Protein export membrane protein; Region: SecD_SecF; cl14618 930944005856 potential frameshift: common BLAST hit: gi|332161948|ref|YP_004298525.1| transposase for IS1668 930944005857 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 930944005858 potential frameshift: common BLAST hit: gi|332161948|ref|YP_004298525.1| transposase for IS1668 930944005859 Transposase domain (DUF772); Region: DUF772; pfam05598 930944005860 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme yhfX; Region: PLPDE_III_yhfX_like; cd06811 930944005861 dimer interface [polypeptide binding]; other site 930944005862 Predicted amino acid racemase [Amino acid transport and metabolism]; Region: COG3457 930944005863 active site 930944005864 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 930944005865 substrate binding site [chemical binding]; other site 930944005866 catalytic residue [active] 930944005867 putative mutase; Provisional; Region: PRK12383 930944005868 Phosphopentomutase [Carbohydrate transport and metabolism]; Region: DeoB; cl17415 930944005869 Protein of unknown function DUF2620; Region: DUF2620; pfam10941 930944005870 Protein of unknown function; Region: YhfT; pfam10797 930944005871 50S ribosomal protein L31 type B; Reviewed; Region: rpmE2; PRK01678 930944005872 50S ribosomal protein L36; Validated; Region: rpmJ; PRK00831 930944005873 Metal binding protein PsaA. These proteins have been shown to function as initial receptors in ABC transport of Mn2+ and as surface adhesins in some eubacterial species. They belong to the TroA superfamily of periplasmic metal binding proteins that...; Region: PsaA; cd01137 930944005874 Periplasmic solute binding protein family; Region: SBP_bac_9; pfam01297 930944005875 metal binding site [ion binding]; metal-binding site 930944005876 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 930944005877 ABC-type Mn2+/Zn2+ transport systems, permease components [Inorganic ion transport and metabolism]; Region: ZnuB; COG1108 930944005878 dimer interface [polypeptide binding]; other site 930944005879 putative PBP binding regions; other site 930944005880 ABC-ATPase subunit interface; other site 930944005881 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 930944005882 ATP-binding cassette domain of the metal-type transporters; Region: ABC_Metallic_Cations; cd03235 930944005883 Hha toxicity attenuator; Provisional; Region: PRK10667 930944005884 gene expression modulator; Provisional; Region: PRK10945 930944005885 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 930944005886 Methylated DNA-protein cysteine methyltransferase [DNA replication, recombination, and repair]; Region: Ada; COG0350 930944005887 DNA binding site [nucleotide binding] 930944005888 active site 930944005889 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3126 930944005890 acyl-CoA thioesterase II; Provisional; Region: PRK10526 930944005891 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 930944005892 active site 930944005893 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 930944005894 catalytic triad [active] 930944005895 dimer interface [polypeptide binding]; other site 930944005896 ammonium transporter; Provisional; Region: PRK10666 930944005897 nitrogen regulatory protein P-II 2; Provisional; Region: PRK10665 930944005898 Nitrogen regulatory protein P-II; Region: P-II; smart00938 930944005899 putative multidrug transporter membrane\ATP-binding components; Provisional; Region: PRK10790 930944005900 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 930944005901 ATP-binding cassette domain of glucan transporter and related proteins, subfamily C; Region: ABCC_Glucan_exporter_like; cd03254 930944005902 Walker A/P-loop; other site 930944005903 ATP binding site [chemical binding]; other site 930944005904 Q-loop/lid; other site 930944005905 ABC transporter signature motif; other site 930944005906 Walker B; other site 930944005907 D-loop; other site 930944005908 H-loop/switch region; other site 930944005909 putative multidrug transporter membrane\ATP-binding components; Provisional; Region: PRK10789 930944005910 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 930944005911 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 930944005912 Walker A/P-loop; other site 930944005913 ATP binding site [chemical binding]; other site 930944005914 Q-loop/lid; other site 930944005915 ABC transporter signature motif; other site 930944005916 Walker B; other site 930944005917 D-loop; other site 930944005918 H-loop/switch region; other site 930944005919 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 930944005920 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 930944005921 putative DNA binding site [nucleotide binding]; other site 930944005922 putative Zn2+ binding site [ion binding]; other site 930944005923 AsnC family; Region: AsnC_trans_reg; pfam01037 930944005924 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 930944005925 Tryptophan synthase beta superfamily (fold type II); this family of pyridoxal phosphate (PLP)-dependent enzymes catalyzes beta-replacement and beta-elimination reactions. This CD corresponds to aminocyclopropane-1-carboxylate deaminase (ACCD), tryptophan...; Region: Trp-synth-beta_II; cl00342 930944005926 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 930944005927 catalytic residue [active] 930944005928 thiamin pyrimidine pyrophosphate hydrolase; Provisional; Region: PRK15126 930944005929 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 930944005930 active site 930944005931 motif I; other site 930944005932 motif II; other site 930944005933 ABC-type uncharacterized transport system, periplasmic component [General function prediction only]; Region: COG4533 930944005934 Sugar transport-related sRNA regulator N-term; Region: SgrR_N; pfam12793 930944005935 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 930944005936 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 930944005937 Ligand Binding Site [chemical binding]; other site 930944005938 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 930944005939 active site 930944005940 Helix-hairpin-helix motif; Region: HHH_3; pfam12836 930944005941 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cl14786 930944005942 periplasmic folding chaperone; Provisional; Region: PRK10788 930944005943 SurA N-terminal domain; Region: SurA_N_3; cl07813 930944005944 PPIC-type PPIASE domain; Region: Rotamase_2; pfam13145 930944005945 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 930944005946 IHF dimer interface [polypeptide binding]; other site 930944005947 IHF - DNA interface [nucleotide binding]; other site 930944005948 DNA-binding ATP-dependent protease La; Provisional; Region: PRK10787 930944005949 Found in ATP-dependent protease La (LON); Region: LON; smart00464 930944005950 Found in ATP-dependent protease La (LON); Region: LON; smart00464 930944005951 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 930944005952 Walker A motif; other site 930944005953 ATP binding site [chemical binding]; other site 930944005954 Walker B motif; other site 930944005955 arginine finger; other site 930944005956 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 930944005957 ATP-dependent protease ATP-binding subunit ClpX; Provisional; Region: clpX; PRK05342 930944005958 ClpX C4-type zinc finger; Region: zf-C4_ClpX; pfam06689 930944005959 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 930944005960 Walker A motif; other site 930944005961 ATP binding site [chemical binding]; other site 930944005962 Walker B motif; other site 930944005963 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 930944005964 Protease subunit of ATP-dependent Clp proteases [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: ClpP; COG0740 930944005965 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 930944005966 oligomer interface [polypeptide binding]; other site 930944005967 active site residues [active] 930944005968 trigger factor; Provisional; Region: tig; PRK01490 930944005969 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 930944005970 Bacterial trigger factor protein (TF) C-terminus; Region: Trigger_C; pfam05698 930944005971 transcriptional regulator BolA; Provisional; Region: PRK11628 930944005972 hypothetical protein; Provisional; Region: PRK11627 930944005973 Prokaryotic membrane lipoprotein lipid attachment site; Region: LPAM_1; pfam08139 930944005974 Uncharacterized lipoprotein; Region: Lipoprotein_16; pfam03923 930944005975 muropeptide transporter; Reviewed; Region: ampG; PRK11902 930944005976 Acetyl-coenzyme A transporter 1; Region: Acatn; pfam13000 930944005977 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 930944005978 putative substrate translocation pore; other site 930944005979 hypothetical protein; Provisional; Region: PRK11528 930944005980 cytochrome o ubiquinol oxidase subunit II; Provisional; Region: PRK10525 930944005981 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; pfam00116 930944005982 COX Aromatic Rich Motif; Region: COX_ARM; pfam06481 930944005983 Heme/copper-type cytochrome/quinol oxidases, subunit 1 [Energy production and conversion]; Region: CyoB; COG0843 930944005984 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 930944005985 D-pathway; other site 930944005986 Putative ubiquinol binding site [chemical binding]; other site 930944005987 Low-spin heme (heme b) binding site [chemical binding]; other site 930944005988 Putative water exit pathway; other site 930944005989 Binuclear center (heme o3/CuB) [ion binding]; other site 930944005990 K-pathway; other site 930944005991 Putative proton exit pathway; other site 930944005992 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 930944005993 Subunit I/III interface [polypeptide binding]; other site 930944005994 Subunit III/IV interface [polypeptide binding]; other site 930944005995 cytochrome o ubiquinol oxidase subunit IV; Provisional; Region: PRK10582 930944005996 protoheme IX farnesyltransferase; Provisional; Region: PRK13362 930944005997 UbiA prenyltransferase family; Region: UbiA; pfam01040 930944005998 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 930944005999 Major Facilitator Superfamily; Region: MFS_1; pfam07690 930944006000 putative substrate translocation pore; other site 930944006001 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1666 930944006002 Proteins similar to Escherichia coli YajQ; Region: YajQ_like; cd11740 930944006003 2-dehydropantoate 2-reductase; Reviewed; Region: PRK06522 930944006004 Ketopantoate reductase PanE/ApbA; Region: ApbA; pfam02558 930944006005 Ketopantoate reductase PanE/ApbA C terminal; Region: ApbA_C; pfam08546 930944006006 oxidative-stress-resistance chaperone; Provisional; Region: PRK11574 930944006007 Type 1 glutamine amidotransferase (GATase1)-like domain found in Human DJ-1; Region: GATase1_DJ-1; cd03135 930944006008 conserved cys residue [active] 930944006009 tRNA s(4)U8 sulfurtransferase; Provisional; Region: PRK01269 930944006010 THUMP domain of thiamine biosynthesis protein ThiI; Region: THUMP_ThiI; cd11716 930944006011 ThiI is required for thiazole synthesis in the thiamine biosynthesis pathway. It belongs to the Adenosine Nucleotide Hydrolysis suoerfamily and predicted to bind to Adenosine nucleotide; Region: ThiI; cd01712 930944006012 Ligand Binding Site [chemical binding]; other site 930944006013 Rhodanese Homology Domain (RHOD); an alpha beta fold domain found duplicated in the rhodanese protein. The cysteine containing enzymatically active version of the domain is also found in the Cdc25 class of protein phosphatases and a variety of proteins...; Region: RHOD; cd00158 930944006014 active site residue [active] 930944006015 exodeoxyribonuclease VII small subunit; Provisional; Region: PRK00977 930944006016 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 930944006017 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 930944006018 substrate binding pocket [chemical binding]; other site 930944006019 chain length determination region; other site 930944006020 substrate-Mg2+ binding site; other site 930944006021 catalytic residues [active] 930944006022 aspartate-rich region 1; other site 930944006023 active site lid residues [active] 930944006024 aspartate-rich region 2; other site 930944006025 1-deoxy-D-xylulose-5-phosphate synthase; Provisional; Region: PRK05444 930944006026 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 930944006027 TPP-binding site; other site 930944006028 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 930944006029 PYR/PP interface [polypeptide binding]; other site 930944006030 dimer interface [polypeptide binding]; other site 930944006031 TPP binding site [chemical binding]; other site 930944006032 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 930944006033 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 930944006034 Transposase; Region: DEDD_Tnp_IS110; pfam01548 930944006035 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 930944006036 Phosphatidylglycerophosphatase A; a bacterial membrane-associated enzyme involved in lipid metabolism; Region: PgpA; cd06971 930944006037 tetramer interfaces [polypeptide binding]; other site 930944006038 binuclear metal-binding site [ion binding]; other site 930944006039 thiamine monophosphate kinase; Provisional; Region: PRK05731 930944006040 ThiL (Thiamine-monophosphate kinase) plays a dual role in de novo biosynthesis and in salvage of exogenous thiamine. Thiamine salvage occurs in two steps, with thiamine kinase catalyzing the formation of thiamine phosphate, and ThiL catalyzing the...; Region: ThiL; cd02194 930944006041 dimerization interface [polypeptide binding]; other site 930944006042 ATP binding site [chemical binding]; other site 930944006043 Transcription termination factor NusB (N protein-Utilization Substance B). NusB plays a key role in the regulation of ribosomal RNA biosynthesis in eubacteria by modulating the efficiency of transcriptional antitermination. NusB along with other Nus...; Region: Terminator_NusB; cd00619 930944006044 putative RNA binding site [nucleotide binding]; other site 930944006045 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 930944006046 homopentamer interface [polypeptide binding]; other site 930944006047 active site 930944006048 bifunctional diaminohydroxyphosphoribosylaminopyrimidine deaminase/5-amino-6-(5-phosphoribosylamino)uracil reductase; Provisional; Region: ribD; PRK10786 930944006049 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 930944006050 catalytic motif [active] 930944006051 Zn binding site [ion binding]; other site 930944006052 riboflavin-specific deaminase C-terminal domain; Region: ribD_Cterm; TIGR00227 930944006053 transcriptional regulator NrdR; Validated; Region: nrdR; PRK00464 930944006054 ATP cone domain; Region: ATP-cone; pfam03477 930944006055 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 930944006056 Transposase; Region: DEDD_Tnp_IS110; pfam01548 930944006057 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 930944006058 preprotein translocase subunit SecF; Reviewed; Region: secF; PRK13022 930944006059 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 930944006060 Protein export membrane protein; Region: SecD_SecF; pfam02355 930944006061 preprotein translocase subunit SecD; Reviewed; Region: secD; PRK05812 930944006062 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 930944006063 protein-export membrane protein, SecD/SecF family; Region: 2A0604s01; TIGR00916 930944006064 preprotein translocase subunit YajC; Validated; Region: yajC; PRK05585 930944006065 queuine tRNA-ribosyltransferase; Provisional; Region: tgt; PRK00112 930944006066 Queuine/archaeosine tRNA-ribosyltransferase [Translation, ribosomal structure and biogenesis]; Region: Tgt; COG0343 930944006067 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 930944006068 Transposase; Region: DEDD_Tnp_IS110; pfam01548 930944006069 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 930944006070 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 930944006071 methyl indole-3-acetate methyltransferase; Region: PLN02211; cl17657 930944006072 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 930944006073 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Provisional; Region: queA; PRK00147 930944006074 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Region: queA; TIGR00113 930944006075 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3124 930944006076 peroxidase; Provisional; Region: PRK15000 930944006077 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 930944006078 dimer interface [polypeptide binding]; other site 930944006079 decamer (pentamer of dimers) interface [polypeptide binding]; other site 930944006080 catalytic triad [active] 930944006081 peroxidatic and resolving cysteines [active] 930944006082 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; COG0405 930944006083 Gamma-glutamyltranspeptidase; Region: G_glu_transpept; pfam01019 930944006084 short chain dehydrogenase; Provisional; Region: PRK08219 930944006085 carbonyl reductase sniffer-like, classical (c) SDRs; Region: carb_red_sniffer_like_SDR_c; cd05325 930944006086 NADP binding site [chemical binding]; other site 930944006087 homodimer interface [polypeptide binding]; other site 930944006088 active site 930944006089 maltodextrin glucosidase; Provisional; Region: PRK10785 930944006090 N-terminal Early set domain associated with the catalytic domain of cyclomaltodextrinase and pullulan-degrading enzymes; Region: E_set_CDase_PDE_N; cd02857 930944006091 homodimer interface [polypeptide binding]; other site 930944006092 Alpha amylase catalytic domain found in cyclomaltodextrinases and related proteins; Region: AmyAc_CMD; cd11338 930944006093 active site 930944006094 homodimer interface [polypeptide binding]; other site 930944006095 catalytic site [active] 930944006096 putative proline-specific permease; Provisional; Region: proY; PRK10580 930944006097 Spore germination protein; Region: Spore_permease; cl17796 930944006098 Branched-chain amino acid transport protein; Region: Branch_AA_trans; cl00547 930944006099 PBP superfamily domain; Region: PBP_like_2; cl17296 930944006100 phosphate regulon sensor protein; Provisional; Region: phoR; PRK11006 930944006101 Domain of unknown function (DUF3329); Region: DUF3329; pfam11808 930944006102 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 930944006103 putative active site [active] 930944006104 heme pocket [chemical binding]; other site 930944006105 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 930944006106 dimer interface [polypeptide binding]; other site 930944006107 phosphorylation site [posttranslational modification] 930944006108 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 930944006109 ATP binding site [chemical binding]; other site 930944006110 Mg2+ binding site [ion binding]; other site 930944006111 G-X-G motif; other site 930944006112 transcriptional regulator PhoB; Provisional; Region: PRK10161 930944006113 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 930944006114 active site 930944006115 phosphorylation site [posttranslational modification] 930944006116 intermolecular recognition site; other site 930944006117 dimerization interface [polypeptide binding]; other site 930944006118 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 930944006119 DNA binding site [nucleotide binding] 930944006120 exonuclease subunit SbcD; Provisional; Region: PRK10966 930944006121 Mre11 nuclease, N-terminal metallophosphatase domain; Region: MPP_Mre11_N; cd00840 930944006122 active site 930944006123 metal binding site [ion binding]; metal-binding site 930944006124 DNA binding site [nucleotide binding] 930944006125 Type 5 capsule protein repressor C-terminal domain; Region: SbcD_C; pfam12320 930944006126 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 930944006127 AAA domain; Region: AAA_23; pfam13476 930944006128 Walker A/P-loop; other site 930944006129 ATP binding site [chemical binding]; other site 930944006130 Q-loop/lid; other site 930944006131 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 930944006132 ABC transporter signature motif; other site 930944006133 Walker B; other site 930944006134 D-loop; other site 930944006135 H-loop/switch region; other site 930944006136 fructokinase; Reviewed; Region: PRK09557 930944006137 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 930944006138 nucleotide binding site [chemical binding]; other site 930944006139 recombination associated protein; Reviewed; Region: rdgC; PRK00321 930944006140 hypothetical protein; Provisional; Region: PRK10579 930944006141 Shikimate kinase [Amino acid transport and metabolism]; Region: AroK; COG0703 930944006142 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 930944006143 ADP binding site [chemical binding]; other site 930944006144 magnesium binding site [ion binding]; other site 930944006145 putative shikimate binding site; other site 930944006146 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 930944006147 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 930944006148 N-terminal plug; other site 930944006149 ligand-binding site [chemical binding]; other site 930944006150 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 930944006151 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 930944006152 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl17173 930944006153 Protein of unknown function (DUF1471); Region: DUF1471; pfam07338 930944006154 Methyltransferase domain; Region: Methyltransf_31; pfam13847 930944006155 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 930944006156 S-adenosylmethionine binding site [chemical binding]; other site 930944006157 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 930944006158 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 930944006159 Coenzyme A binding pocket [chemical binding]; other site 930944006160 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 930944006161 Putative glucoamylase; Region: Glycoamylase; pfam10091 930944006162 Second GH94N domain of cyclic beta 1-2 glucan synthetase and similar domains; Region: GH94N_ChvB_NdvB_2_like; cd11753 930944006163 Cellobiose phosphorylase [Carbohydrate transport and metabolism]; Region: COG3459 930944006164 First GH94N domain of cyclic beta 1-2 glucan synthetase and similar domains; Region: GH94N_ChvB_NdvB_1_like; cd11756 930944006165 Flagellar regulator YcgR; Region: YcgR; pfam07317 930944006166 c-di-GMP-binding protein [Signal transduction mechanisms]; Region: COG5581 930944006167 PilZ domain; Region: PilZ; pfam07238 930944006168 Alpha-galactosidases/6-phospho-beta-glucosidases, family 4 of glycosyl hydrolases [Carbohydrate transport and metabolism]; Region: CelF; COG1486 930944006169 Glycoside Hydrolases Family 4; GlvA- and pagL-like glycosidases; Region: GH4_GlvA_pagL_like; cd05298 930944006170 NAD binding site [chemical binding]; other site 930944006171 sugar binding site [chemical binding]; other site 930944006172 divalent metal binding site [ion binding]; other site 930944006173 putative tetramer (dimer of dimers) interface [polypeptide binding]; other site 930944006174 dimer interface [polypeptide binding]; other site 930944006175 PTS system, alpha-glucoside-specific IIBC component; Region: PTS-IIBC-alpha; TIGR02005 930944006176 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 930944006177 PTS_IIB, PTS system, glucose/sucrose specific IIB subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIB_glc; cd00212 930944006178 active site turn [active] 930944006179 phosphorylation site [posttranslational modification] 930944006180 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 930944006181 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 930944006182 DNA-binding site [nucleotide binding]; DNA binding site 930944006183 The UbiC transcription regulator-associated (UTRA) domain is a conserved ligand-binding domain; Region: UTRA; smart00866 930944006184 Gamma-glutamyl phosphate reductase (GPR), aldehyde dehydrogenase families 18 and 19; Region: ALDH_F18-19_ProA-GPR; cd07079 930944006185 gamma-glutamyl phosphate reductase; Region: proA; TIGR00407 930944006186 putative catalytic cysteine [active] 930944006187 gamma-glutamyl kinase; Provisional; Region: PRK05429 930944006188 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 930944006189 nucleotide binding site [chemical binding]; other site 930944006190 homotetrameric interface [polypeptide binding]; other site 930944006191 putative phosphate binding site [ion binding]; other site 930944006192 putative allosteric binding site; other site 930944006193 PUA domain; Region: PUA; pfam01472 930944006194 DNA-binding transcriptional regulator Crl; Provisional; Region: PRK10984 930944006195 fermentation/respiration switch protein; Reviewed; Region: frsA; PRK05077 930944006196 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 930944006197 active site 930944006198 Xaa-His dipeptidase; Region: aa-his-dipept; TIGR01893 930944006199 M20 Peptidase D has specificity for beta-alanyl-L-histidine dipeptide; Region: M20_pepD; cd03890 930944006200 metal binding site [ion binding]; metal-binding site 930944006201 dimer interface [polypeptide binding]; other site 930944006202 DNA Polymerase IV/Kappa; Region: PolY_Pol_IV_kappa; cd03586 930944006203 active site 930944006204 DNA polymerase IV; Validated; Region: PRK02406 930944006205 DNA binding site [nucleotide binding] 930944006206 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 930944006207 homotrimer interaction site [polypeptide binding]; other site 930944006208 putative active site [active] 930944006209 Threonine dehydratase [Amino acid transport and metabolism]; Region: IlvA; COG1171 930944006210 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 930944006211 tetramer interface [polypeptide binding]; other site 930944006212 pyridoxal 5'-phosphate binding site [chemical binding]; other site 930944006213 catalytic residue [active] 930944006214 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2964 930944006215 YheO-like PAS domain; Region: PAS_6; pfam08348 930944006216 Helix-turn-helix domain of Hin and related proteins, a family of DNA-binding domains unique to bacteria and represented by the Hin protein of Salmonella. The basic HTH domain is a simple fold comprised of three core helices that form a right-handed...; Region: HTH_Hin_like; cd00569 930944006217 DNA-binding interface [nucleotide binding]; DNA binding site 930944006218 D-alanyl-alanine synthetase A; Reviewed; Region: ddl; PRK01966 930944006219 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 930944006220 D-ala D-ala ligase C-terminus; Region: Dala_Dala_lig_C; pfam07478 930944006221 Glycerophosphoryl diester phosphodiesterase [Energy production and conversion]; Region: UgpQ; COG0584 930944006222 Glycerophosphodiester phosphodiesterase domain of uncharacterized bacterial protein Rv2277c and similar proteins; Region: GDPD_Rv2277c_like; cd08580 930944006223 putative active site [active] 930944006224 catalytic site [active] 930944006225 putative metal binding site [ion binding]; other site 930944006226 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2991 930944006227 Membrane-associated lipoprotein involved in thiamine biosynthesis [Coenzyme metabolism]; Region: ApbE; COG1477 930944006228 ApbE family; Region: ApbE; pfam02424 930944006229 Na(+)-translocating NADH-quinone reductase subunit F; Provisional; Region: PRK05464 930944006230 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 930944006231 catalytic loop [active] 930944006232 iron binding site [ion binding]; other site 930944006233 Na+-translocating NADH:quinone oxidoreductase (Na+-NQR) FAD/NADH binding domain. (Na+-NQR) provides a means of storing redox reaction energy via the transmembrane translocation of Na2+ ions. The C-terminal domain resembles ferredoxin:NADP+ oxidoreductase; Region: NADH_quinone_reductase; cd06188 930944006234 FAD binding pocket [chemical binding]; other site 930944006235 FAD binding motif [chemical binding]; other site 930944006236 phosphate binding motif [ion binding]; other site 930944006237 beta-alpha-beta structure motif; other site 930944006238 NAD binding pocket [chemical binding]; other site 930944006239 Na(+)-translocating NADH-quinone reductase subunit E; Provisional; Region: PRK02830 930944006240 Na(+)-translocating NADH-quinone reductase subunit D; Validated; Region: PRK09292 930944006241 Na(+)-translocating NADH-quinone reductase subunit C; Provisional; Region: PRK05346 930944006242 NADH:ubiquinone oxidoreductase, Na(+)-translocating, C subunit; Region: nqrC; TIGR01938 930944006243 Na(+)-translocating NADH-quinone reductase subunit B; Provisional; Region: PRK05349 930944006244 Na(+)-translocating NADH-quinone reductase subunit A; Provisional; Region: PRK05352 930944006245 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 930944006246 E3 interaction surface; other site 930944006247 lipoyl attachment site [posttranslational modification]; other site 930944006248 NQRA C-terminal domain; Region: NQRA_SLBB; pfam11973 930944006249 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3034 930944006250 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 930944006251 Predicted glutamine amidotransferase [General function prediction only]; Region: COG0121 930944006252 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 930944006253 putative active site [active] 930944006254 putative dimer interface [polypeptide binding]; other site 930944006255 Phosphoheptose isomerase is a member of the SIS (Sugar ISomerase) superfamily. Phosphoheptose isomerase catalyzes the isomerization of sedoheptulose 7-phosphate into D-glycero-D-mannoheptose 7-phosphate. This is the first step of the biosynthesis of...; Region: SIS_GmhA; cd05006 930944006256 dimer interface [polypeptide binding]; other site 930944006257 active site 930944006258 acyl-CoA dehydrogenase; Reviewed; Region: fadE; PRK09463 930944006259 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 930944006260 active site 930944006261 Domain of unknown function (DUF1974); Region: DUF1974; pfam09317 930944006262 Predicted O-linked N-acetylglucosamine transferase, SPINDLY family [Posttranslational modification, protein turnover, chaperones]; Region: Spy; COG3914 930944006263 potential frameshift: common BLAST hit: gi|332160658|ref|YP_004297235.1| putative adhesin 930944006264 Extended Signal Peptide of Type V secretion system; Region: ESPR; pfam13018 930944006265 haemagglutination activity domain; Region: Haemagg_act; pfam05860 930944006266 Large exoproteins involved in heme utilization or adhesion [Intracellular trafficking and secretion]; Region: FhaB; COG3210 930944006267 Hemolysin activation/secretion protein [Intracellular trafficking and secretion]; Region: FhaC; COG2831 930944006268 POTRA domain, ShlB-type; Region: POTRA_2; pfam08479 930944006269 methylthioribose kinase; Reviewed; Region: mtnK; PRK09550 930944006270 S-methyl-5-thioribose-1-phosphate isomerase; Region: salvage_mtnA; TIGR00512 930944006271 methylthioribose-1-phosphate isomerase; Reviewed; Region: mtnA; PRK05720 930944006272 Uncharacterized conserved protein, contains double-stranded beta-helix domain [Function unknown]; Region: COG1791 930944006273 Cupin domain; Region: Cupin_2; cl17218 930944006274 2,3-diketo-5-methylthio-1-phosphopentane phosphatase; Region: enolase-ppase; TIGR01691 930944006275 methylthioribulose-1-phosphate dehydratase; Provisional; Region: PRK09220 930944006276 intersubunit interface [polypeptide binding]; other site 930944006277 active site 930944006278 Zn2+ binding site [ion binding]; other site 930944006279 methionine aminotransferase; Validated; Region: PRK09082 930944006280 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 930944006281 pyridoxal 5'-phosphate binding site [chemical binding]; other site 930944006282 homodimer interface [polypeptide binding]; other site 930944006283 catalytic residue [active] 930944006284 C-N hydrolase family amidase; Provisional; Region: PRK10438 930944006285 Xanthomonas campestris XC1258 and related proteins, members of the nitrilase superfamily (putative class 13 nitrilases); Region: Xc-1258_like; cd07575 930944006286 putative active site [active] 930944006287 catalytic triad [active] 930944006288 dimer interface [polypeptide binding]; other site 930944006289 multimer interface [polypeptide binding]; other site 930944006290 M20 Peptidase beta-alanine synthase, an amidohydrolase; Region: M20_bAS; cd03884 930944006291 Peptidase family M20/M25/M40; Region: Peptidase_M20; pfam01546 930944006292 active site 930944006293 metal binding site [ion binding]; metal-binding site 930944006294 dimer interface [polypeptide binding]; other site 930944006295 Serine-pyruvate aminotransferase/archaeal aspartate aminotransferase [Amino acid transport and metabolism]; Region: COG0075 930944006296 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 930944006297 catalytic residue [active] 930944006298 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 930944006299 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 930944006300 Walker A/P-loop; other site 930944006301 ATP binding site [chemical binding]; other site 930944006302 Q-loop/lid; other site 930944006303 ABC transporter signature motif; other site 930944006304 Walker B; other site 930944006305 D-loop; other site 930944006306 H-loop/switch region; other site 930944006307 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 930944006308 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 930944006309 dimer interface [polypeptide binding]; other site 930944006310 conserved gate region; other site 930944006311 putative PBP binding loops; other site 930944006312 ABC-ATPase subunit interface; other site 930944006313 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 930944006314 dimer interface [polypeptide binding]; other site 930944006315 conserved gate region; other site 930944006316 putative PBP binding loops; other site 930944006317 ABC-ATPase subunit interface; other site 930944006318 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 930944006319 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 930944006320 substrate binding pocket [chemical binding]; other site 930944006321 membrane-bound complex binding site; other site 930944006322 hinge residues; other site 930944006323 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 930944006324 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 930944006325 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; COG0405 930944006326 Gamma-glutamyltranspeptidase; Region: G_glu_transpept; pfam01019 930944006327 Protein of unknown function (DUF4089); Region: DUF4089; pfam13318 930944006328 amidase; Provisional; Region: PRK09201 930944006329 Amidase; Region: Amidase; cl11426 930944006330 Protein of unknown function (DUF3225); Region: DUF3225; pfam11533 930944006331 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 930944006332 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 930944006333 putative substrate translocation pore; other site 930944006334 Predicted branched-chain amino acid permease (azaleucine resistance) [Amino acid transport and metabolism]; Region: AzlC; COG1296 930944006335 putative L-valine exporter; Provisional; Region: PRK10408 930944006336 transcriptional repressor MprA; Provisional; Region: PRK10870 930944006337 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 930944006338 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 930944006339 multidrug efflux system protein EmrA; Provisional; Region: PRK15136 930944006340 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 930944006341 HlyD family secretion protein; Region: HlyD_3; pfam13437 930944006342 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 930944006343 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 930944006344 putative substrate translocation pore; other site 930944006345 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 930944006346 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 930944006347 Transposase; Region: DEDD_Tnp_IS110; pfam01548 930944006348 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 930944006349 putative methyltransferase; Provisional; Region: PRK10864 930944006350 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; pfam08032 930944006351 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 930944006352 thioredoxin 2; Provisional; Region: PRK10996 930944006353 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 930944006354 catalytic residues [active] 930944006355 Uncharacterized conserved protein [Function unknown]; Region: COG3148 930944006356 Acyl-CoA synthetase (NDP forming) [Energy production and conversion]; Region: COG1042 930944006357 CoA binding domain; Region: CoA_binding_2; pfam13380 930944006358 Succinyl-CoA ligase like flavodoxin domain; Region: Succ_CoA_lig; pfam13607 930944006359 ATP-grasp domain; Region: ATP-grasp_5; pfam13549 930944006360 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 930944006361 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 930944006362 phosphatidylserine synthase; Provisional; Region: pssA; PRK09428 930944006363 Catalytic domain, repeat 1, of phosphatidylserine synthases from gram-negative bacteria; Region: PLDc_PSS_G_neg_1; cd09134 930944006364 domain interface [polypeptide binding]; other site 930944006365 putative active site [active] 930944006366 catalytic site [active] 930944006367 Catalytic domain, repeat 2, of phosphatidylserine synthases from gram-negative bacteria; Region: PLDc_PSS_G_neg_2; cd09136 930944006368 domain interface [polypeptide binding]; other site 930944006369 putative active site [active] 930944006370 catalytic site [active] 930944006371 lipoprotein; Provisional; Region: PRK10759 930944006372 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 930944006373 30S subunit binding site; other site 930944006374 outer membrane biogenesis protein BamD; Provisional; Region: PRK10866 930944006375 23S rRNA pseudouridine synthase D; Provisional; Region: rluD; PRK11180 930944006376 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 930944006377 RNA binding surface [nucleotide binding]; other site 930944006378 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 930944006379 active site 930944006380 hypothetical protein; Provisional; Region: PRK10723 930944006381 Multicopper polyphenol oxidase (laccase) [Secondary metabolites biosynthesis, transport and catabolism]; Region: yfiH; COG1496 930944006382 protein disaggregation chaperone; Provisional; Region: PRK10865 930944006383 Clp amino terminal domain; Region: Clp_N; pfam02861 930944006384 Clp amino terminal domain; Region: Clp_N; pfam02861 930944006385 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 930944006386 Walker A motif; other site 930944006387 ATP binding site [chemical binding]; other site 930944006388 Walker B motif; other site 930944006389 arginine finger; other site 930944006390 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 930944006391 Walker A motif; other site 930944006392 ATP binding site [chemical binding]; other site 930944006393 Walker B motif; other site 930944006394 arginine finger; other site 930944006395 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 930944006396 Transposase; Region: DEDD_Tnp_IS110; pfam01548 930944006397 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 930944006398 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 930944006399 bifunctional chorismate mutase/prephenate dehydratase; Provisional; Region: pheA; PRK10622 930944006400 chorismate mutase domain of proteobacterial P-protein, clade 1; Region: CM_P_1; TIGR01797 930944006401 Prephenate dehydratase; Region: PDT; pfam00800 930944006402 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 930944006403 putative L-Phe binding site [chemical binding]; other site 930944006404 bifunctional chorismate mutase/prephenate dehydrogenase; Provisional; Region: tyrA; PRK11199 930944006405 Chorismate mutase type II; Region: CM_2; cl00693 930944006406 prephenate dehydrogenase; Validated; Region: PRK08507 930944006407 phospho-2-dehydro-3-deoxyheptonate aldolase; Provisional; Region: PRK12755 930944006408 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 930944006409 putative two-component response-regulatory protein YehT; Provisional; Region: PRK11697 930944006410 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 930944006411 active site 930944006412 phosphorylation site [posttranslational modification] 930944006413 intermolecular recognition site; other site 930944006414 dimerization interface [polypeptide binding]; other site 930944006415 LytTr DNA-binding domain; Region: LytTR; pfam04397 930944006416 anaerobic C4-dicarboxylate transporter; Reviewed; Region: PRK12489 930944006417 Anaerobic C4-dicarboxylate transporter [General function prediction only]; Region: DcuB; COG2704 930944006418 Protein of unknown function, DUF481; Region: DUF481; cl01213 930944006419 50S ribosomal protein L19; Provisional; Region: rplS; PRK05338 930944006420 tRNA (guanine-N(1)-)-methyltransferase; Reviewed; Region: trmD; PRK00026 930944006421 16S rRNA-processing protein RimM; Provisional; Region: rimM; PRK00122 930944006422 RimM N-terminal domain; Region: RimM; pfam01782 930944006423 PRC-barrel domain; Region: PRC; pfam05239 930944006424 30S ribosomal protein S16; Reviewed; Region: rpsP; PRK00040 930944006425 signal recognition particle protein; Provisional; Region: PRK10867 930944006426 SRP54-type protein, helical bundle domain; Region: SRP54_N; smart00963 930944006427 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 930944006428 P loop; other site 930944006429 GTP binding site [chemical binding]; other site 930944006430 Signal peptide binding domain; Region: SRP_SPB; pfam02978 930944006431 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4137 930944006432 hypothetical protein; Provisional; Region: PRK11573 930944006433 Domain of unknown function DUF21; Region: DUF21; pfam01595 930944006434 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 930944006435 Transporter associated domain; Region: CorC_HlyC; smart01091 930944006436 S-ribosylhomocysteinase; Provisional; Region: PRK02260 930944006437 glutamate--cysteine ligase; Provisional; Region: PRK02107 930944006438 Predicted membrane protein [Function unknown]; Region: COG1238 930944006439 fructose-1-P/6-phosphogluconate phosphatase; Provisional; Region: PRK10725 930944006440 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 930944006441 motif II; other site 930944006442 carbon storage regulator; Provisional; Region: PRK01712 930944006443 alanyl-tRNA synthetase; Reviewed; Region: alaS; PRK00252 930944006444 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 930944006445 motif 1; other site 930944006446 active site 930944006447 motif 2; other site 930944006448 motif 3; other site 930944006449 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 930944006450 DHHA1 domain; Region: DHHA1; pfam02272 930944006451 recombination regulator RecX; Reviewed; Region: recX; PRK00117 930944006452 recombinase A; Provisional; Region: recA; PRK09354 930944006453 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 930944006454 hexamer interface [polypeptide binding]; other site 930944006455 Walker A motif; other site 930944006456 ATP binding site [chemical binding]; other site 930944006457 Walker B motif; other site 930944006458 hypothetical protein; Validated; Region: PRK03661 930944006459 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 930944006460 Major Facilitator Superfamily; Region: MFS_1; pfam07690 930944006461 putative substrate translocation pore; other site 930944006462 potential frameshift: common BLAST hit: gi|332163183|ref|YP_004299760.1| putative transposase for IS1667 930944006463 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 930944006464 Transposase; Region: DEDD_Tnp_IS110; pfam01548 930944006465 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 930944006466 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 930944006467 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 930944006468 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl17173 930944006469 twin-argninine leader-binding protein DmsD; Provisional; Region: PRK11621 930944006470 DMSO reductase anchor subunit [General function prediction only]; Region: DmsC; COG3302 930944006471 DMSO reductase, iron-sulfur subunit; Region: DMSO_dmsB; TIGR02951 930944006472 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 930944006473 anaerobic dimethyl sulfoxide reductase subunit A; Provisional; Region: PRK14990 930944006474 This CD (MopB_DmsA-EC) includes the DmsA enzyme of the dmsABC operon encoding the anaerobic dimethylsulfoxide reductase (DMSOR) of Escherichia coli and other related DMSOR-like enzymes. Unlike other DMSOR-like enzymes, this group has a predicted...; Region: MopB_DmsA-EC; cd02770 930944006475 putative [Fe4-S4] binding site [ion binding]; other site 930944006476 putative molybdopterin cofactor binding site [chemical binding]; other site 930944006477 The MopB_CT_DmsA-EC CD includes the DmsA enzyme of the dmsABC operon encoding the anaerobic dimethylsulfoxide reductase (DMSOR) of Escherichia coli and other related DMSOR-like enzymes. Unlike other DMSOR-like enzymes, this group has a predicted...; Region: MopB_CT_DmsA-EC; cd02794 930944006478 putative molybdopterin cofactor binding site; other site 930944006479 fumarate hydratase; Provisional; Region: PRK15389 930944006480 Tartrate dehydratase alpha subunit/Fumarate hydratase class I, N-terminal domain [Energy production and conversion]; Region: TtdA; COG1951 930944006481 Fumarase C-terminus; Region: Fumerase_C; pfam05683 930944006482 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 930944006483 Periplasmic component (FmdD) of an active transport system for short-chain amides and urea (FmdDEF); Region: PBP1_Amide_Urea_BP_like; cd06356 930944006484 putative ligand binding site [chemical binding]; other site 930944006485 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 930944006486 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 930944006487 TM-ABC transporter signature motif; other site 930944006488 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 930944006489 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 930944006490 TM-ABC transporter signature motif; other site 930944006491 urea ABC transporter, ATP-binding protein UrtD; Region: urea_trans_UrtD; TIGR03411 930944006492 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 930944006493 Walker A/P-loop; other site 930944006494 ATP binding site [chemical binding]; other site 930944006495 Q-loop/lid; other site 930944006496 ABC transporter signature motif; other site 930944006497 Walker B; other site 930944006498 D-loop; other site 930944006499 H-loop/switch region; other site 930944006500 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 930944006501 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 930944006502 Walker A/P-loop; other site 930944006503 ATP binding site [chemical binding]; other site 930944006504 Q-loop/lid; other site 930944006505 ABC transporter signature motif; other site 930944006506 Walker B; other site 930944006507 D-loop; other site 930944006508 H-loop/switch region; other site 930944006509 Predicted acetamidase/formamidase [Energy production and conversion]; Region: COG2421 930944006510 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 930944006511 Periplasmic binding domain of amidase (AmiC) that belongs to the type I periplasmic binding fold protein family; Region: PBP1_AmiC; cd06357 930944006512 ligand binding site [chemical binding]; other site 930944006513 regulator interaction site; other site 930944006514 Response regulator with putative antiterminator output domain [Signal transduction mechanisms]; Region: AmiR; COG3707 930944006515 ANTAR domain; Region: ANTAR; pfam03861 930944006516 Nitrilase superfamily, including nitrile- or amide-hydrolyzing enzymes and amide-condensing enzymes; Region: nitrilase; cl11424 930944006517 Predicted amidohydrolase [General function prediction only]; Region: COG0388 930944006518 active site 930944006519 catalytic triad [active] 930944006520 dimer interface [polypeptide binding]; other site 930944006521 Nitrilase superfamily, including nitrile- or amide-hydrolyzing enzymes and amide-condensing enzymes; Region: nitrilase; cl11424 930944006522 Transcriptional regulator, contains sigma factor-related N-terminal domain [Transcription]; Region: DeoR; COG2390 930944006523 helix_turn_helix, cAMP Regulatory protein C-terminus; DNA binding domain of prokaryotic regulatory proteins belonging to the catabolite activator protein family; Region: HTH_CRP; cl17320 930944006524 non-specific DNA interactions [nucleotide binding]; other site 930944006525 DNA binding site [nucleotide binding] 930944006526 sequence specific DNA binding site [nucleotide binding]; other site 930944006527 putative cAMP binding site [chemical binding]; other site 930944006528 Putative sugar-binding domain; Region: Sugar-bind; pfam04198 930944006529 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 930944006530 active pocket/dimerization site; other site 930944006531 active site 930944006532 phosphorylation site [posttranslational modification] 930944006533 PTS_IIB, PTS system, Mannose/sorbose specific IIB subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIB_man; cd00001 930944006534 active site 930944006535 phosphorylation site [posttranslational modification] 930944006536 PTS system mannose-specific transporter subunit IIC; Provisional; Region: PRK15065 930944006537 PTS system mannose/fructose/sorbose family IID component; Region: EIID-AGA; cl01507 930944006538 L-sorbose-1-phosphate reductase; Region: sorbose_phosphate_red; cd08238 930944006539 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 930944006540 putative NAD(P) binding site [chemical binding]; other site 930944006541 catalytic Zn binding site [ion binding]; other site 930944006542 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 930944006543 dimerization interface [polypeptide binding]; other site 930944006544 putative DNA binding site [nucleotide binding]; other site 930944006545 putative Zn2+ binding site [ion binding]; other site 930944006546 elongation factor G; Reviewed; Region: PRK00007 930944006547 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 930944006548 G1 box; other site 930944006549 putative GEF interaction site [polypeptide binding]; other site 930944006550 GTP/Mg2+ binding site [chemical binding]; other site 930944006551 Switch I region; other site 930944006552 G2 box; other site 930944006553 G3 box; other site 930944006554 Switch II region; other site 930944006555 G4 box; other site 930944006556 G5 box; other site 930944006557 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 930944006558 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 930944006559 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 930944006560 Cupin domain; Region: Cupin_2; pfam07883 930944006561 Haem-binding domain; Region: Haem_bd; pfam14376 930944006562 Cytochrome c peroxidase [Inorganic ion transport and metabolism]; Region: MauG; COG1858 930944006563 Histidinol-phosphate/aromatic aminotransferase and cobyric acid decarboxylase [Amino acid transport and metabolism]; Region: HisC; COG0079 930944006564 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 930944006565 pyridoxal 5'-phosphate binding site [chemical binding]; other site 930944006566 homodimer interface [polypeptide binding]; other site 930944006567 catalytic residue [active] 930944006568 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 930944006569 Transposase; Region: DEDD_Tnp_IS110; pfam01548 930944006570 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 930944006571 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 930944006572 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 930944006573 NAD(P) binding site [chemical binding]; other site 930944006574 active site 930944006575 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 930944006576 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 930944006577 beta-ketoacyl-acyl-carrier-protein synthase II; Region: fabF; TIGR03150 930944006578 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 930944006579 dimer interface [polypeptide binding]; other site 930944006580 active site 930944006581 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 930944006582 macrolide transporter ATP-binding /permease protein; Provisional; Region: PRK10535 930944006583 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 930944006584 Walker A/P-loop; other site 930944006585 ATP binding site [chemical binding]; other site 930944006586 Q-loop/lid; other site 930944006587 ABC transporter signature motif; other site 930944006588 Walker B; other site 930944006589 D-loop; other site 930944006590 H-loop/switch region; other site 930944006591 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 930944006592 FtsX-like permease family; Region: FtsX; pfam02687 930944006593 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 930944006594 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 930944006595 HlyD family secretion protein; Region: HlyD_3; pfam13437 930944006596 Peptidase family C39 mostly contains bacteriocin-processing endopeptidases from bacteria. The cysteine peptidases in family C39 cleave the "double-glycine" leader peptides from the precursors of various bacteriocins (mostly non-lantibiotic); Region: Peptidase_C39_like; cl00296 930944006597 ABC-type bacteriocin/lantibiotic exporters, contain an N-terminal double-glycine peptidase domain [Defense mechanisms]; Region: SunT; COG2274 930944006598 putative active site [active] 930944006599 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 930944006600 ATP-binding cassette domain of multidrug resistance protein-like transporters; Region: ABCC_MRP_Like; cd03228 930944006601 Walker A/P-loop; other site 930944006602 ATP binding site [chemical binding]; other site 930944006603 Q-loop/lid; other site 930944006604 ABC transporter signature motif; other site 930944006605 Walker B; other site 930944006606 D-loop; other site 930944006607 H-loop/switch region; other site 930944006608 Lysophospholipid acyltransferases (LPLATs) of glycerophospholipid biosynthesis; Region: LPLAT; cl17185 930944006609 putative acyl-acceptor binding pocket; other site 930944006610 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 930944006611 Fimbrial protein; Region: Fimbrial; cl01416 930944006612 Fimbrial protein; Region: Fimbrial; cl01416 930944006613 Fimbrial protein; Region: Fimbrial; pfam00419 930944006614 putative periplasmic fimbrial chaperone protein SteC; Provisional; Region: PRK15274 930944006615 Gram-negative pili assembly chaperone, N-terminal domain; Region: Pili_assembly_N; pfam00345 930944006616 Gram-negative pili assembly chaperone, C-terminal domain; Region: Pili_assembly_C; pfam02753 930944006617 putative fimbrial outer membrane usher protein StfC; Provisional; Region: PRK15284 930944006618 PapC N-terminal domain; Region: PapC_N; pfam13954 930944006619 Type VII secretion system (T7SS), usher protein; Region: Usher; pfam00577 930944006620 PapC C-terminal domain; Region: PapC_C; pfam13953 930944006621 potential frameshift: common BLAST hit: gi|123441133|ref|YP_001005121.1| exported minor pilin protein 930944006622 Fimbrial protein; Region: Fimbrial; cl01416 930944006623 P pilus assembly protein, pilin FimA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimA; COG3539 930944006624 Fimbrial protein; Region: Fimbrial; cl01416 930944006625 FaeA-like protein; Region: FaeA; pfam04703 930944006626 Lipid A core - O-antigen ligase and related enzymes [Cell envelope biogenesis, outer membrane]; Region: RfaL; COG3307 930944006627 O-Antigen ligase; Region: Wzy_C; pfam04932 930944006628 Domain of unknown function (DUF3366); Region: DUF3366; pfam11846 930944006629 DNA mismatch repair protein MutS; Provisional; Region: PRK05399 930944006630 MutS domain I; Region: MutS_I; pfam01624 930944006631 MutS domain II; Region: MutS_II; pfam05188 930944006632 MutS domain III; Region: MutS_III; pfam05192 930944006633 ATP-binding cassette domain of MutS1 homolog; Region: ABC_MutS1; cd03284 930944006634 Walker A/P-loop; other site 930944006635 ATP binding site [chemical binding]; other site 930944006636 Q-loop/lid; other site 930944006637 ABC transporter signature motif; other site 930944006638 Walker B; other site 930944006639 D-loop; other site 930944006640 H-loop/switch region; other site 930944006641 RNA polymerase sigma factor RpoS; Validated; Region: PRK05657 930944006642 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 930944006643 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 930944006644 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 930944006645 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 930944006646 DNA binding residues [nucleotide binding] 930944006647 lipoprotein NlpD; Provisional; Region: nlpD; PRK10871 930944006648 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 930944006649 Peptidase family M23; Region: Peptidase_M23; pfam01551 930944006650 protein-L-isoaspartate O-methyltransferase; Reviewed; Region: pcm; PRK00312 930944006651 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 930944006652 S-adenosylmethionine binding site [chemical binding]; other site 930944006653 5'(3')-nucleotidase/polyphosphatase; Provisional; Region: surE; PRK00346 930944006654 tRNA pseudouridine synthase D; Reviewed; Region: truD; PRK00984 930944006655 Pseudouridine synthase, similar to Escherichia coli TruD; Region: PseudoU_synth_EcTruD; cd02575 930944006656 Permutation of conserved domain; other site 930944006657 active site 930944006658 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 930944006659 homotrimer interaction site [polypeptide binding]; other site 930944006660 zinc binding site [ion binding]; other site 930944006661 CDP-binding sites; other site 930944006662 CDP-ME synthetase is involved in mevalonate-independent isoprenoid production; Region: CDP-ME_synthetase; cd02516 930944006663 substrate binding site; other site 930944006664 dimer interface; other site 930944006665 cell division protein FtsB; Reviewed; Region: ftsB; PRK00888 930944006666 Septum formation initiator [Cell division and chromosome partitioning]; Region: COG2919 930944006667 hypothetical protein; Provisional; Region: PRK10726 930944006668 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 930944006669 ligand-binding site [chemical binding]; other site 930944006670 sulfate adenylyltransferase subunit 1; Provisional; Region: cysN; PRK05124 930944006671 CysN, together with protein CysD, forms the ATP sulfurylase (ATPS) complex; Region: CysN_ATPS; cd04166 930944006672 CysD dimerization site [polypeptide binding]; other site 930944006673 G1 box; other site 930944006674 putative GEF interaction site [polypeptide binding]; other site 930944006675 GTP/Mg2+ binding site [chemical binding]; other site 930944006676 Switch I region; other site 930944006677 G2 box; other site 930944006678 G3 box; other site 930944006679 Switch II region; other site 930944006680 G4 box; other site 930944006681 G5 box; other site 930944006682 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 930944006683 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 930944006684 sulfate adenylyltransferase, small subunit; Region: CysD; TIGR02039 930944006685 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 930944006686 Active Sites [active] 930944006687 siroheme synthase; Provisional; Region: cysG; PRK10637 930944006688 Putative NAD(P)-binding; Region: NAD_binding_7; pfam13241 930944006689 Sirohaem synthase dimerisation region; Region: CysG_dimeriser; pfam10414 930944006690 Uroporphyrin-III C-methyltransferase (S-Adenosyl-L-methionine:uroporphyrinogen III methyltransferase, SUMT); Region: SUMT; cd11642 930944006691 active site 930944006692 SAM binding site [chemical binding]; other site 930944006693 homodimer interface [polypeptide binding]; other site 930944006694 alkaline phosphatase isozyme conversion aminopeptidase; Provisional; Region: PRK10199 930944006695 M28 Zn-peptidases include aminopeptidases and carboxypeptidases; Region: M28; cd02690 930944006696 metal binding site [ion binding]; metal-binding site 930944006697 YcfA-like protein; Region: YcfA; pfam07927 930944006698 Predicted nuclease of the RNAse H fold, HicB family [General function prediction only]; Region: COG1598 930944006699 3'-phosphoadenosine 5'-phosphosulfate sulfotransferase (PAPS reductase)/FAD synthetase and related enzymes [Amino acid transport and metabolism / Coenzyme metabolism]; Region: CysH; COG0175 930944006700 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 930944006701 Active Sites [active] 930944006702 sulfite reductase subunit beta; Provisional; Region: PRK13504 930944006703 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 930944006704 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 930944006705 sulfite reductase subunit alpha; Provisional; Region: cysJ; PRK10953 930944006706 Flavodoxin; Region: Flavodoxin_1; pfam00258 930944006707 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; cd06199 930944006708 FAD binding pocket [chemical binding]; other site 930944006709 FAD binding motif [chemical binding]; other site 930944006710 catalytic residues [active] 930944006711 NAD binding pocket [chemical binding]; other site 930944006712 phosphate binding motif [ion binding]; other site 930944006713 beta-alpha-beta structure motif; other site 930944006714 Tunnelling fold (T-fold). The five known T-folds are found in five different enzymes with different functions: dihydroneopterin-triphosphate epimerase (DHNTPE), dihydroneopterin aldolase (DHNA) , GTP cyclohydrolase I (GTPCH-1), 6-pyrovoyl...; Region: TFold; cl00263 930944006715 active site 930944006716 Organic radical activating enzymes [Posttranslational modification, protein turnover, chaperones]; Region: NrdG; COG0602 930944006717 putative 7-cyano-7-deazaguanosine (preQ0) biosynthesis protein QueE; Region: rSAM_QueE_Ecoli; TIGR04322 930944006718 Cu/Zn superoxide dismutase [Inorganic ion transport and metabolism]; Region: SodC; COG2032 930944006719 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 930944006720 E-class dimer interface [polypeptide binding]; other site 930944006721 P-class dimer interface [polypeptide binding]; other site 930944006722 active site 930944006723 Cu2+ binding site [ion binding]; other site 930944006724 Zn2+ binding site [ion binding]; other site 930944006725 D-3-phosphoglycerate dehydrogenase; Provisional; Region: PRK11790 930944006726 Phosphoglycerate dehydrogenases, NAD-binding and catalytic domains; Region: PGDH_3; cd12176 930944006727 ligand binding site [chemical binding]; other site 930944006728 NAD binding site [chemical binding]; other site 930944006729 tetramer interface [polypeptide binding]; other site 930944006730 catalytic site [active] 930944006731 C-terminal ACT (regulatory) domain of D-3-Phosphoglycerate Dehydrogenase (3PGDH) found in fungi and bacteria; Region: ACT_3PGDH; cd04901 930944006732 L-serine binding site [chemical binding]; other site 930944006733 ACT domain interface; other site 930944006734 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 930944006735 tetramer (dimer of dimers) interface [polypeptide binding]; other site 930944006736 active site 930944006737 dimer interface [polypeptide binding]; other site 930944006738 chromosome replication initiation inhibitor protein; Validated; Region: PRK03635 930944006739 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 930944006740 The C-terminal substrate binding domain of LysR-type transcriptional regulator, ArgP (IciA), for arginine exporter (ArgO); contains the type 2 periplasmic binding fold; Region: PBP2_IciA_ArgP; cd08428 930944006741 putative dimerization interface [polypeptide binding]; other site 930944006742 Uncharacterized conserved protein [Function unknown]; Region: COG2968 930944006743 oxidative stress defense protein; Provisional; Region: PRK11087 930944006744 arginine exporter protein; Provisional; Region: PRK09304 930944006745 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 930944006746 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 930944006747 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 930944006748 Transposase; Region: DEDD_Tnp_IS110; pfam01548 930944006749 mechanosensitive channel MscS; Provisional; Region: PRK10334 930944006750 Mechanosensitive ion channel; Region: MS_channel; pfam00924 930944006751 Protein tyrosine phosphatases (PTP) catalyze the dephosphorylation of phosphotyrosine peptides; they regulate phosphotyrosine levels in signal transduction pathways. The depth of the active site cleft renders the enzyme specific for phosphorylated Tyr; Region: PTPc; cl00053 930944006752 active site 930944006753 fructose-bisphosphate aldolase; Provisional; Region: PRK09197 930944006754 Class II Type A, Fructose-1,6-bisphosphate (FBP) aldolases. The enzyme catalyses the zinc-dependent, reversible aldol condensation of dihydroxyacetone phosphate with glyceraldehyde-3-phosphate to form fructose-1,6-bisphosphate. FBP aldolase is...; Region: FBP_aldolase_IIA; cd00946 930944006755 active site 930944006756 intersubunit interface [polypeptide binding]; other site 930944006757 zinc binding site [ion binding]; other site 930944006758 Na+ binding site [ion binding]; other site 930944006759 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 930944006760 Phosphoglycerate kinase; Region: PGK; pfam00162 930944006761 substrate binding site [chemical binding]; other site 930944006762 hinge regions; other site 930944006763 ADP binding site [chemical binding]; other site 930944006764 catalytic site [active] 930944006765 erythrose 4-phosphate dehydrogenase; Provisional; Region: PRK13535 930944006766 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; smart00846 930944006767 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 930944006768 transketolase; Reviewed; Region: PRK12753 930944006769 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 930944006770 TPP-binding site [chemical binding]; other site 930944006771 dimer interface [polypeptide binding]; other site 930944006772 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 930944006773 PYR/PP interface [polypeptide binding]; other site 930944006774 dimer interface [polypeptide binding]; other site 930944006775 TPP binding site [chemical binding]; other site 930944006776 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 930944006777 Zn-dependent protease with chaperone function [Posttranslational modification, protein turnover, chaperones]; Region: HtpX; COG0501 930944006778 Rieske non-heme iron oxygenase (RO) family, Rieske ferredoxin component; composed of the Rieske ferredoxin component of some three-component RO systems including biphenyl dioxygenase (BPDO) and carbazole 1,9a-dioxygenase (CARDO). The RO family comprise a...; Region: Rieske_RO_ferredoxin; cd03528 930944006779 [2Fe-2S] cluster binding site [ion binding]; other site 930944006780 Arginine decarboxylase (spermidine biosynthesis) [Amino acid transport and metabolism]; Region: SpeA; COG1166 930944006781 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Arginine Decarboxylase; Region: PLPDE_III_ADC; cd06830 930944006782 dimer interface [polypeptide binding]; other site 930944006783 active site 930944006784 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 930944006785 catalytic residues [active] 930944006786 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes; Region: PLPDE_III; cl00261 930944006787 S-adenosylmethionine synthetase; Validated; Region: PRK05250 930944006788 S-adenosylmethionine synthetase, N-terminal domain; Region: S-AdoMet_synt_N; pfam00438 930944006789 S-adenosylmethionine synthetase, central domain; Region: S-AdoMet_synt_M; pfam02772 930944006790 S-adenosylmethionine synthetase, C-terminal domain; Region: S-AdoMet_synt_C; pfam02773 930944006791 Predicted transporter component [General function prediction only]; Region: COG2391 930944006792 Sulphur transport; Region: Sulf_transp; pfam04143 930944006793 Predicted transporter component [General function prediction only]; Region: COG2391 930944006794 Sulphur transport; Region: Sulf_transp; pfam04143 930944006795 Predicted transcriptional regulators [Transcription]; Region: COG1733 930944006796 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 930944006797 dimerization interface [polypeptide binding]; other site 930944006798 putative DNA binding site [nucleotide binding]; other site 930944006799 putative Zn2+ binding site [ion binding]; other site 930944006800 hypothetical protein; Provisional; Region: PRK04860 930944006801 Zn-dependent metalloprotease, SprT family [General function prediction only]; Region: SprT; COG3091 930944006802 DNA-specific endonuclease I; Provisional; Region: PRK15137 930944006803 Endonuclease I [DNA replication, recombination, and repair]; Region: EndA; COG2356 930944006804 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1385 930944006805 RNA methyltransferase, RsmE family; Region: TIGR00046 930944006806 glutathione synthetase; Provisional; Region: PRK05246 930944006807 Prokaryotic glutathione synthetase, N-terminal domain; Region: GSH-S_N; pfam02951 930944006808 Prokaryotic glutathione synthetase, ATP-grasp domain; Region: GSH-S_ATP; pfam02955 930944006809 hypothetical protein; Validated; Region: PRK00228 930944006810 Holliday junction resolvase-like protein; Reviewed; Region: PRK00109 930944006811 N-carbamoylputrescine amidohydrolase (CPA) (class 11 nitrilases); Region: CPA; cd07573 930944006812 N-carbamoylputrescine amidase; Region: agmatine_aguB; TIGR03381 930944006813 putative active site; other site 930944006814 catalytic triad [active] 930944006815 putative dimer interface [polypeptide binding]; other site 930944006816 agmatine deiminase; Provisional; Region: PRK13551 930944006817 agmatine deiminase; Region: agmatine_aguA; TIGR03380 930944006818 Tfp pilus assembly protein, pilus retraction ATPase PilT [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilT; COG2805 930944006819 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 930944006820 Walker A motif; other site 930944006821 ATP binding site [chemical binding]; other site 930944006822 Walker B motif; other site 930944006823 Pyridoxal 5-phosphate (PLP)-binding TIM barrel domain of Type III PLP-Dependent Enzymes, Yggs-like proteins; Region: PLPDE_III_Yggs_like; cd06824 930944006824 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 930944006825 catalytic residue [active] 930944006826 pyrroline-5-carboxylate reductase; Reviewed; Region: PRK11880 930944006827 NADP oxidoreductase coenzyme F420-dependent; Region: F420_oxidored; cl17232 930944006828 YGGT family; Region: YGGT; pfam02325 930944006829 YGGT family; Region: YGGT; pfam02325 930944006830 hypothetical protein; Validated; Region: PRK05090 930944006831 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 930944006832 active site 930944006833 dimerization interface [polypeptide binding]; other site 930944006834 HemN family oxidoreductase; Provisional; Region: PRK05660 930944006835 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 930944006836 FeS/SAM binding site; other site 930944006837 HemN C-terminal domain; Region: HemN_C; pfam06969 930944006838 hypothetical protein; Provisional; Region: PRK10626 930944006839 Protein of unknown function (DUF2884); Region: DUF2884; pfam11101 930944006840 glutaminase; Provisional; Region: PRK00971 930944006841 Glutaminase [Amino acid transport and metabolism]; Region: GlsA; COG2066 930944006842 hypothetical protein; Provisional; Region: PRK11702 930944006843 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 930944006844 S-adenosylmethionine binding site [chemical binding]; other site 930944006845 adenine DNA glycosylase; Provisional; Region: PRK10880 930944006846 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 930944006847 minor groove reading motif; other site 930944006848 helix-hairpin-helix signature motif; other site 930944006849 substrate binding pocket [chemical binding]; other site 930944006850 active site 930944006851 iron-sulpphur binding domain in DNA-(apurinic or apyrimidinic site) lyase (subfamily of ENDO3); Region: FES; smart00525 930944006852 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 930944006853 DNA binding and oxoG recognition site [nucleotide binding] 930944006854 oxidative damage protection protein; Provisional; Region: PRK05408 930944006855 murein transglycosylase C; Provisional; Region: mltC; PRK11671 930944006856 Domain of unknown function (DUF3393); Region: DUF3393; pfam11873 930944006857 lysozyme_like domain. This contains several members including Soluble Lytic Transglycosylases (SLT), Goose Egg-White Lysozymes (GEWL), Hen Egg-White Lysozymes (HEWL), chitinases, bacteriophage lambda lysozymes, endolysins, autolysins, and chitosanases; Region: lysozyme_like; cl00222 930944006858 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 930944006859 N-acetyl-D-glucosamine binding site [chemical binding]; other site 930944006860 catalytic residue [active] 930944006861 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 930944006862 ornithine decarboxylase; Provisional; Region: PRK13578 930944006863 Orn/Lys/Arg decarboxylase, N-terminal domain; Region: OKR_DC_1_N; pfam03709 930944006864 Ornithine decarboxylase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD corresponds to ornithine decarboxylase (ODC), arginine decarboxylase (ADC) and lysine...; Region: Orn_deC_like; cd00615 930944006865 homodimer interface [polypeptide binding]; other site 930944006866 pyridoxal 5'-phosphate binding site [chemical binding]; other site 930944006867 catalytic residue [active] 930944006868 Orn/Lys/Arg decarboxylase, C-terminal domain; Region: OKR_DC_1_C; pfam03711 930944006869 Site-specific recombinase XerC [DNA replication, recombination, and repair]; Region: XerC; COG4973 930944006870 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 930944006871 active site 930944006872 catalytic residues [active] 930944006873 DNA binding site [nucleotide binding] 930944006874 Int/Topo IB signature motif; other site 930944006875 integrating conjugative element relaxase, PFL_4751 family; Region: ICE_TraI_Pfluor; TIGR03760 930944006876 Protein of unknown function (DUF1528); Region: DUF1528; pfam07515 930944006877 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3677 930944006878 InsA N-terminal domain; Region: Zn_Tnp_IS1; pfam03811 930944006879 InsA C-terminal domain; Region: HTH_Tnp_IS1; pfam12759 930944006880 IS1 transposase; Region: DDE_Tnp_IS1; cl00721 930944006881 Choloylglycine hydrolase (CGH) is a bile salt-modifying enzyme that hydrolyzes non-peptide carbon-nitrogen bonds in choloylglycine and choloyltaurine, both of which are present in bile. CGH is present in a number of probiotic microbial organisms that...; Region: Ntn_CGH; cd01902 930944006882 Linear amide C-N hydrolases, choloylglycine hydrolase family; Region: CBAH; pfam02275 930944006883 putrescine transporter; Provisional; Region: potE; PRK10655 930944006884 ornithine decarboxylase; Provisional; Region: PRK13578 930944006885 Orn/Lys/Arg decarboxylase, N-terminal domain; Region: OKR_DC_1_N; pfam03709 930944006886 Ornithine decarboxylase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD corresponds to ornithine decarboxylase (ODC), arginine decarboxylase (ADC) and lysine...; Region: Orn_deC_like; cd00615 930944006887 homodimer interface [polypeptide binding]; other site 930944006888 pyridoxal 5'-phosphate binding site [chemical binding]; other site 930944006889 catalytic residue [active] 930944006890 Orn/Lys/Arg decarboxylase, C-terminal domain; Region: OKR_DC_1_C; pfam03711 930944006891 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 930944006892 Predicted membrane protein [Function unknown]; Region: COG1289 930944006893 Fusaric acid resistance protein-like; Region: FUSC_2; pfam13515 930944006894 multidrug resistance protein MdtN; Provisional; Region: PRK10476 930944006895 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 930944006896 HlyD family secretion protein; Region: HlyD_3; pfam13437 930944006897 Imidazolonepropionase and related amidohydrolases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: HutI; COG1228 930944006898 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 930944006899 Metallo-dependent hydrolases, subgroup A 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_A; cd01299 930944006900 active site 930944006901 Protein of unknown function (DUF3423); Region: DUF3423; pfam11903 930944006902 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 930944006903 active site 930944006904 ABC-type enterochelin transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CeuD; COG4604 930944006905 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 930944006906 Walker A/P-loop; other site 930944006907 ATP binding site [chemical binding]; other site 930944006908 Q-loop/lid; other site 930944006909 ABC transporter signature motif; other site 930944006910 Walker B; other site 930944006911 D-loop; other site 930944006912 H-loop/switch region; other site 930944006913 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 930944006914 ABC-ATPase subunit interface; other site 930944006915 dimer interface [polypeptide binding]; other site 930944006916 putative PBP binding regions; other site 930944006917 ABC-type enterobactin transport system, permease component [Inorganic ion transport and metabolism]; Region: FepG; COG4779 930944006918 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 930944006919 ABC-ATPase subunit interface; other site 930944006920 dimer interface [polypeptide binding]; other site 930944006921 putative PBP binding regions; other site 930944006922 ABC-type enterochelin transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: CeuA; COG4607 930944006923 Siderophore binding protein FatB. These proteins have been shown to function as ABC-type initial receptors in the siderophore-mediated iron uptake in some eubacterial species. They belong to the TroA superfamily of periplasmic metal binding proteins...; Region: FatB; cd01140 930944006924 putative ligand binding residues [chemical binding]; other site 930944006925 O-methyltransferase; Region: Methyltransf_2; pfam00891 930944006926 O-methyltransferase; Region: Methyltransf_2; pfam00891 930944006927 putative DMT superfamily transporter inner membrane protein; Provisional; Region: PRK11272 930944006928 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 930944006929 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 930944006930 DNA-binding site [nucleotide binding]; DNA binding site 930944006931 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 930944006932 pyridoxal 5'-phosphate binding site [chemical binding]; other site 930944006933 homodimer interface [polypeptide binding]; other site 930944006934 catalytic residue [active] 930944006935 Putative FMN-binding domain; Region: FMN_bind_2; cl17803 930944006936 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 930944006937 metabolite-proton symporter; Region: 2A0106; TIGR00883 930944006938 putative substrate translocation pore; other site 930944006939 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 930944006940 DNA binding site [nucleotide binding] 930944006941 Transcriptional regulators [Transcription]; Region: PurR; COG1609 930944006942 domain linker motif; other site 930944006943 Ligand binding domain of the LacI tanscriptional regulator family belonging to the type I periplasmic-binding fold protein superfamily; Region: PBP1_LacI_sugar_binding_like; cd06267 930944006944 dimerization interface [polypeptide binding]; other site 930944006945 ligand binding site [chemical binding]; other site 930944006946 nuc_hydro: Nucleoside hydrolases. Nucleoside hydrolases cleave the N-glycosidic bond in nucleosides generating ribose and the respective base. These enzymes vary in their substrate specificity. This group contains eukaryotic, bacterial and archeal...; Region: nuc_hydro; cd00455 930944006947 active site 930944006948 Na+/phosphate symporter [Inorganic ion transport and metabolism]; Region: NptA; COG1283 930944006949 Na+/Pi-cotransporter; Region: Na_Pi_cotrans; pfam02690 930944006950 PhoU domain; Region: PhoU; pfam01895 930944006951 Isochorismatase family; Region: Isochorismatase; pfam00857 930944006952 Cysteine hydrolases; This family contains amidohydrolases, like CSHase (N-carbamoylsarcosine amidohydrolase), involved in creatine metabolism and nicotinamidase, converting nicotinamide to nicotinic acid and ammonia in the pyridine nucleotide cycle. It...; Region: cysteine_hydrolases; cl00220 930944006953 catalytic triad [active] 930944006954 conserved cis-peptide bond; other site 930944006955 proline/glycine betaine transporter; Provisional; Region: PRK10642 930944006956 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 930944006957 putative substrate translocation pore; other site 930944006958 Osmosensory transporter coiled coil; Region: Osmo_CC; pfam08946 930944006959 potential frameshift: common BLAST hit: gi|332162861|ref|YP_004299438.1| putative integral membrane efflux protein 930944006960 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 930944006961 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 930944006962 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 930944006963 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 930944006964 HlyD family secretion protein; Region: HlyD_3; pfam13437 930944006965 Predicted periplasmic ligand-binding sensor domain [Signal transduction mechanisms]; Region: COG3322 930944006966 PAS domain S-box; Region: sensory_box; TIGR00229 930944006967 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 930944006968 putative active site [active] 930944006969 heme pocket [chemical binding]; other site 930944006970 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 930944006971 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 930944006972 metal binding site [ion binding]; metal-binding site 930944006973 active site 930944006974 I-site; other site 930944006975 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 930944006976 Protein of unknown function (DUF3313); Region: DUF3313; pfam11769 930944006977 4-methyl-5-beta-hydroxyethylthiazole (Thz) kinase catalyzes the phosphorylation of the hydroxylgroup of Thz. A reaction that allows cells to recycle Thz into the thiamine biosynthesis pathway, as an alternative to its synthesis from cysteine, tyrosine...; Region: THZ_kinase; cd01170 930944006978 substrate binding site [chemical binding]; other site 930944006979 multimerization interface [polypeptide binding]; other site 930944006980 ATP binding site [chemical binding]; other site 930944006981 Fic family protein [Function unknown]; Region: COG3177 930944006982 Fic/DOC family; Region: Fic; pfam02661 930944006983 HTH domain; Region: HTH_11; cl17392 930944006984 Hydrogenase maturation factor [Posttranslational modification, protein turnover, chaperones]; Region: HypF; COG0068 930944006985 Acylphosphatase; Region: Acylphosphatase; pfam00708 930944006986 HypF finger; Region: zf-HYPF; pfam07503 930944006987 HypF finger; Region: zf-HYPF; pfam07503 930944006988 Telomere recombination; Region: Sua5_yciO_yrdC; pfam01300 930944006989 HypE (Hydrogenase expression/formation protein). HypE is involved in Ni-Fe hydrogenase biosynthesis. HypE dehydrates its own carbamoyl moiety in an ATP-dependent process to yield the enzyme thiocyanate. The N-terminal domain of HypE is related to the...; Region: HypE; cd02197 930944006990 dimerization interface [polypeptide binding]; other site 930944006991 hydrogenase expression/formation protein HypE; Region: hypE; TIGR02124 930944006992 ATP binding site [chemical binding]; other site 930944006993 hydrogenase isoenzymes formation protein HypD; Provisional; Region: PRK15062 930944006994 hydrogenase expression/formation protein HypD; Region: hypD; TIGR00075 930944006995 HupF/HypC family; Region: HupF_HypC; cl00394 930944006996 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 930944006997 Zn finger protein HypA/HybF (possibly regulating hydrogenase expression) [General function prediction only]; Region: HybF; COG0375 930944006998 Hydrogenase expression/synthesis hypA family; Region: HypA; cl17671 930944006999 hydrogenase 2-specific chaperone; Provisional; Region: PRK10465 930944007000 Endopeptidases belonging to membrane-bound hydrogenases group. These hydrogenases transfer electrons from H2 to a cytochrome that is bound to a membrane-located complex coupling electron transfer to transmembrane proton translocation. Endopeptidase HybD...; Region: H2MP_MemB-H2up; cd06062 930944007001 nickel binding site [ion binding]; other site 930944007002 putative substrate-binding site; other site 930944007003 hydrogenase 2 large subunit; Provisional; Region: PRK10467 930944007004 Ni,Fe-hydrogenase I large subunit [Energy production and conversion]; Region: HyaB; COG0374 930944007005 putative hydrogenase 2 b cytochrome subunit; Provisional; Region: PRK10881 930944007006 hydrogenase 2 protein HybA; Provisional; Region: PRK10882 930944007007 4Fe-4S binding domain; Region: Fer4_6; pfam12837 930944007008 hydrogenase 2 small subunit; Provisional; Region: PRK10468 930944007009 Tat (twin-arginine translocation) pathway signal sequence; Region: TAT_signal_seq; TIGR01409 930944007010 NADH ubiquinone oxidoreductase, 20 Kd subunit; Region: Oxidored_q6; pfam01058 930944007011 Glycine zipper 2TM domain; Region: Rick_17kDa_Anti; cl10470 930944007012 Flagellar motor protein [Cell motility and secretion]; Region: MotB; COG1360 930944007013 Membrane MotB of proton-channel complex MotA/MotB; Region: MotB_plug; pfam13677 930944007014 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 930944007015 ligand binding site [chemical binding]; other site 930944007016 flagellar motor protein MotA; Provisional; Region: PRK12482 930944007017 Flagellar motor component [Cell motility and secretion]; Region: MotA; COG1291 930944007018 flagellar biosynthesis sigma factor; Provisional; Region: PRK12427 930944007019 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 930944007020 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 930944007021 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 930944007022 DNA binding residues [nucleotide binding] 930944007023 Flagellar basal body-associated protein FliL; Region: FliL; pfam03748 930944007024 Flagellar hook-length control protein FliK; Region: Flg_hook; pfam02120 930944007025 Flagellar protein FliS; Region: FliS; cl00654 930944007026 Flagellar hook-associated protein 2 C-terminus; Region: FliD_N; pfam02465 930944007027 Flagellin hook IN motif; Region: Flagellin_IN; pfam07196 930944007028 Flagellar hook-associated protein 2 C-terminus; Region: FliD_C; pfam07195 930944007029 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 930944007030 flagellin; Provisional; Region: PRK12808 930944007031 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 930944007032 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 930944007033 DNA binding site [nucleotide binding] 930944007034 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 930944007035 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 930944007036 flagellar hook-associated protein FlgL; Reviewed; Region: flgL; PRK07192 930944007037 flagellar hook-associated protein FlgK; Validated; Region: flgK; PRK07191 930944007038 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; cl15855 930944007039 Rod binding protein; Region: Rod-binding; cl01626 930944007040 Flagellar P-ring protein; Region: FlgI; pfam02119 930944007041 flagellar basal body P-ring protein; Reviewed; Region: flgI; cl14622 930944007042 flagellar basal body P-ring protein; Provisional; Region: flgI; PRK05303 930944007043 flagellar basal body L-ring protein; Reviewed; Region: flgH; PRK12407 930944007044 Flagellar L-ring protein; Region: FlgH; pfam02107 930944007045 flagellar basal body rod protein FlgG; Provisional; Region: flgG; PRK12693 930944007046 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 930944007047 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 930944007048 flagellar basal body rod protein FlgF; Reviewed; Region: flgF; PRK12640 930944007049 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 930944007050 flagellar basal-body rod protein FlgF; Region: flgF; TIGR02490 930944007051 flagellar hook protein FlgE; Validated; Region: flgE; PRK06803 930944007052 Flagellar basal body protein FlaE; Region: FlaE; pfam07559 930944007053 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; cl15855 930944007054 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 930944007055 Flagellar hook capping protein [Cell motility and secretion]; Region: FlgD; COG1843 930944007056 Flagellar hook capping protein - N-terminal region; Region: FlgD; pfam03963 930944007057 FlgD Tudor-like domain; Region: FLgD_tudor; pfam13861 930944007058 flagellar basal body rod protein FlgC; Reviewed; Region: flgC; PRK06802 930944007059 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 930944007060 flagellar basal body rod protein FlgB; Reviewed; Region: flgB; PRK07182 930944007061 flagellar basal body rod protein FlgB; Reviewed; Region: flgB; PRK12685 930944007062 SAF-like; Region: SAF_2; pfam13144 930944007063 SAF domains of the flagella basal body P-ring formation protein FlgA and the flp pilus assembly CpaB; Region: SAF_CpaB_FlgA_like; cd11614 930944007064 Anti-sigma-28 factor, FlgM; Region: FlgM; pfam04316 930944007065 FlgN protein; Region: FlgN; pfam05130 930944007066 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 930944007067 Transposase; Region: DEDD_Tnp_IS110; pfam01548 930944007068 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 930944007069 Transposase; Region: HTH_Tnp_1; pfam01527 930944007070 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 930944007071 Integrase core domain; Region: rve; pfam00665 930944007072 putative bacteriocin export ABC transporter, lactococcin 972 group; Region: L_ocin_972_ABC; TIGR03608 930944007073 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 930944007074 Walker A/P-loop; other site 930944007075 ATP binding site [chemical binding]; other site 930944007076 Q-loop/lid; other site 930944007077 ABC transporter signature motif; other site 930944007078 Walker B; other site 930944007079 D-loop; other site 930944007080 H-loop/switch region; other site 930944007081 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 930944007082 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 930944007083 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 930944007084 Uncharacterized ACR, COG2135; Region: DUF159; cl03646 930944007085 Putative silver efflux pump [Inorganic ion transport and metabolism]; Region: COG3696 930944007086 alpha-ketoglutarate-dependent dioxygenase AlkB; Provisional; Region: PRK15401 930944007087 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 930944007088 Flp pilus assembly protein, protease CpaA [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: CpaA; COG4960 930944007089 This domain family includes a range of different proteins. Such as antifreeze proteins and flagellar FlgA proteins, and CpaB pilus proteins; Region: SAF; smart00858 930944007090 Flp pilus assembly protein, secretin CpaC [Intracellular trafficking and secretion]; Region: CpaC; COG4964 930944007091 Pilus formation protein N terminal region; Region: T2SS-T3SS_pil_N; pfam13629 930944007092 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 930944007093 Flp pilus assembly protein, ATPase CpaE [Intracellular trafficking and secretion]; Region: CpaE; COG4963 930944007094 This protein family consists of proteins similar to the cpaE protein of the Caulobacter pilus assembly and the orf4 protein of Actinobacillus pilus formation gene cluster. The function of these proteins are unkown. The Caulobacter pilus assembly contains...; Region: CpaE_like; cd03111 930944007095 potential frameshift: common BLAST hit: gi|123443823|ref|YP_001007794.1| putative tight adherance operon protein 930944007096 Type II/IV secretion system protein; Region: T2SE; pfam00437 930944007097 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 930944007098 ATP binding site [chemical binding]; other site 930944007099 Walker A motif; other site 930944007100 hexamer interface [polypeptide binding]; other site 930944007101 Walker B motif; other site 930944007102 Flp pilus assembly protein TadB [Intracellular trafficking and secretion]; Region: TadB; COG4965 930944007103 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 930944007104 Flp pilus assembly protein TadC [Cell motility and secretion / Intracellular trafficking and secretion]; Region: TadC; COG2064 930944007105 Flp pilus assembly protein TadD, contains TPR repeats [Intracellular trafficking and secretion]; Region: TadD; COG5010 930944007106 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 930944007107 binding surface 930944007108 TPR motif; other site 930944007109 Flp pilus assembly protein TadG [Intracellular trafficking and secretion]; Region: TadG; COG4961 930944007110 Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b para-rossmann type of...; Region: vWFA; cl00057 930944007111 metal ion-dependent adhesion site (MIDAS); other site 930944007112 biopolymer transport protein ExbD; Provisional; Region: PRK11267 930944007113 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 930944007114 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 930944007115 cystathionine beta-lyase; Provisional; Region: PRK08114 930944007116 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 930944007117 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 930944007118 catalytic residue [active] 930944007119 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 930944007120 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 930944007121 AraC-type transcriptional regulator N-terminus; Region: AraC_N; pfam06719 930944007122 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 930944007123 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 930944007124 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 930944007125 Uncharacterized oxidoreductases, Fe-dependent alcohol dehydrogenase family [Energy production and conversion]; Region: COG1979 930944007126 Butanol dehydrogenase catalyzes the conversion of butyraldehyde to butanol with the cofactor NAD(P)H being oxidized in the process; Region: BDH; cd08187 930944007127 dimer interface [polypeptide binding]; other site 930944007128 active site 930944007129 metal binding site [ion binding]; metal-binding site 930944007130 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 930944007131 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 930944007132 active site 930944007133 catalytic tetrad [active] 930944007134 hypothetical protein; Provisional; Region: PRK01254 930944007135 Radical SAM N-terminal; Region: Radical_SAM_N; pfam08497 930944007136 Domain of unknown function (DUF3362); Region: DUF3362; pfam11842 930944007137 FtsI repressor; Provisional; Region: PRK10883 930944007138 Multicopper oxidase; Region: Cu-oxidase_3; pfam07732 930944007139 Multicopper oxidase; Region: Cu-oxidase_2; pfam07731 930944007140 1-acyl-sn-glycerol-3-phosphate acyltransferase; Provisional; Region: PRK15018 930944007141 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 930944007142 putative acyl-acceptor binding pocket; other site 930944007143 DNA topoisomerase IV subunit A; Validated; Region: PRK05561 930944007144 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 930944007145 CAP-like domain; other site 930944007146 active site 930944007147 primary dimer interface [polypeptide binding]; other site 930944007148 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 930944007149 Putative NADPH-quinone reductase (modulator of drug activity B) [General function prediction only]; Region: MdaB; COG2249 930944007150 Uncharacterized conserved protein [Function unknown]; Region: COG1359 930944007151 Transcriptional regulator [Transcription]; Region: LysR; COG0583 930944007152 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 930944007153 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 930944007154 dimerization interface [polypeptide binding]; other site 930944007155 DNA topoisomerase IV subunit B; Reviewed; Region: PRK05559 930944007156 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 930944007157 ATP binding site [chemical binding]; other site 930944007158 Mg2+ binding site [ion binding]; other site 930944007159 G-X-G motif; other site 930944007160 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 930944007161 anchoring element; other site 930944007162 dimer interface [polypeptide binding]; other site 930944007163 ATP binding site [chemical binding]; other site 930944007164 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 930944007165 active site 930944007166 metal binding site [ion binding]; metal-binding site 930944007167 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 930944007168 esterase YqiA; Provisional; Region: PRK11071 930944007169 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 930944007170 Enterobacter aerogenes GpdQ and related proteins, metallophosphatase domain; Region: MPP_GpdQ; cd07402 930944007171 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 930944007172 active site 930944007173 metal binding site [ion binding]; metal-binding site 930944007174 hexamer interface [polypeptide binding]; other site 930944007175 putative dehydrogenase; Provisional; Region: PRK11039 930944007176 ADP-ribose pyrophosphatase NudF; Provisional; Region: nudF; PRK10729 930944007177 ADP-ribose pyrophosphatase (ADPRase) catalyzes the hydrolysis of ADP-ribose and a variety of additional ADP-sugar conjugates to AMP and ribose-5-phosphate. Like other members of the Nudix hydrolase superfamily, it requires a divalent cation, such as Mg2+; Region: ADPRase_NUDT5; cd03424 930944007178 dimer interface [polypeptide binding]; other site 930944007179 ADP-ribose binding site [chemical binding]; other site 930944007180 active site 930944007181 nudix motif; other site 930944007182 metal binding site [ion binding]; metal-binding site 930944007183 outer membrane channel protein; Reviewed; Region: tolC; PRK09465 930944007184 hypothetical protein; Provisional; Region: PRK11653 930944007185 Glutathionylspermidine synthase [Amino acid transport and metabolism]; Region: Gsp; COG0754 930944007186 The Class III extradiol dioxygenase, 4,5-DOPA Dioxygenase, catalyzes the incorporation of both atoms of molecular oxygen into 4,5-dihydroxy-phenylalanine; Region: 45_DOPA_Dioxygenase; cd07363 930944007187 Catalytic LigB subunit of aromatic ring-opening dioxygenase; Region: LigB; pfam02900 930944007188 putative active site [active] 930944007189 metal binding site [ion binding]; metal-binding site 930944007190 3,4-dihydroxy-2-butanone 4-phosphate synthase; Provisional; Region: ribB; PRK03353 930944007191 3,4-dihydroxy-2-butanone 4-phosphate synthase [Coenzyme metabolism]; Region: RibB; COG0108 930944007192 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2960 930944007193 putative transporter; Provisional; Region: PRK11021 930944007194 bifunctional heptose 7-phosphate kinase/heptose 1-phosphate adenyltransferase; Provisional; Region: PRK11316 930944007195 RfaE encodes a bifunctional ADP-heptose synthase involved in the biosynthesis of the lipopolysaccharide (LPS) core precursor ADP-L-glycero-D-manno-heptose. LPS plays an important role in maintaining the structural integrity of the bacterial outer...; Region: RfaE_like; cd01172 930944007196 putative ribose interaction site [chemical binding]; other site 930944007197 putative ADP binding site [chemical binding]; other site 930944007198 rfaE bifunctional protein, domain II; Region: rfaE_dom_II; TIGR02199 930944007199 active site 930944007200 nucleotide binding site [chemical binding]; other site 930944007201 HIGH motif; other site 930944007202 KMSKS motif; other site 930944007203 bifunctional glutamine-synthetase adenylyltransferase/deadenyltransferase; Reviewed; Region: PRK11072 930944007204 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 930944007205 metal binding triad; other site 930944007206 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 930944007207 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 930944007208 metal binding triad; other site 930944007209 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 930944007210 Uncharacterized conserved protein [Function unknown]; Region: COG3025 930944007211 Uncharacterized subgroup of the CYTH-like superfamily having an associated CHAD domain; Region: CYTH-like_Pase_CHAD; cd07756 930944007212 putative active site [active] 930944007213 putative metal binding residues [ion binding]; other site 930944007214 signature motif; other site 930944007215 putative triphosphate binding site [ion binding]; other site 930944007216 SH3 domain-containing protein; Provisional; Region: PRK10884 930944007217 Bacterial SH3 domain homologues; Region: SH3b; smart00287 930944007218 multifunctional tRNA nucleotidyl transferase/2'3'-cyclic phosphodiesterase/2'nucleotidase/phosphatase; Reviewed; Region: cca; PRK10885 930944007219 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 930944007220 active site 930944007221 NTP binding site [chemical binding]; other site 930944007222 metal binding triad [ion binding]; metal-binding site 930944007223 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 930944007224 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 930944007225 Zn2+ binding site [ion binding]; other site 930944007226 Mg2+ binding site [ion binding]; other site 930944007227 undecaprenyl pyrophosphate phosphatase; Reviewed; Region: PRK00281 930944007228 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 930944007229 homooctamer interface [polypeptide binding]; other site 930944007230 active site 930944007231 putative glycerol-3-phosphate acyltransferase PlsY; Provisional; Region: PRK00220 930944007232 UGMP family protein; Validated; Region: PRK09604 930944007233 Inactive homolog of metal-dependent proteases, putative molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: COG1214; cl17884 930944007234 30S ribosomal protein S21; Reviewed; Region: rpsU; PRK00270 930944007235 DNA primase; Validated; Region: dnaG; PRK05667 930944007236 CHC2 zinc finger; Region: zf-CHC2; cl17510 930944007237 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 930944007238 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 930944007239 active site 930944007240 metal binding site [ion binding]; metal-binding site 930944007241 interdomain interaction site; other site 930944007242 DnaB-helicase binding domain of primase; Region: DnaB_bind; pfam10410 930944007243 DNA primase DnaG DnaB-binding; Region: DnaG_DnaB_bind; pfam08278 930944007244 RNA polymerase sigma factor RpoD; Validated; Region: PRK05658 930944007245 Sigma-70 factor, region 1.1; Region: Sigma70_r1_1; pfam03979 930944007246 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 930944007247 Sigma-70, non-essential region; Region: Sigma70_ner; pfam04546 930944007248 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 930944007249 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 930944007250 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 930944007251 DNA binding residues [nucleotide binding] 930944007252 potential frameshift: common BLAST hit: gi|332163183|ref|YP_004299760.1| putative transposase for IS1667 930944007253 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 930944007254 Transposase; Region: DEDD_Tnp_IS110; pfam01548 930944007255 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 930944007256 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 930944007257 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 930944007258 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl17173 930944007259 tail protein; Provisional; Region: D; PHA02561 930944007260 potential frameshift: common BLAST hit: gi|51596075|ref|YP_070266.1| phage tail protein 930944007261 Phage P2 GpU; Region: Phage_P2_GpU; cl01391 930944007262 Phage P2 GpU; Region: Phage_P2_GpU; pfam06995 930944007263 phage tail tape measure protein, TP901 family, core region; Region: tape_meas_TP901; TIGR01760 930944007264 Phage P2 GpE; Region: Phage_P2_GpE; pfam06528 930944007265 Mu-like prophage FluMu protein gp41; Region: FluMu_gp41; pfam10109 930944007266 major tail tube protein; Provisional; Region: FII; PHA02600 930944007267 major tail sheath protein; Provisional; Region: FI; PHA02560 930944007268 Phage tail-collar fibre protein; Region: DUF3751; pfam12571 930944007269 Phage tail fibre repeat; Region: Phage_fiber_2; pfam03406 930944007270 Bacteriophage P2-related tail formation protein [General function prediction only]; Region: gpI; COG4385 930944007271 baseplate assembly protein; Provisional; Region: J; PHA02568 930944007272 baseplate wedge subunit; Provisional; Region: W; PHA02516 930944007273 phage baseplate assembly protein V; Region: phage_P2_V; TIGR01644 930944007274 Phage P2 baseplate assembly protein gpV [General function prediction only]; Region: gpV; COG4540 930944007275 RT_Bac_retron_II: Reverse transcriptases (RTs) in bacterial retrotransposons or retrons. The polymerase reaction of this enzyme leads to the production of a unique RNA-DNA complex called msDNA (multicopy single-stranded (ss)DNA) in which a small ssDNA...; Region: RT_Bac_retron_II; cd03487 930944007276 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 930944007277 putative active site [active] 930944007278 putative NTP binding site [chemical binding]; other site 930944007279 putative nucleic acid binding site [nucleotide binding]; other site 930944007280 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 930944007281 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 930944007282 non-specific DNA binding site [nucleotide binding]; other site 930944007283 salt bridge; other site 930944007284 sequence-specific DNA binding site [nucleotide binding]; other site 930944007285 Phage virion morphogenesis family; Region: Phage_tail_S; pfam05069 930944007286 P2 phage tail completion protein R (GpR); Region: P2_Phage_GpR; pfam06891 930944007287 phage lysis regulatory protein, LysB family; Region: phage_LysB; TIGR03495 930944007288 Endolysins and autolysins are found in viruses and bacteria, respectively. The ds DNA phages of eubacteria use endolysins or muralytic enzymes in conjunction with hollin, a small membrane protein, to degrade the peptidoglycan found in bacterial cell...; Region: endolysin_autolysin; cd00737 930944007289 catalytic residues [active] 930944007290 Phage Tail Protein X; Region: Phage_tail_X; pfam05489 930944007291 Phage head completion protein (GPL); Region: Phage_GPL; pfam05926 930944007292 terminase endonuclease subunit; Provisional; Region: M; PHA02537 930944007293 Phage small terminase subunit; Region: Phage_term_smal; pfam05944 930944007294 capsid protein; Provisional; Region: N; PHA02538 930944007295 Phage capsid scaffolding protein (GPO) serine peptidase; Region: Phage_GPO; pfam05929 930944007296 terminase ATPase subunit; Provisional; Region: P; PHA02535 930944007297 Putative ATPase subunit of terminase (gpP-like); Region: Terminase_5; pfam06056 930944007298 Mu-like prophage FluMu protein gp28 [General function prediction only]; Region: COG4373 930944007299 terminase ATPase subunit; Provisional; Region: P; PHA02535 930944007300 portal vertex protein; Provisional; Region: Q; PHA02536 930944007301 Phage portal protein; Region: Phage_portal; pfam04860 930944007302 Bacteriophage replication gene A protein (GPA); Region: Phage_GPA; pfam05840 930944007303 Protein of unknown function (DUF2732); Region: DUF2732; pfam10809 930944007304 Protein of unknown function (DUF2724); Region: DUF2724; pfam10893 930944007305 Phage regulatory protein CII (CP76); Region: Phage_CP76; pfam06892 930944007306 integrase; Provisional; Region: int; PHA02601 930944007307 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 930944007308 active site 930944007309 DNA binding site [nucleotide binding] 930944007310 Int/Topo IB signature motif; other site 930944007311 Protein of unknown function (DUF1343); Region: DUF1343; cl01598 930944007312 Beta-glucosidase-related glycosidases [Carbohydrate transport and metabolism]; Region: BglX; COG1472 930944007313 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; pfam00933 930944007314 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 930944007315 putative DNA-binding transcriptional regulator; Provisional; Region: PRK11557 930944007316 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 930944007317 putative active site [active] 930944007318 N-acetylmuramic acid-6-phosphate etherase; Reviewed; Region: murQ; PRK05441 930944007319 N-acetylmuramic acid 6-phosphate etherase. Members of this family contain the SIS (Sugar ISomerase) domain. The SIS domain is found in many phosphosugar isomerases and phosphosugar binding proteins. The bacterial cell wall sugar N-acetylmuramic acid...; Region: SIS_Etherase; cd05007 930944007320 putative active site [active] 930944007321 PTS system N-acetylmuramic acid transporter subunits EIIBC; Reviewed; Region: murP; PRK09586 930944007322 PTS_IIB, PTS system, glucose/sucrose specific IIB subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIB_glc; cd00212 930944007323 active site turn [active] 930944007324 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 930944007325 glutaminase; Reviewed; Region: PRK12356 930944007326 Glutaminase [Amino acid transport and metabolism]; Region: GlsA; COG2066 930944007327 putative glutamate/gamma-aminobutyrate antiporter; Region: put_Glu_GABA_T; TIGR03813 930944007328 potential frameshift: common BLAST hit: gi|332163011|ref|YP_004299588.1| glutamate decarboxylase 930944007329 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 930944007330 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 930944007331 catalytic residue [active] 930944007332 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 930944007333 acid-resistance membrane protein; Provisional; Region: PRK10209 930944007334 Uncharacterized conserved protein [Function unknown]; Region: HdeD; COG3247 930944007335 O-acetylserine/cysteine export protein; Provisional; Region: PRK11453 930944007336 EamA-like transporter family; Region: EamA; pfam00892 930944007337 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 930944007338 2,4-dienoyl-CoA reductase (DCR) FMN-binding domain. DCR in E. coli is an iron-sulfur flavoenzyme which contains FMN, FAD, and a 4Fe-4S cluster. It is also a monomer, unlike that of its eukaryotic counterparts which form homotetramers and lack the...; Region: DCR_FMN; cd02930 930944007339 active site 930944007340 FMN binding site [chemical binding]; other site 930944007341 2,4-decadienoyl-CoA binding site; other site 930944007342 catalytic residue [active] 930944007343 4Fe-4S cluster binding site [ion binding]; other site 930944007344 Uncharacterized NAD(FAD)-dependent dehydrogenases [General function prediction only]; Region: HcaD; COG0446 930944007345 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 930944007346 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 930944007347 Transposase; Region: DEDD_Tnp_IS110; pfam01548 930944007348 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 930944007349 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 930944007350 SAM-dependent 23S ribosomal RNA mG1835 methyltransferase; Provisional; Region: PRK15001 930944007351 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 930944007352 S-adenosylmethionine binding site [chemical binding]; other site 930944007353 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 930944007354 Autotransporter beta-domain; Region: Autotransporter; pfam03797 930944007355 Autotransporter beta-domain; Region: Autotransporter; smart00869 930944007356 Predicted metal-dependent hydrolase [General function prediction only]; Region: COG1451 930944007357 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 930944007358 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 930944007359 integral membrane protein, TerC family; Region: R_switched_Alx; TIGR03718 930944007360 serine/threonine transporter SstT; Provisional; Region: PRK13628 930944007361 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 930944007362 Bacterial inner membrane protein; Region: Imp-YgjV; pfam10688 930944007363 Domains similar to fish antifreeze type III protein; Region: SAF_AH_GD; cd11613 930944007364 D-galactarate dehydratase / Altronate hydrolase, C terminus; Region: GD_AH_C; pfam04295 930944007365 altronate oxidoreductase; Provisional; Region: PRK03643 930944007366 Mannitol dehydrogenase Rossmann domain; Region: Mannitol_dh; pfam01232 930944007367 Mannitol dehydrogenase C-terminal domain; Region: Mannitol_dh_C; pfam08125 930944007368 Glucuronate isomerase; Region: UxaC; pfam02614 930944007369 Glucuronate isomerase [Carbohydrate transport and metabolism]; Region: UxaC; COG1904 930944007370 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 930944007371 D-galactonate transporter; Region: 2A0114; TIGR00893 930944007372 putative substrate translocation pore; other site 930944007373 DNA-binding transcriptional repressor ExuR; Provisional; Region: PRK11523 930944007374 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 930944007375 DNA-binding site [nucleotide binding]; DNA binding site 930944007376 FCD domain; Region: FCD; pfam07729 930944007377 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 930944007378 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 930944007379 EnvZ/OmpR regulon moderator; Provisional; Region: PRK10629 930944007380 Protein of unknown function (DUF1090); Region: DUF1090; pfam06476 930944007381 Uncharacterized conserved protein [Function unknown]; Region: ElaB; COG4575 930944007382 Predicted membrane protein [Function unknown]; Region: COG5393 930944007383 YqjK-like protein; Region: YqjK; pfam13997 930944007384 Predicted membrane protein [Function unknown]; Region: COG2259 930944007385 Predicted glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: ECM4; COG0435 930944007386 Glutathione S-transferase, N-terminal domain; Region: GST_N_2; pfam13409 930944007387 C-terminal, alpha helical domain of Class Omega-like Glutathione S-transferases; Region: GST_C_Omega_like; cd03190 930944007388 putative dimer interface [polypeptide binding]; other site 930944007389 N-terminal domain interface [polypeptide binding]; other site 930944007390 putative substrate binding pocket (H-site) [chemical binding]; other site 930944007391 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 930944007392 putative DNA-binding transcriptional regulator; Provisional; Region: PRK11074 930944007393 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 930944007394 dimerization interface [polypeptide binding]; other site 930944007395 Pirin-related protein [General function prediction only]; Region: COG1741 930944007396 Pirin; Region: Pirin; pfam02678 930944007397 potential frameshift: common BLAST hit: gi|123443906|ref|YP_001007877.1| NADP-dependent alcohol dehydrogenase 930944007398 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 930944007399 potential frameshift: common BLAST hit: gi|332163043|ref|YP_004299620.1| NADP-dependent alcohol dehydrogenase 930944007400 Zn-dependent alcohol dehydrogenases [General function prediction only]; Region: AdhP; COG1064 930944007401 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 930944007402 NAD(P) binding site [chemical binding]; other site 930944007403 Zn-dependent alcohol dehydrogenases [General function prediction only]; Region: AdhP; COG1064 930944007404 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 930944007405 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 930944007406 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 930944007407 active site 930944007408 catalytic tetrad [active] 930944007409 Transcriptional regulator [Transcription]; Region: LysR; COG0583 930944007410 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 930944007411 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 930944007412 putative effector binding pocket; other site 930944007413 putative dimerization interface [polypeptide binding]; other site 930944007414 P pilus assembly protein, pilin FimA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimA; COG3539 930944007415 P pilus assembly protein, porin PapC [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimD; COG3188 930944007416 PapC N-terminal domain; Region: PapC_N; pfam13954 930944007417 Type VII secretion system (T7SS), usher protein; Region: Usher; pfam00577 930944007418 PapC C-terminal domain; Region: PapC_C; pfam13953 930944007419 putative chaperone protein EcpD; Provisional; Region: PRK09926 930944007420 Gram-negative pili assembly chaperone, N-terminal domain; Region: Pili_assembly_N; pfam00345 930944007421 Gram-negative pili assembly chaperone, C-terminal domain; Region: Pili_assembly_C; pfam02753 930944007422 P pilus assembly protein, pilin FimA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimA; COG3539 930944007423 C-5 cytosine-specific DNA methylase; Region: DNA_methylase; pfam00145 930944007424 Cytosine-C5 specific DNA methylases; Methyl transfer reactions play an important role in many aspects of biology. Cytosine-specific DNA methylases are found both in prokaryotes and eukaryotes. DNA methylation, or the covalent addition of a methyl group...; Region: Cyt_C5_DNA_methylase; cd00315 930944007425 cofactor binding site; other site 930944007426 DNA binding site [nucleotide binding] 930944007427 substrate interaction site [chemical binding]; other site 930944007428 Cytosine-C5 specific DNA methylases; Methyl transfer reactions play an important role in many aspects of biology. Cytosine-specific DNA methylases are found both in prokaryotes and eukaryotes. DNA methylation, or the covalent addition of a methyl group...; Region: Cyt_C5_DNA_methylase; cd00315 930944007429 DNA replication protein [DNA replication, recombination, and repair]; Region: DnaC; COG1484 930944007430 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 930944007431 Walker A motif; other site 930944007432 ATP binding site [chemical binding]; other site 930944007433 Walker B motif; other site 930944007434 arginine finger; other site 930944007435 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 930944007436 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 930944007437 DNA-binding interface [nucleotide binding]; DNA binding site 930944007438 Integrase core domain; Region: rve; pfam00665 930944007439 SAM-dependent 16S ribosomal RNA C1402 ribose 2'-O-methyltransferase; Provisional; Region: PRK14994 930944007440 Ribosomal RNA small subunit methyltransferase I, also known as rRNA (cytidine-2'-O-)-methyltransferase RsmI; Region: RsmI; cd11648 930944007441 putative SAM binding site [chemical binding]; other site 930944007442 putative homodimer interface [polypeptide binding]; other site 930944007443 Putative lipoprotein [General function prediction only]; Region: LppC; COG3107 930944007444 Periplasmic binding component of lipoprotein LppC, an immunodominant antigen; Region: PBP1_YraM_LppC_lipoprotein_like; cd06339 930944007445 putative ligand binding site [chemical binding]; other site 930944007446 hypothetical protein; Reviewed; Region: PRK12497 930944007447 Phosphoheptose isomerase is a member of the SIS (Sugar ISomerase) superfamily. Phosphoheptose isomerase catalyzes the isomerization of sedoheptulose 7-phosphate into D-glycero-D-mannoheptose 7-phosphate. This is the first step of the biosynthesis of...; Region: SIS_GmhA; cd05006 930944007448 dimer interface [polypeptide binding]; other site 930944007449 active site 930944007450 outer membrane lipoprotein; Provisional; Region: PRK11023 930944007451 BON domain; Region: BON; pfam04972 930944007452 BON domain; Region: BON; pfam04972 930944007453 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 930944007454 Transposase; Region: DEDD_Tnp_IS110; pfam01548 930944007455 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 930944007456 monofunctional biosynthetic peptidoglycan transglycosylase; Provisional; Region: mtgA; PRK00056 930944007457 Transglycosylase; Region: Transgly; cl17702 930944007458 isoprenoid biosynthesis protein with amidotransferase-like domain; Provisional; Region: PRK11780 930944007459 Type 1 glutamine amidotransferase (GATase1)-like domain found in zebrafish ES1; Region: GATase1_ES1; cd03133 930944007460 conserved cys residue [active] 930944007461 aerobic respiration control sensor protein ArcB; Provisional; Region: PRK11091 930944007462 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 930944007463 putative active site [active] 930944007464 heme pocket [chemical binding]; other site 930944007465 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 930944007466 dimer interface [polypeptide binding]; other site 930944007467 phosphorylation site [posttranslational modification] 930944007468 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 930944007469 ATP binding site [chemical binding]; other site 930944007470 Mg2+ binding site [ion binding]; other site 930944007471 G-X-G motif; other site 930944007472 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 930944007473 active site 930944007474 phosphorylation site [posttranslational modification] 930944007475 intermolecular recognition site; other site 930944007476 dimerization interface [polypeptide binding]; other site 930944007477 Histidine Phosphotransfer domain, involved in signalling through a two part component systems in which an autophosphorylating histidine protein kinase serves as a phosphoryl donor to a response regulator protein; the response regulator protein is...; Region: HPT; cd00088 930944007478 putative binding surface; other site 930944007479 active site 930944007480 Predicted Fe-S oxidoreductase [General function prediction only]; Region: COG1242 930944007481 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 930944007482 FeS/SAM binding site; other site 930944007483 glutamate synthase subunit alpha; Provisional; Region: gltB; PRK11750 930944007484 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 930944007485 active site 930944007486 dimer interface [polypeptide binding]; other site 930944007487 Glutamate synthase central domain; Region: Glu_syn_central; pfam04898 930944007488 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 930944007489 active site 930944007490 FMN binding site [chemical binding]; other site 930944007491 substrate binding site [chemical binding]; other site 930944007492 3Fe-4S cluster binding site [ion binding]; other site 930944007493 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 930944007494 domain interface; other site 930944007495 glutamate synthase small subunit family protein, proteobacterial; Region: gltD_gamma_fam; TIGR01318 930944007496 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 930944007497 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 930944007498 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 930944007499 ClpXP protease specificity-enhancing factor; Provisional; Region: PRK11798 930944007500 stringent starvation protein A; Provisional; Region: sspA; PRK09481 930944007501 GST_N family, Stringent starvation protein A (SspA) subfamily; SspA is a RNA polymerase (RNAP)-associated protein required for the lytic development of phage P1 and for stationary phase-induced acid tolerance of E. coli. It is implicated in survival...; Region: GST_N_SspA; cd03059 930944007502 C-terminal domain interface [polypeptide binding]; other site 930944007503 putative GSH binding site (G-site) [chemical binding]; other site 930944007504 dimer interface [polypeptide binding]; other site 930944007505 C-terminal, alpha helical domain of Stringent starvation protein A; Region: GST_C_SspA; cd03186 930944007506 dimer interface [polypeptide binding]; other site 930944007507 N-terminal domain interface [polypeptide binding]; other site 930944007508 30S ribosomal protein S9; Reviewed; Region: rpsI; PRK00132 930944007509 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 930944007510 23S rRNA interface [nucleotide binding]; other site 930944007511 L3 interface [polypeptide binding]; other site 930944007512 Predicted ATPase [General function prediction only]; Region: COG1485 930944007513 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3105 930944007514 hypothetical protein; Provisional; Region: PRK11677 930944007515 serine endoprotease; Provisional; Region: PRK10139 930944007516 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 930944007517 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 930944007518 protein binding site [polypeptide binding]; other site 930944007519 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 930944007520 serine endoprotease; Provisional; Region: PRK10898 930944007521 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 930944007522 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 930944007523 protein binding site [polypeptide binding]; other site 930944007524 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Region: murA; TIGR01072 930944007525 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 930944007526 hinge; other site 930944007527 active site 930944007528 Predicted transcriptional regulator, BolA superfamily [Transcription]; Region: COG5007 930944007529 Sulphate Transporter and Anti-Sigma factor antagonist) domain of anti-anti-sigma factors, key regulators of anti-sigma factors by phosphorylation; Region: STAS_anti-anti-sigma_factors; cd07043 930944007530 anti sigma factor interaction site; other site 930944007531 regulatory phosphorylation site [posttranslational modification]; other site 930944007532 ABC transporter periplasmic binding protein MlaC; Provisional; Region: PRK15117 930944007533 ABC-type transport system involved in resistance to organic solvents, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2C; COG1463 930944007534 mce related protein; Region: MCE; pfam02470 930944007535 ABC-type transport system involved in resistance to organic solvents, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2B; COG0767 930944007536 conserved hypothetical integral membrane protein; Region: TIGR00056 930944007537 putative ABC transporter ATP-binding protein YrbF; Provisional; Region: PRK11831 930944007538 ATP-binding cassette transport system involved in resistant to organic solvents; Region: ABC_Org_Solvent_Resistant; cd03261 930944007539 Walker A/P-loop; other site 930944007540 ATP binding site [chemical binding]; other site 930944007541 Q-loop/lid; other site 930944007542 ABC transporter signature motif; other site 930944007543 Walker B; other site 930944007544 D-loop; other site 930944007545 H-loop/switch region; other site 930944007546 putative calcium/sodium:proton antiporter; Provisional; Region: PRK10734 930944007547 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 930944007548 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 930944007549 D-arabinose 5-phosphate isomerase; Provisional; Region: PRK10892 930944007550 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 930944007551 putative active site [active] 930944007552 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 930944007553 3-deoxy-D-manno-octulosonate 8-phosphate phosphatase; Provisional; Region: PRK09484 930944007554 HAD-superfamily hydrolase, subfamily IIIA; Region: HAD-SF-IIIA; TIGR01662 930944007555 lipopolysaccharide exporter periplasmic protein; Provisional; Region: PRK10893 930944007556 Lipopolysaccharide-assembly, LptC-related; Region: LptC; pfam06835 930944007557 lipopolysaccharide transport periplasmic protein LptA; Provisional; Region: PRK10894 930944007558 lipopolysaccharide transport periplasmic protein LptA; Region: outer_YhbN_LptA; TIGR03002 930944007559 lipopolysaccharide ABC transporter ATP-binding protein; Provisional; Region: PRK10895 930944007560 ATP-binding cassette component of YhbG transport system; Region: ABC_YhbG; cd03218 930944007561 Walker A/P-loop; other site 930944007562 ATP binding site [chemical binding]; other site 930944007563 Q-loop/lid; other site 930944007564 ABC transporter signature motif; other site 930944007565 Walker B; other site 930944007566 D-loop; other site 930944007567 H-loop/switch region; other site 930944007568 RNA polymerase factor sigma-54; Reviewed; Region: PRK05932 930944007569 Sigma-54 factor, Activator interacting domain (AID); Region: Sigma54_AID; pfam00309 930944007570 Sigma-54 factor, core binding domain; Region: Sigma54_CBD; pfam04963 930944007571 Sigma-54, DNA binding domain; Region: Sigma54_DBD; pfam04552 930944007572 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 930944007573 30S subunit binding site; other site 930944007574 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 930944007575 active site 930944007576 phosphorylation site [posttranslational modification] 930944007577 P-loop ATPase protein family; Region: ATP_bind_2; pfam03668 930944007578 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 930944007579 regulatory protein interface [polypeptide binding]; other site 930944007580 regulatory phosphorylation site [posttranslational modification]; other site 930944007581 Aspartate carbamoyltransferase, catalytic chain [Nucleotide transport and metabolism]; Region: PyrB; COG0540 930944007582 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 930944007583 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 930944007584 aspartate carbamoyltransferase regulatory subunit; Reviewed; Region: PRK00893 930944007585 Aspartate carbamoyltransferase regulatory chain, allosteric domain; Region: PyrI; pfam01948 930944007586 Aspartate carbamoyltransferase regulatory chain, metal binding domain; Region: PyrI_C; pfam02748 930944007587 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 930944007588 homotrimer interaction site [polypeptide binding]; other site 930944007589 putative active site [active] 930944007590 Uncharacterized conserved protein [Function unknown]; Region: COG2308 930944007591 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2307 930944007592 A predicted alpha-helical domain with a conserved ER motif; Region: Alpha-E; pfam04168 930944007593 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 930944007594 Bacterial transglutaminase-like N-terminal region; Region: Bact_transglu_N; pfam08379 930944007595 Transglutaminase-like superfamily; Region: Transglut_core; pfam01841 930944007596 Predicted proteasome-type protease [Posttranslational modification, protein turnover, chaperones]; Region: COG3484 930944007597 Bacterial proteasome, beta subunit. The 20S proteasome, multisubunit proteolytic complex, is the central enzyme of nonlysosomal protein degradation in both the cytosol and nucleus. It is composed of 28 subunits arranged as four homoheptameric rings that...; Region: proteasome_beta_bacterial; cd03765 930944007598 trehalose-6-phosphate hydrolase; Provisional; Region: PRK10933 930944007599 Alpha amylase catalytic domain found in Sucrose isomerases, oligo-1,6-glucosidase (also called isomaltase; sucrase-isomaltase; alpha-limit dextrinase), dextran glucosidase (also called glucan 1,6-alpha-glucosidase), and related proteins; Region: AmyAc_SI_OligoGlu_DGase; cd11333 930944007600 Ca binding site [ion binding]; other site 930944007601 active site 930944007602 catalytic site [active] 930944007603 PTS system trehalose(maltose)-specific transporter subunits IIBC; Provisional; Region: PRK11007 930944007604 PTS_IIB, PTS system, glucose/sucrose specific IIB subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIB_glc; cd00212 930944007605 active site turn [active] 930944007606 phosphorylation site [posttranslational modification] 930944007607 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 930944007608 trehalose repressor; Provisional; Region: treR; PRK09492 930944007609 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 930944007610 DNA binding site [nucleotide binding] 930944007611 domain linker motif; other site 930944007612 Ligand-binding domain of DNA transcription repressor specific for trehalose (TreR) which is a member of the LacI-GalR family of bacterial transcription regulators; Region: PBP1_TreR_like; cd01542 930944007613 dimerization interface [polypeptide binding]; other site 930944007614 ligand binding site [chemical binding]; other site 930944007615 magnesium-transporting ATPase MgtA; Provisional; Region: PRK10517 930944007616 Cation transporter/ATPase, N-terminus; Region: Cation_ATPase_N; pfam00690 930944007617 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 930944007618 Putative hydrolase of sodium-potassium ATPase alpha subunit; Region: Hydrolase_like2; pfam13246 930944007619 Soluble P-type ATPase [General function prediction only]; Region: COG4087 930944007620 Cation transporting ATPase, C-terminus; Region: Cation_ATPase_C; pfam00689 930944007621 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 930944007622 Transcriptional antiterminator [Transcription]; Region: BglG; COG3711 930944007623 HTH domain; Region: HTH_11; pfam08279 930944007624 Mga helix-turn-helix domain; Region: Mga; pfam05043 930944007625 PRD domain; Region: PRD; pfam00874 930944007626 PTS_IIB_bgl_like: the PTS (phosphotransferase system) IIB domain of a family of sensory systems composed of a membrane-bound sugar-sensor (similar to BglF) and a transcription antiterminator (similar to BglG) which regulate expression of genes involved...; Region: PTS_IIB_bgl_like; cd05568 930944007627 active site 930944007628 P-loop; other site 930944007629 phosphorylation site [posttranslational modification] 930944007630 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 930944007631 active site 930944007632 phosphorylation site [posttranslational modification] 930944007633 Lactonase, 7-bladed beta-propeller; Region: Lactonase; pfam10282 930944007634 Protein of unknown function (DUF1341); Region: DUF1341; cl06211 930944007635 Protein of unknown function (DUF1341); Region: DUF1341; pfam07071 930944007636 uncharacterized pyridoxal phosphate-dependent enzyme; Region: selA_rel; TIGR01437 930944007637 dihydroorotase; Provisional; Region: PRK09237 930944007638 Metallo-dependent hydrolases, subgroup B 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_B; cd01307 930944007639 active site 930944007640 conserved hypothetical protein EF_0833/AHA_3914; Region: EF_0833; TIGR03579 930944007641 conserved hypothetical protein EF_0832/AHA_3913; Region: EF_0832; TIGR03580 930944007642 Domain of unknown function (DUF4312); Region: DUF4312; pfam14189 930944007643 Glycine-rich SFCGS; Region: Gly_rich_SFCGS; pfam14272 930944007644 PRD domain protein EF_0829/AHA_3910; Region: EF_0829; TIGR03582 930944007645 nucleoside diphosphate kinase regulator; Provisional; Region: PRK05753 930944007646 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 930944007647 Cytochrome b562; Region: Cytochrom_B562; cl01546 930944007648 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 930944007649 Transposase; Region: DEDD_Tnp_IS110; pfam01548 930944007650 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 930944007651 peptidase PmbA; Provisional; Region: PRK11040 930944007652 hypothetical protein; Provisional; Region: PRK05255 930944007653 Barstar is an intracellular inhibitor of barnase, an extracellular ribonuclease of Bacillus amyloliquefaciens. Barstar binds tightly to the barnase active site and sterically blocks it thus inhibiting its potentially lethal RNase activity inside the cell; Region: Barstar; cd05142 930944007654 RNAase interaction site [polypeptide binding]; other site 930944007655 Barnase, a member of the family of homologous microbial ribonucleases, catalyses the cleavage of single-stranded RNA via a two-step mechanism thought to be similar to that of pancreatic ribonuclease. The mechanism involves a transesterification to give a...; Region: barnase; cd00933 930944007656 active site 930944007657 succinic semialdehyde dehydrogenase; Region: PLN02278 930944007658 Mitochondrial succinate-semialdehyde dehydrogenase and ALDH family members 5A1 and 5F1-like; Region: ALDH_F5_SSADH_GabD; cd07103 930944007659 tetramerization interface [polypeptide binding]; other site 930944007660 NAD(P) binding site [chemical binding]; other site 930944007661 catalytic residues [active] 930944007662 p-hydroxybenzoic acid efflux subunit AaeB; Provisional; Region: PRK10631 930944007663 p-hydroxybenzoic acid efflux subunit AaeA; Provisional; Region: PRK10559 930944007664 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 930944007665 HlyD family secretion protein; Region: HlyD_3; pfam13437 930944007666 efflux system membrane protein; Provisional; Region: PRK11594 930944007667 transcriptional regulator; Provisional; Region: PRK10632 930944007668 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 930944007669 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 930944007670 putative effector binding pocket; other site 930944007671 dimerization interface [polypeptide binding]; other site 930944007672 Transcriptional regulator [Transcription]; Region: LysR; COG0583 930944007673 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 930944007674 Salmonella virulence plasmid 28.1kDa A protein; Region: VRP1; pfam03538 930944007675 potential frameshift: common BLAST hit: gi|332163133|ref|YP_004299710.1| putative insecticidal toxin complex protein 930944007676 Salmonella virulence plasmid 65kDa B protein; Region: SpvB; pfam03534 930944007677 Family description; Region: VCBS; pfam13517 930944007678 Insecticide toxin TcdB middle/N-terminal region; Region: TcdB_toxin_midN; pfam12256 930944007679 Insecticide toxin TcdB middle/C-terminal region; Region: TcdB_toxin_midC; pfam12255 930944007680 D-alanyl-D-alanine carboxypeptidase; Region: Peptidase_M15_4; pfam13539 930944007681 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 930944007682 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 930944007683 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 930944007684 non-specific DNA binding site [nucleotide binding]; other site 930944007685 salt bridge; other site 930944007686 sequence-specific DNA binding site [nucleotide binding]; other site 930944007687 HipA N-terminal domain; Region: Couple_hipA; pfam13657 930944007688 HipA-like N-terminal domain; Region: HipA_N; pfam07805 930944007689 HipA-like C-terminal domain; Region: HipA_C; pfam07804 930944007690 protease TldD; Provisional; Region: tldD; PRK10735 930944007691 nitrilase; Region: PLN02798 930944007692 Nit1, Nit 2, and related proteins, and the Nit1-like domain of NitFhit (class 10 nitrilases); Region: nit; cd07572 930944007693 putative active site [active] 930944007694 catalytic triad [active] 930944007695 dimer interface [polypeptide binding]; other site 930944007696 hypothetical protein; Provisional; Region: PRK10899 930944007697 AsmA-like C-terminal region; Region: AsmA_2; pfam13502 930944007698 ribonuclease G; Provisional; Region: PRK11712 930944007699 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 930944007700 homodimer interface [polypeptide binding]; other site 930944007701 oligonucleotide binding site [chemical binding]; other site 930944007702 Maf-like protein; Region: Maf; pfam02545 930944007703 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 930944007704 active site 930944007705 dimer interface [polypeptide binding]; other site 930944007706 rod shape-determining protein MreD; Provisional; Region: PRK11060 930944007707 rod shape-determining protein MreC; Region: mreC; TIGR00219 930944007708 Regulator of replication initiation timing [Replication, recombination, and repair]; Region: COG4467; cl01853 930944007709 rod shape-determining protein MreC; Region: MreC; pfam04085 930944007710 rod shape-determining protein MreB; Provisional; Region: PRK13927 930944007711 MreB and similar proteins; Region: MreB_like; cd10225 930944007712 nucleotide binding site [chemical binding]; other site 930944007713 Mg binding site [ion binding]; other site 930944007714 putative protofilament interaction site [polypeptide binding]; other site 930944007715 RodZ interaction site [polypeptide binding]; other site 930944007716 regulatory protein CsrD; Provisional; Region: PRK11059 930944007717 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 930944007718 metal binding site [ion binding]; metal-binding site 930944007719 active site 930944007720 I-site; other site 930944007721 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 930944007722 Yhdh putative quinone oxidoreductases; Region: MDR_yhdh; cd08288 930944007723 putative quinone oxidoreductase, YhdH/YhfP family; Region: oxido_YhdH; TIGR02823 930944007724 NADP binding site [chemical binding]; other site 930944007725 dimer interface [polypeptide binding]; other site 930944007726 TMAO/DMSO reductase; Reviewed; Region: PRK05363 930944007727 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 930944007728 Moco binding site; other site 930944007729 metal coordination site [ion binding]; other site 930944007730 putative sulfite oxidase subunit YedZ; Reviewed; Region: PRK05419 930944007731 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 930944007732 Dehydroquinase class II; Region: DHquinase_II; pfam01220 930944007733 active site 930944007734 trimer interface [polypeptide binding]; other site 930944007735 dimer interface [polypeptide binding]; other site 930944007736 acetyl-CoA carboxylase biotin carboxyl carrier protein subunit; Validated; Region: PRK06302 930944007737 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 930944007738 carboxyltransferase (CT) interaction site; other site 930944007739 biotinylation site [posttranslational modification]; other site 930944007740 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK08591 930944007741 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 930944007742 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 930944007743 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 930944007744 hypothetical protein; Provisional; Region: PRK10633 930944007745 Predicted symporter [General function prediction only]; Region: DhlC; COG4147 930944007746 Na(+)/pantothenate cotransporters: PanF of Escherichia coli and related proteins; solute binding domain; Region: SLC5sbd_PanF; cd10327 930944007747 Na binding site [ion binding]; other site 930944007748 Ribosomal protein L11 methyltransferase (PrmA); Region: PrmA; pfam06325 930944007749 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl17173 930944007750 Dihydrouridine synthase (Dus); Region: Dus; pfam01207 930944007751 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 930944007752 FMN binding site [chemical binding]; other site 930944007753 active site 930944007754 catalytic residues [active] 930944007755 substrate binding site [chemical binding]; other site 930944007756 Factor for inversion stimulation Fis, transcriptional activator [Transcription / DNA replication, recombination, and repair]; Region: Fis; COG2901 930944007757 global DNA-binding transcriptional dual regulator Fis; Provisional; Region: fis; PRK00430 930944007758 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 930944007759 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 930944007760 metal binding site [ion binding]; metal-binding site 930944007761 active site 930944007762 I-site; other site 930944007763 Outer membrane lipoprotein [Cell envelope biogenesis, outer membrane]; Region: SlyB; COG3133 930944007764 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 930944007765 DNA-binding site [nucleotide binding]; DNA binding site 930944007766 RNA-binding motif; other site 930944007767 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 930944007768 DNA-binding site [nucleotide binding]; DNA binding site 930944007769 RNA-binding motif; other site 930944007770 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 930944007771 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cd00625 930944007772 transmembrane helices; other site 930944007773 Bacterial lipid A biosynthesis acyltransferase; Region: Lip_A_acyltrans; pfam03279 930944007774 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 930944007775 putative acyl-acceptor binding pocket; other site 930944007776 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 930944007777 Transposase; Region: DEDD_Tnp_IS110; pfam01548 930944007778 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 930944007779 PhoPQ-activated pathogenicity-related protein; Region: PhoPQ_related; cl01750 930944007780 Bacterial periplasmic substrate-binding proteins; Region: PBPb; smart00062 930944007781 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 930944007782 substrate binding pocket [chemical binding]; other site 930944007783 membrane-bound complex binding site; other site 930944007784 hinge residues; other site 930944007785 ABC-type amino acid transport system, permease component [Amino acid transport and metabolism]; Region: BatB; COG4597 930944007786 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 930944007787 conserved gate region; other site 930944007788 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 930944007789 dimer interface [polypeptide binding]; other site 930944007790 conserved gate region; other site 930944007791 putative PBP binding loops; other site 930944007792 ABC-ATPase subunit interface; other site 930944007793 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 930944007794 dimer interface [polypeptide binding]; other site 930944007795 conserved gate region; other site 930944007796 putative PBP binding loops; other site 930944007797 ABC-ATPase subunit interface; other site 930944007798 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 930944007799 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 930944007800 Walker A/P-loop; other site 930944007801 ATP binding site [chemical binding]; other site 930944007802 Q-loop/lid; other site 930944007803 ABC transporter signature motif; other site 930944007804 Walker B; other site 930944007805 D-loop; other site 930944007806 H-loop/switch region; other site 930944007807 Putative effector of murein hydrolase [Cell envelope biogenesis, outer membrane]; Region: LrgB; COG1346 930944007808 Putative effector of murein hydrolase LrgA [General function prediction only]; Region: COG1380 930944007809 Transcriptional regulator [Transcription]; Region: LysR; COG0583 930944007810 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 930944007811 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 930944007812 dimerization interface [polypeptide binding]; other site 930944007813 Na+/H+ antiporter, bacterial form; Region: a_cpa1; TIGR00831 930944007814 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 930944007815 Xanthine/uracil/vitamin C permease [Nucleotide transport and metabolism]; Region: COG2252 930944007816 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 930944007817 GST_N family, Saccharomyces cerevisiae GTT1-like subfamily; composed of predominantly uncharacterized proteins with similarity to the S. cerevisiae GST protein, GTT1, and the Schizosaccharomyces pombe GST-III. GSTs are cytosolic dimeric proteins involved...; Region: GST_N_GTT1_like; cd03046 930944007818 putative C-terminal domain interface [polypeptide binding]; other site 930944007819 putative GSH binding site (G-site) [chemical binding]; other site 930944007820 putative dimer interface [polypeptide binding]; other site 930944007821 C-terminal, alpha helical domain of GTT1-like Glutathione S-transferases; Region: GST_C_GTT1_like; cd03189 930944007822 putative N-terminal domain interface [polypeptide binding]; other site 930944007823 putative dimer interface [polypeptide binding]; other site 930944007824 putative substrate binding pocket (H-site) [chemical binding]; other site 930944007825 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 930944007826 salt bridge; other site 930944007827 non-specific DNA binding site [nucleotide binding]; other site 930944007828 sequence-specific DNA binding site [nucleotide binding]; other site 930944007829 HipA N-terminal domain; Region: Couple_hipA; pfam13657 930944007830 Toxin module HipA, protein kinase of phosphatidylinositol 3/4-kinase superfamily [General function prediction only]; Region: HipA; COG3550 930944007831 HipA-like N-terminal domain; Region: HipA_N; pfam07805 930944007832 HipA-like C-terminal domain; Region: HipA_C; pfam07804 930944007833 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 930944007834 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 930944007835 dimer interface [polypeptide binding]; other site 930944007836 ssDNA binding site [nucleotide binding]; other site 930944007837 tetramer (dimer of dimers) interface [polypeptide binding]; other site 930944007838 Replication protein A, class 2b aminoacyl-tRNA synthetases, and related proteins with oligonucleotide/oligosaccharide (OB) fold; Region: RPA_2b-aaRSs_OBF_like; cl09930 930944007839 excinuclease ABC subunit A; Reviewed; Region: uvrA; PRK00349 930944007840 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 930944007841 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 930944007842 ATP-binding cassette domain II of the excision repair protein UvrA; Region: ABC_UvrA_II; cd03271 930944007843 Uncharacterized protein conserved in bacteria [Function unknown]; Region: MmcQ; COG2315 930944007844 aromatic amino acid aminotransferase; Provisional; Region: PRK09257 930944007845 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 930944007846 pyridoxal 5'-phosphate binding site [chemical binding]; other site 930944007847 homodimer interface [polypeptide binding]; other site 930944007848 catalytic residue [active] 930944007849 alanine racemase; Reviewed; Region: alr; PRK00053 930944007850 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, Proteobacterial Alanine Racemases; Region: PLPDE_III_AR_proteobact; cd06827 930944007851 active site 930944007852 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 930944007853 substrate binding site [chemical binding]; other site 930944007854 catalytic residues [active] 930944007855 dimer interface [polypeptide binding]; other site 930944007856 replicative DNA helicase; Provisional; Region: PRK08006 930944007857 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 930944007858 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 930944007859 Walker A motif; other site 930944007860 ATP binding site [chemical binding]; other site 930944007861 Walker B motif; other site 930944007862 DNA binding loops [nucleotide binding] 930944007863 quinone oxidoreductase, NADPH-dependent; Provisional; Region: PRK10754 930944007864 Quinone oxidoreductase (QOR); Region: QOR2; cd05286 930944007865 NADP binding site [chemical binding]; other site 930944007866 dimer interface [polypeptide binding]; other site 930944007867 Phage shock protein G (Phageshock_PspG); Region: Phageshock_PspG; cl11511 930944007868 tRNA-dihydrouridine synthase A; Provisional; Region: PRK11815 930944007869 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 930944007870 FMN binding site [chemical binding]; other site 930944007871 active site 930944007872 catalytic residues [active] 930944007873 substrate binding site [chemical binding]; other site 930944007874 Predicted acyltransferases [Lipid metabolism]; Region: COG1835 930944007875 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 930944007876 metal binding site 2 [ion binding]; metal-binding site 930944007877 putative DNA binding helix; other site 930944007878 metal binding site 1 [ion binding]; metal-binding site 930944007879 dimer interface [polypeptide binding]; other site 930944007880 structural Zn2+ binding site [ion binding]; other site 930944007881 hypothetical protein; Provisional; Region: PRK10428 930944007882 LexA repressor; Validated; Region: PRK00215 930944007883 LexA DNA binding domain; Region: LexA_DNA_bind; pfam01726 930944007884 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 930944007885 Catalytic site [active] 930944007886 Diacylglycerol kinase [Cell envelope biogenesis, outer membrane]; Region: DgkA; COG0818 930944007887 glycerol-3-phosphate O-acyltransferase; Region: plsB; TIGR03703 930944007888 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: GPAT-like; Region: LPLAT_DHAPAT-like; cd07993 930944007889 putative acyl-acceptor binding pocket; other site 930944007890 4-hydroxybenzoate octaprenyltransferase; Reviewed; Region: ubiA; PRK12848 930944007891 UbiA prenyltransferase family; Region: UbiA; pfam01040 930944007892 chorismate pyruvate lyase; Provisional; Region: ubiC; PRK11655 930944007893 Serine/threonine protein kinase [General function prediction only / Signal transduction mechanisms / Transcription / DNA replication, recombination, and repair]; Region: SPS1; COG0515 930944007894 maltose regulon periplasmic protein; Provisional; Region: PRK10564 930944007895 The Maltoporin-like channels (LamB porin) form a trimeric structure which facilitate the diffusion of maltodextrins and other sugars across the outer membrane of Gram-negative bacteria. The membrane channel is formed by an 18-strand antiparallel...; Region: Maltoporin-like; cd01346 930944007896 trimer interface; other site 930944007897 sugar binding site [chemical binding]; other site 930944007898 maltose/maltodextrin transporter ATP-binding protein; Provisional; Region: PRK11000 930944007899 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 930944007900 Walker A/P-loop; other site 930944007901 ATP binding site [chemical binding]; other site 930944007902 Q-loop/lid; other site 930944007903 ABC transporter signature motif; other site 930944007904 Walker B; other site 930944007905 D-loop; other site 930944007906 H-loop/switch region; other site 930944007907 TOBE domain; Region: TOBE; cl01440 930944007908 TOBE domain; Region: TOBE_2; pfam08402 930944007909 maltose ABC transporter periplasmic protein; Reviewed; Region: malE; PRK09474 930944007910 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 930944007911 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 930944007912 dimer interface [polypeptide binding]; other site 930944007913 conserved gate region; other site 930944007914 putative PBP binding loops; other site 930944007915 ABC-ATPase subunit interface; other site 930944007916 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 930944007917 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 930944007918 dimer interface [polypeptide binding]; other site 930944007919 conserved gate region; other site 930944007920 putative PBP binding loops; other site 930944007921 ABC-ATPase subunit interface; other site 930944007922 phosphate-starvation-inducible protein PsiE; Provisional; Region: PRK02833 930944007923 glucose-6-phosphate isomerase; Reviewed; Region: pgi; PRK00179 930944007924 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 930944007925 active site 930944007926 dimer interface [polypeptide binding]; other site 930944007927 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 930944007928 dimer interface [polypeptide binding]; other site 930944007929 active site 930944007930 aspartate kinase III; Validated; Region: PRK09084 930944007931 Amino Acid Kinases (AAK) superfamily, catalytic domain; present in such enzymes like N-acetylglutamate kinase (NAGK), carbamate kinase (CK), aspartokinase (AK), glutamate-5-kinase (G5K) and UMP kinase (UMPK). The AAK superfamily includes kinases that...; Region: AAK; cl00452 930944007932 nucleotide binding site [chemical binding]; other site 930944007933 substrate binding site [chemical binding]; other site 930944007934 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 930944007935 ACT domains located C-terminal to the catalytic domain of the lysine-sensitive aspartokinase isoenzyme AKIII; Region: ACT_AKiii-LysC-EC_2; cd04917 930944007936 dimer interface [polypeptide binding]; other site 930944007937 Predicted Na+-dependent transporter [General function prediction only]; Region: COG0385 930944007938 Sodium Bile acid symporter family; Region: SBF; pfam01758 930944007939 Hemolysin activation/secretion protein [Intracellular trafficking and secretion]; Region: FhaC; COG2831 930944007940 POTRA domain, ShlB-type; Region: POTRA_2; pfam08479 930944007941 Haemolysin secretion/activation protein ShlB/FhaC/HecB; Region: ShlB; pfam03865 930944007942 haemagglutination activity domain; Region: Haemagg_act; pfam05860 930944007943 Haemagluttinin repeat; Region: Fil_haemagg_2; pfam13332 930944007944 Haemagluttinin repeat; Region: Fil_haemagg_2; pfam13332 930944007945 Haemagluttinin repeat; Region: Fil_haemagg_2; pfam13332 930944007946 Haemagluttinin repeat; Region: Fil_haemagg_2; pfam13332 930944007947 Haemagluttinin repeat; Region: Fil_haemagg_2; pfam13332 930944007948 B12-dependent methionine synthase; Provisional; Region: metH; PRK09490 930944007949 Methionine synthase I (cobalamin-dependent), methyltransferase domain [Amino acid transport and metabolism]; Region: MetH; COG0646 930944007950 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 930944007951 substrate binding pocket [chemical binding]; other site 930944007952 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 930944007953 B12 binding site [chemical binding]; other site 930944007954 cobalt ligand [ion binding]; other site 930944007955 Vitamin B12 dependent methionine synthase, activation domain; Region: Met_synt_B12; pfam02965 930944007956 transcriptional repressor IclR; Provisional; Region: PRK11569 930944007957 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 930944007958 Bacterial transcriptional regulator; Region: IclR; pfam01614 930944007959 Isocitrate dehydrogenase kinase/phosphatase [Signal transduction mechanisms]; Region: COG4579 930944007960 bifunctional isocitrate dehydrogenase kinase/phosphatase protein; Validated; Region: aceK; PRK02946 930944007961 isocitrate lyase; Provisional; Region: PRK15063 930944007962 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 930944007963 tetramer interface [polypeptide binding]; other site 930944007964 active site 930944007965 Mg2+/Mn2+ binding site [ion binding]; other site 930944007966 Malate synthase A (MSA), present in some bacteria, plants and fungi. Prokaryotic MSAs tend to be monomeric, whereas eukaryotic enzymes are homomultimers. In general, malate synthase catalyzes the Claisen condensation of glyoxylate and acetyl-CoA to...; Region: malate_synt_A; cd00727 930944007967 malate synthase A; Region: malate_syn_A; TIGR01344 930944007968 active site 930944007969 homoserine O-succinyltransferase; Provisional; Region: PRK05368 930944007970 Type 1 glutamine amidotransferase (GATase1)-like domain found in homoserine trans-succinylase (HTS); Region: GATase1_HTS; cd03131 930944007971 proposed active site lysine [active] 930944007972 conserved cys residue [active] 930944007973 Transposase; Region: DEDD_Tnp_IS110; pfam01548 930944007974 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 930944007975 glutamate racemase; Provisional; Region: PRK00865 930944007976 vitamin B12/cobalamin outer membrane transporter; Provisional; Region: btuB; PRK10641 930944007977 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 930944007978 N-terminal plug; other site 930944007979 ligand-binding site [chemical binding]; other site 930944007980 tRNA (uracil-5-)-methyltransferase; Validated; Region: PRK05031 930944007981 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 930944007982 S-adenosylmethionine binding site [chemical binding]; other site 930944007983 hypothetical protein; Provisional; Region: PRK11056 930944007984 DNA-binding transcriptional repressor FabR; Provisional; Region: PRK11202 930944007985 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 930944007986 soluble pyridine nucleotide transhydrogenase; Provisional; Region: PRK05249 930944007987 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 930944007988 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 930944007989 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 930944007990 DNA-binding transcriptional regulator OxyR; Provisional; Region: PRK11151 930944007991 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 930944007992 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 930944007993 dimerization interface [polypeptide binding]; other site 930944007994 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 930944007995 catalytic triad [active] 930944007996 dimer interface [polypeptide binding]; other site 930944007997 Glutaredoxin (GRX) family, PRX5 hybrid subfamily; composed of hybrid proteins containing peroxiredoxin (PRX) and GRX domains, which is found in some pathogenic bacteria and cyanobacteria. PRXs are thiol-specific antioxidant (TSA) proteins that confer a...; Region: GRX_hybridPRX5; cd03029 930944007998 GSH binding site [chemical binding]; other site 930944007999 catalytic residues [active] 930944008000 dihydrolipoamide dehydrogenase; Validated; Region: PRK06292 930944008001 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 930944008002 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 930944008003 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 930944008004 Periplasmic protein TonB, links inner and outer membranes [Cell envelope biogenesis, outer membrane]; Region: TonB; COG0810 930944008005 Gram-negative bacterial tonB protein; Region: TonB; pfam03544 930944008006 type I secretion membrane fusion protein, HlyD family; Region: type_I_hlyD; TIGR01843 930944008007 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 930944008008 HlyD family secretion protein; Region: HlyD_3; pfam13437 930944008009 ABC-type protease/lipase transport system, ATPase and permease components [General function prediction only]; Region: ArpD; COG4618 930944008010 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 930944008011 ATP-binding cassette domain of PrtD, subfamily C; Region: ABCC_Protease_Secretion; cd03246 930944008012 Walker A/P-loop; other site 930944008013 ATP binding site [chemical binding]; other site 930944008014 Q-loop/lid; other site 930944008015 ABC transporter signature motif; other site 930944008016 Walker B; other site 930944008017 D-loop; other site 930944008018 H-loop/switch region; other site 930944008019 Heme-binding protein A (HasA); Region: HasA; pfam06438 930944008020 Heme-binding protein A (HasA); Region: HasA; pfam06438 930944008021 Heme-binding protein A (HasA); Region: HasA; pfam06438 930944008022 Heme-binding protein A (HasA); Region: HasA; pfam06438 930944008023 TonB-dependent heme/hemoglobin receptor family protein; Region: TonB-hemin; TIGR01785 930944008024 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 930944008025 N-terminal plug; other site 930944008026 ligand-binding site [chemical binding]; other site 930944008027 argininosuccinate lyase; Provisional; Region: PRK04833 930944008028 Argininosuccinate lyase (argininosuccinase, ASAL); Region: Argininosuccinate_lyase; cd01359 930944008029 active sites [active] 930944008030 tetramer interface [polypeptide binding]; other site 930944008031 AAK_NAGK-NC: N-Acetyl-L-glutamate kinase - noncyclic (NAGK-NC) catalyzes the phosphorylation of the gamma-COOH group of N-acetyl-L-glutamate (NAG) by ATP in the second step of microbial arginine biosynthesis using the acetylated, noncyclic route of...; Region: AAK_NAGK-NC; cd04249 930944008032 nucleotide binding site [chemical binding]; other site 930944008033 N-acetyl-L-glutamate binding site [chemical binding]; other site 930944008034 N-acetyl-gamma-glutamyl-phosphate reductase; Validated; Region: argC; PRK00436 930944008035 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 930944008036 acetylornithine deacetylase; Provisional; Region: PRK05111 930944008037 M20 Peptidase acetylornithine deacetylase; Region: M20_ArgE; cd03894 930944008038 metal binding site [ion binding]; metal-binding site 930944008039 putative dimer interface [polypeptide binding]; other site 930944008040 phosphoenolpyruvate carboxylase; Reviewed; Region: PRK00009 930944008041 Phosphoenolpyruvate carboxylase [Energy production and conversion]; Region: Ppc; COG2352 930944008042 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 930944008043 FAD binding site [chemical binding]; other site 930944008044 bifunctional aspartate kinase II/homoserine dehydrogenase II; Provisional; Region: metL; PRK09466 930944008045 AAK_AK-HSDH: Amino Acid Kinase Superfamily (AAK), AK-HSDH; this CD includes the N-terminal catalytic domain of aspartokinase (AK) of the bifunctional enzyme AK - homoserine dehydrogenase (HSDH). These aspartokinases are found in bacteria (E. coli...; Region: AAK_AK-HSDH; cd04257 930944008046 putative catalytic residues [active] 930944008047 putative nucleotide binding site [chemical binding]; other site 930944008048 putative aspartate binding site [chemical binding]; other site 930944008049 Homoserine dehydrogenase, NAD binding domain; Region: NAD_binding_3; pfam03447 930944008050 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 930944008051 cystathionine gamma-synthase; Provisional; Region: PRK08045 930944008052 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 930944008053 homodimer interface [polypeptide binding]; other site 930944008054 substrate-cofactor binding pocket; other site 930944008055 pyridoxal 5'-phosphate binding site [chemical binding]; other site 930944008056 catalytic residue [active] 930944008057 Met Repressor, MetJ. MetJ is a bacterial regulatory protein that uses S-adenosylmethionine (SAM) as a corepressor to regulate the production of Methionine. MetJ binds arrays of two to five adjacent copies of an eight base-pair 'metbox'...; Region: Met_repressor_MetJ; cd00490 930944008058 dimerization interface [polypeptide binding]; other site 930944008059 DNA binding site [nucleotide binding] 930944008060 corepressor binding sites; other site 930944008061 50S ribosomal protein L31; Reviewed; Region: rpmE; PRK00019 930944008062 primosome assembly protein PriA; Validated; Region: PRK05580 930944008063 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 930944008064 ATP binding site [chemical binding]; other site 930944008065 putative Mg++ binding site [ion binding]; other site 930944008066 helicase superfamily c-terminal domain; Region: HELICc; smart00490 930944008067 ATP-binding site [chemical binding]; other site 930944008068 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 930944008069 DNA binding site [nucleotide binding] 930944008070 DNA-binding transcriptional regulator CytR; Provisional; Region: PRK11041 930944008071 domain linker motif; other site 930944008072 Ligand-binding domain of an uncharacterized transcription regulator from Actinobacillus succinogenes and its close homologs from other bacteria; Region: PBP1_LacI_like_6; cd06284 930944008073 dimerization interface [polypeptide binding]; other site 930944008074 ligand binding site [chemical binding]; other site 930944008075 Sporulation related domain; Region: SPOR; cl10051 930944008076 cell division protein FtsN; Provisional; Region: PRK12757 930944008077 Sporulation related domain; Region: SPOR; cl10051 930944008078 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 930944008079 active site 930944008080 HslU subunit interaction site [polypeptide binding]; other site 930944008081 ATP-dependent protease ATP-binding subunit HslU; Provisional; Region: hslU; PRK05201 930944008082 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 930944008083 Walker A motif; other site 930944008084 ATP binding site [chemical binding]; other site 930944008085 AAA domain (Cdc48 subfamily); Region: AAA_2; pfam07724 930944008086 Walker B motif; other site 930944008087 arginine finger; other site 930944008088 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 930944008089 1,4-dihydroxy-2-naphthoate octaprenyltransferase; Validated; Region: PRK06080 930944008090 UbiA prenyltransferase family; Region: UbiA; pfam01040 930944008091 ribonuclease activity regulator protein RraA; Provisional; Region: PRK09372 930944008092 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3074 930944008093 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 930944008094 amphipathic channel; other site 930944008095 Asn-Pro-Ala signature motifs; other site 930944008096 glycerol kinase; Provisional; Region: glpK; PRK00047 930944008097 Escherichia coli glycerol kinase-like proteins; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_EcGK_like; cd07786 930944008098 N- and C-terminal domain interface [polypeptide binding]; other site 930944008099 active site 930944008100 MgATP binding site [chemical binding]; other site 930944008101 catalytic site [active] 930944008102 metal binding site [ion binding]; metal-binding site 930944008103 glycerol binding site [chemical binding]; other site 930944008104 homotetramer interface [polypeptide binding]; other site 930944008105 homodimer interface [polypeptide binding]; other site 930944008106 FBP binding site [chemical binding]; other site 930944008107 protein IIAGlc interface [polypeptide binding]; other site 930944008108 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 930944008109 Bacterial fructose-1,6-bisphosphatase, glpX-encoded; Region: FBPase_glpX; pfam03320 930944008110 putative active site [active] 930944008111 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 930944008112 Transposase; Region: DEDD_Tnp_IS110; pfam01548 930944008113 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 930944008114 multidrug resistance protein D; Provisional; Region: emrD; PRK11652 930944008115 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 930944008116 putative substrate translocation pore; other site 930944008117 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 930944008118 RHS Repeat; Region: RHS_repeat; pfam05593 930944008119 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 930944008120 ferredoxin-NADP reductase; Provisional; Region: PRK10926 930944008121 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 930944008122 FAD binding pocket [chemical binding]; other site 930944008123 FAD binding motif [chemical binding]; other site 930944008124 phosphate binding motif [ion binding]; other site 930944008125 beta-alpha-beta structure motif; other site 930944008126 NAD binding pocket [chemical binding]; other site 930944008127 Predicted membrane protein [Function unknown]; Region: COG3152 930944008128 Protein of unknown function (DUF1454); Region: DUF1454; pfam07305 930944008129 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 930944008130 triosephosphate isomerase; Provisional; Region: PRK14567 930944008131 substrate binding site [chemical binding]; other site 930944008132 dimer interface [polypeptide binding]; other site 930944008133 catalytic triad [active] 930944008134 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 930944008135 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 930944008136 substrate binding pocket [chemical binding]; other site 930944008137 membrane-bound complex binding site; other site 930944008138 hinge residues; other site 930944008139 Phosphofructokinase, a key regulatory enzyme in glycolysis, catalyzes the phosphorylation of fructose-6-phosphate to fructose-1,6-biphosphate. The members belong to a subfamily of the PFKA family (cd00363) and include bacterial ATP-dependent...; Region: Bacterial_PFK; cd00763 930944008140 6-phosphofructokinase; Region: PFKA_ATP; TIGR02482 930944008141 active site 930944008142 ADP/pyrophosphate binding site [chemical binding]; other site 930944008143 dimerization interface [polypeptide binding]; other site 930944008144 allosteric effector site; other site 930944008145 fructose-1,6-bisphosphate binding site; other site 930944008146 ferrous iron efflux protein F; Reviewed; Region: fieF; PRK09509 930944008147 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 930944008148 tail protein; Provisional; Region: D; PHA02561 930944008149 Phage P2 GpU; Region: Phage_P2_GpU; pfam06995 930944008150 phage tail tape measure protein, TP901 family, core region; Region: tape_meas_TP901; TIGR01760 930944008151 Phage P2 GpE; Region: Phage_P2_GpE; pfam06528 930944008152 Mu-like prophage FluMu protein gp41; Region: FluMu_gp41; pfam10109 930944008153 major tail tube protein; Provisional; Region: FII; PHA02600 930944008154 major tail sheath protein; Provisional; Region: FI; PHA02560 930944008155 HipA N-terminal domain; Region: Couple_hipA; pfam13657 930944008156 HipA-like N-terminal domain; Region: HipA_N; pfam07805 930944008157 HipA-like C-terminal domain; Region: HipA_C; pfam07804 930944008158 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 930944008159 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 930944008160 non-specific DNA binding site [nucleotide binding]; other site 930944008161 salt bridge; other site 930944008162 sequence-specific DNA binding site [nucleotide binding]; other site 930944008163 potential frameshift: common BLAST hit: gi|123441965|ref|YP_001005948.1| putative phage tail fiber assembly protein 930944008164 Caudovirales tail fibre assembly protein; Region: Caudo_TAP; pfam02413 930944008165 potential frameshift: common BLAST hit: gi|332160513|ref|YP_004297090.1| putative transposase 930944008166 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 930944008167 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 930944008168 DNA-binding interface [nucleotide binding]; DNA binding site 930944008169 DNA replication protein [DNA replication, recombination, and repair]; Region: DnaC; COG1484 930944008170 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 930944008171 Walker A motif; other site 930944008172 ATP binding site [chemical binding]; other site 930944008173 Walker B motif; other site 930944008174 arginine finger; other site 930944008175 terminase ATPase subunit; Provisional; Region: P; PHA02535 930944008176 portal vertex protein; Provisional; Region: Q; PHA02536 930944008177 Phage portal protein; Region: Phage_portal; pfam04860 930944008178 AAA ATPase domain; Region: AAA_15; pfam13175 930944008179 SEC-C motif; Region: SEC-C; pfam02810 930944008180 Bacteriophage replication gene A protein (GPA); Region: Phage_GPA; pfam05840 930944008181 Regulatory phage protein cox; Region: Phage_Cox; pfam10743 930944008182 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 930944008183 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 930944008184 non-specific DNA binding site [nucleotide binding]; other site 930944008185 salt bridge; other site 930944008186 sequence-specific DNA binding site [nucleotide binding]; other site 930944008187 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 930944008188 Site-specific recombinase XerD [DNA replication, recombination, and repair]; Region: XerD; COG4974 930944008189 Phage HP1 integrase, C-terminal catalytic domain. Bacteriophage HP1 and related integrases are found in eubacteria, plasmids and temperate bacteriophages of the P2 family. They belong to the DNA breaking-rejoining enzyme superfamily, which includes...; Region: HP1_INT_C; cd00797 930944008190 dimer interface [polypeptide binding]; other site 930944008191 active site 930944008192 catalytic residues [active] 930944008193 Int/Topo IB signature motif; other site 930944008194 CpxP component of the bacterial Cpx-two-component system and related proteins; Region: CpxP_like; cd09916 930944008195 dimer interface [polypeptide binding]; other site 930944008196 DNA-binding transcriptional regulator CpxR; Provisional; Region: PRK10955 930944008197 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 930944008198 active site 930944008199 phosphorylation site [posttranslational modification] 930944008200 intermolecular recognition site; other site 930944008201 dimerization interface [polypeptide binding]; other site 930944008202 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 930944008203 DNA binding site [nucleotide binding] 930944008204 two-component sensor protein; Provisional; Region: cpxA; PRK09470 930944008205 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cl01054 930944008206 dimerization interface [polypeptide binding]; other site 930944008207 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 930944008208 dimer interface [polypeptide binding]; other site 930944008209 phosphorylation site [posttranslational modification] 930944008210 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 930944008211 ATP binding site [chemical binding]; other site 930944008212 Mg2+ binding site [ion binding]; other site 930944008213 G-X-G motif; other site 930944008214 bifunctional DNA-binding transcriptional dual regulator/O6-methylguanine-DNA methyltransferase; Provisional; Region: PRK15435 930944008215 Metal binding domain of Ada; Region: Ada_Zn_binding; pfam02805 930944008216 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 930944008217 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 930944008218 DNA binding site [nucleotide binding] 930944008219 active site 930944008220 SpoU rRNA Methylase family; Region: SpoU_methylase; cl17307 930944008221 serine acetyltransferase; Provisional; Region: cysE; PRK11132 930944008222 Serine acetyltransferase, N-terminal; Region: SATase_N; pfam06426 930944008223 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 930944008224 trimer interface [polypeptide binding]; other site 930944008225 active site 930944008226 substrate binding site [chemical binding]; other site 930944008227 CoA binding site [chemical binding]; other site 930944008228 NAD(P)H-dependent glycerol-3-phosphate dehydrogenase; Validated; Region: gpsA; PRK00094 930944008229 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 930944008230 NAD-dependent glycerol-3-phosphate dehydrogenase C-terminus; Region: NAD_Gly3P_dh_C; pfam07479 930944008231 Preprotein translocase subunit SecB. SecB is a cytoplasmic component of the multisubunit membrane-bound enzyme termed Sec protein translocase, which is the main constituent of the General Secretory (type II) Pathway involved in translocation of nascent...; Region: Translocase_SecB; cd00557 930944008232 SecA binding site; other site 930944008233 Preprotein binding site; other site 930944008234 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 930944008235 GSH binding site [chemical binding]; other site 930944008236 catalytic residues [active] 930944008237 Rhodanese Homology Domain (RHOD); an alpha beta fold domain found duplicated in the rhodanese protein. The cysteine containing enzymatically active version of the domain is also found in the Cdc25 class of protein phosphatases and a variety of proteins...; Region: RHOD; cd00158 930944008238 active site residue [active] 930944008239 phosphoglyceromutase; Provisional; Region: PRK05434 930944008240 Phosphoglyceromutase [Carbohydrate transport and metabolism]; Region: GpmI; COG0696 930944008241 AmiB activator; Provisional; Region: PRK11637 930944008242 Peptidase family M23; Region: Peptidase_M23; pfam01551 930944008243 Putative catalytic domain of family 2 polysaccharide deacetylases (DACs) from bacteria; Region: CE4_DAC2; cd10936 930944008244 NodB motif; other site 930944008245 putative active site [active] 930944008246 putative catalytic site [active] 930944008247 Zn binding site [ion binding]; other site 930944008248 Domain of unknown function (DUF4337); Region: DUF4337; pfam14235 930944008249 7TM diverse intracellular signalling; Region: 7TMR-DISM_7TM; pfam07695 930944008250 MASE1; Region: MASE1; pfam05231 930944008251 PAS fold; Region: PAS_3; pfam08447 930944008252 L-threonine 3-dehydrogenase; Validated; Region: tdh; PRK05396 930944008253 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 930944008254 NAD(P) binding site [chemical binding]; other site 930944008255 pyridoxal phosphate-dependent acyltransferase, putative; Region: gly_Cac_T_rel; TIGR01825 930944008256 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 930944008257 substrate-cofactor binding pocket; other site 930944008258 pyridoxal 5'-phosphate binding site [chemical binding]; other site 930944008259 catalytic residue [active] 930944008260 ADP-L-glycero-D-mannoheptose 6-epimerase (GME), extended (e) SDRs; Region: ADP_GME_SDR_e; cd05248 930944008261 ADP-L-glycero-D-mannoheptose-6-epimerase; Provisional; Region: rfaD; PRK11150 930944008262 NADP binding site [chemical binding]; other site 930944008263 homopentamer interface [polypeptide binding]; other site 930944008264 substrate binding site [chemical binding]; other site 930944008265 active site 930944008266 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 930944008267 Lipopolysaccharide heptosyltransferase is involved in the biosynthesis of lipooligosaccharide (LOS). Lipopolysaccharide (LPS) is a major component of the outer membrane of gram-negative bacteria. LPS heptosyltransferase transfers heptose molecules from...; Region: GT1_LPS_heptosyltransferase; cd03789 930944008268 putative active site [active] 930944008269 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 930944008270 Lipopolysaccharide heptosyltransferase is involved in the biosynthesis of lipooligosaccharide (LOS). Lipopolysaccharide (LPS) is a major component of the outer membrane of gram-negative bacteria. LPS heptosyltransferase transfers heptose molecules from...; Region: GT1_LPS_heptosyltransferase; cd03789 930944008271 putative active site [active] 930944008272 3-deoxy-D-manno-octulosonic-acid transferase; Reviewed; Region: PRK05749 930944008273 3-Deoxy-D-manno-octulosonic-acid transferase (kdotransferase); Region: Glycos_transf_N; pfam04413 930944008274 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 930944008275 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 930944008276 UDP-glucose LOS-beta-1,4 glucosyltransferase is required for biosynthesis of lipooligosaccharide; Region: Beta4Glucosyltransferase; cd02511 930944008277 putative metal binding site; other site 930944008278 phosphopantetheine adenylyltransferase; Provisional; Region: coaD; PRK00168 930944008279 Phosphopantetheine adenylyltransferase; Region: PPAT; cd02163 930944008280 active site 930944008281 (T/H)XGH motif; other site 930944008282 formamidopyrimidine/5-formyluracil/ 5-hydroxymethyluracil DNA glycosylase; Validated; Region: PRK01103 930944008283 N-terminal domain of Escherichia coli Fpg1/MutM and related bacterial DNA glycosylases; Region: EcFpg-like_N; cd08966 930944008284 DNA binding site [nucleotide binding] 930944008285 catalytic residue [active] 930944008286 H2TH interface [polypeptide binding]; other site 930944008287 putative catalytic residues [active] 930944008288 turnover-facilitating residue; other site 930944008289 intercalation triad [nucleotide binding]; other site 930944008290 8OG recognition residue [nucleotide binding]; other site 930944008291 putative reading head residues; other site 930944008292 Formamidopyrimidine-DNA glycosylase H2TH domain; Region: H2TH; pfam06831 930944008293 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 930944008294 50S ribosomal protein L33; Validated; Region: rpmG; PRK00595 930944008295 50S ribosomal protein L28; Reviewed; Region: rpmB; PRK00359 930944008296 hypothetical protein; Reviewed; Region: PRK00024 930944008297 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 930944008298 MPN+ (JAMM) motif; other site 930944008299 Zinc-binding site [ion binding]; other site 930944008300 phosphopantothenoylcysteine decarboxylase / phosphopantothenate--cysteine ligase; Region: coaBC_dfp; TIGR00521 930944008301 Flavoprotein; Region: Flavoprotein; pfam02441 930944008302 DNA / pantothenate metabolism flavoprotein; Region: DFP; pfam04127 930944008303 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 930944008304 trimer interface [polypeptide binding]; other site 930944008305 active site 930944008306 division inhibitor protein; Provisional; Region: slmA; PRK09480 930944008307 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 930944008308 potential frameshift: common BLAST hit: gi|332161490|ref|YP_004298067.1| transposase for IS1668 930944008309 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 930944008310 Transposase domain (DUF772); Region: DUF772; pfam05598 930944008311 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 930944008312 active site 930944008313 ribonuclease PH; Reviewed; Region: rph; PRK00173 930944008314 Ribonuclease PH; Region: RNase_PH_bact; cd11362 930944008315 hexamer interface [polypeptide binding]; other site 930944008316 active site 930944008317 hypothetical protein; Provisional; Region: PRK11820 930944008318 YicC-like family, N-terminal region; Region: YicC_N; pfam03755 930944008319 Domain of unknown function (DUF1732); Region: DUF1732; pfam08340 930944008320 Metal-dependent hydrolases of the beta-lactamase superfamily II [General function prediction only]; Region: COG1237 930944008321 RNase II stability modulator; Provisional; Region: PRK10060 930944008322 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 930944008323 putative active site [active] 930944008324 heme pocket [chemical binding]; other site 930944008325 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 930944008326 metal binding site [ion binding]; metal-binding site 930944008327 active site 930944008328 I-site; other site 930944008329 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 930944008330 enoyl-CoA hydratase; Validated; Region: PRK08788 930944008331 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 930944008332 substrate binding site [chemical binding]; other site 930944008333 oxyanion hole (OAH) forming residues; other site 930944008334 trimer interface [polypeptide binding]; other site 930944008335 Nucleoside permease [Nucleotide transport and metabolism]; Region: NupC; COG1972 930944008336 Na+ dependent nucleoside transporter N-terminus; Region: Nucleos_tra2_N; pfam01773 930944008337 Nucleoside recognition; Region: Gate; pfam07670 930944008338 Na+ dependent nucleoside transporter C-terminus; Region: Nucleos_tra2_C; pfam07662 930944008339 Protein of unknown function (DUF3574); Region: DUF3574; pfam12098 930944008340 Predicted membrane protein [Function unknown]; Region: COG2860 930944008341 UPF0126 domain; Region: UPF0126; pfam03458 930944008342 UPF0126 domain; Region: UPF0126; pfam03458 930944008343 NAD-dependent DNA ligase LigB; Reviewed; Region: ligB; PRK08097 930944008344 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; cl03295 930944008345 nucleotide binding pocket [chemical binding]; other site 930944008346 K-X-D-G motif; other site 930944008347 catalytic site [active] 930944008348 NAD-dependent DNA ligase OB-fold domain; Region: DNA_ligase_OB; pfam03120 930944008349 Guanylate kinase [Nucleotide transport and metabolism]; Region: Gmk; COG0194 930944008350 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 930944008351 catalytic site [active] 930944008352 G-X2-G-X-G-K; other site 930944008353 DNA-directed RNA polymerase subunit omega; Reviewed; Region: rpoZ; PRK00392 930944008354 bifunctional (p)ppGpp synthetase II/ guanosine-3',5'-bis pyrophosphate 3'-pyrophosphohydrolase; Provisional; Region: PRK11092 930944008355 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 930944008356 Zn2+ binding site [ion binding]; other site 930944008357 Mg2+ binding site [ion binding]; other site 930944008358 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 930944008359 synthetase active site [active] 930944008360 NTP binding site [chemical binding]; other site 930944008361 metal binding site [ion binding]; metal-binding site 930944008362 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 930944008363 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 930944008364 tRNA guanosine-2'-O-methyltransferase; Provisional; Region: PRK11081 930944008365 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 930944008366 SpoU, rRNA methylase, C-terminal; Region: SpoU_methylas_C; pfam12105 930944008367 ATP-dependent DNA helicase RecG; Provisional; Region: PRK10917 930944008368 Y-family of DNA polymerases; Region: PolY; cl12025 930944008369 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 930944008370 generic binding surface II; other site 930944008371 ssDNA binding site; other site 930944008372 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 930944008373 ATP binding site [chemical binding]; other site 930944008374 putative Mg++ binding site [ion binding]; other site 930944008375 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 930944008376 nucleotide binding region [chemical binding]; other site 930944008377 ATP-binding site [chemical binding]; other site 930944008378 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 930944008379 Transposase; Region: DEDD_Tnp_IS110; pfam01548 930944008380 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 930944008381 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 930944008382 sodium--glutamate symport carrier (gltS); Region: gltS; TIGR00210 930944008383 Xanthine/uracil permeases [Nucleotide transport and metabolism]; Region: UraA; COG2233 930944008384 AsmA family; Region: AsmA; pfam05170 930944008385 AsmA-like C-terminal region; Region: AsmA_2; pfam13502 930944008386 PAS fold; Region: PAS_4; pfam08448 930944008387 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 930944008388 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 930944008389 DNA binding residues [nucleotide binding] 930944008390 dimerization interface [polypeptide binding]; other site 930944008391 PAS fold; Region: PAS_4; pfam08448 930944008392 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 930944008393 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 930944008394 DNA binding residues [nucleotide binding] 930944008395 dimerization interface [polypeptide binding]; other site 930944008396 PAS fold; Region: PAS_4; pfam08448 930944008397 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 930944008398 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 930944008399 DNA binding residues [nucleotide binding] 930944008400 dimerization interface [polypeptide binding]; other site 930944008401 Winged helix-turn-helix DNA-binding; Region: HTH_35; pfam13693 930944008402 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 930944008403 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 930944008404 Coenzyme A binding pocket [chemical binding]; other site 930944008405 Putative thioesterase (yiiD_Cterm); Region: YiiD_Cterm; pfam09500 930944008406 D-Tyrosyl-tRNAtyr deacylases; a class of tRNA-dependent hydrolases which are capable of hydrolyzing the ester bond of D-Tyrosyl-tRNA reducing the level of cellular D-Tyrosine while recycling the peptidyl-tRNA; found in bacteria and in eukaryotes but not...; Region: Dtyr_deacylase; cd00563 930944008407 putative active site [active] 930944008408 dimerization interface [polypeptide binding]; other site 930944008409 putative tRNAtyr binding site [nucleotide binding]; other site 930944008410 hypothetical protein; Reviewed; Region: PRK01637 930944008411 haloacid dehalogenase superfamily, subfamily IA, variant 3 with third motif having DD or ED; Region: HAD-SF-IA-v3; TIGR01509 930944008412 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 930944008413 motif II; other site 930944008414 Predicted membrane GTPase involved in stress response [Signal transduction mechanisms]; Region: TypA; COG1217 930944008415 Tyrosine phosphorylated protein A (TypA)/BipA family belongs to ribosome-binding GTPases; Region: TypA_BipA; cd01891 930944008416 G1 box; other site 930944008417 putative GEF interaction site [polypeptide binding]; other site 930944008418 GTP/Mg2+ binding site [chemical binding]; other site 930944008419 Switch I region; other site 930944008420 G2 box; other site 930944008421 G3 box; other site 930944008422 Switch II region; other site 930944008423 G4 box; other site 930944008424 G5 box; other site 930944008425 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 930944008426 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 930944008427 glutamine synthetase; Provisional; Region: glnA; PRK09469 930944008428 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 930944008429 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 930944008430 nitrogen regulation protein NR(II); Provisional; Region: glnL; PRK11073 930944008431 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 930944008432 dimer interface [polypeptide binding]; other site 930944008433 phosphorylation site [posttranslational modification] 930944008434 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 930944008435 ATP binding site [chemical binding]; other site 930944008436 Mg2+ binding site [ion binding]; other site 930944008437 G-X-G motif; other site 930944008438 nitrogen regulation protein NR(I); Provisional; Region: glnG; PRK10923 930944008439 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 930944008440 active site 930944008441 phosphorylation site [posttranslational modification] 930944008442 intermolecular recognition site; other site 930944008443 dimerization interface [polypeptide binding]; other site 930944008444 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 930944008445 Walker A motif; other site 930944008446 ATP binding site [chemical binding]; other site 930944008447 Walker B motif; other site 930944008448 arginine finger; other site 930944008449 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 930944008450 coproporphyrinogen III oxidase; Provisional; Region: PRK09249 930944008451 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 930944008452 FeS/SAM binding site; other site 930944008453 HemN C-terminal domain; Region: HemN_C; pfam06969 930944008454 Der GTPase activator; Provisional; Region: PRK05244 930944008455 YihA (EngB) GTPase family; Region: YihA_EngB; cd01876 930944008456 G1 box; other site 930944008457 GTP/Mg2+ binding site [chemical binding]; other site 930944008458 Switch I region; other site 930944008459 G2 box; other site 930944008460 G3 box; other site 930944008461 Switch II region; other site 930944008462 G4 box; other site 930944008463 G5 box; other site 930944008464 DNA polymerase I; Provisional; Region: PRK05755 930944008465 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 930944008466 active site 930944008467 metal binding site 1 [ion binding]; metal-binding site 930944008468 putative 5' ssDNA interaction site; other site 930944008469 metal binding site 3; metal-binding site 930944008470 metal binding site 2 [ion binding]; metal-binding site 930944008471 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 930944008472 putative DNA binding site [nucleotide binding]; other site 930944008473 putative metal binding site [ion binding]; other site 930944008474 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 930944008475 active site 930944008476 catalytic site [active] 930944008477 substrate binding site [chemical binding]; other site 930944008478 Polymerase I functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication; Region: DNA_pol_A_pol_I_C; cd08637 930944008479 active site 930944008480 DNA binding site [nucleotide binding] 930944008481 catalytic site [active] 930944008482 DsbA family, DsbA subfamily; DsbA is a monomeric thiol disulfide oxidoreductase protein containing a redox active CXXC motif imbedded in a TRX fold. It is involved in the oxidative protein folding pathway in prokaryotes, and is the strongest thiol...; Region: DsbA_DsbA; cd03019 930944008483 DSBA-like thioredoxin domain; Region: DSBA; pfam01323 930944008484 catalytic residues [active] 930944008485 hinge region; other site 930944008486 alpha helical domain; other site 930944008487 Putative homoserine kinase type II (protein kinase fold) [General function prediction only]; Region: COG2334 930944008488 serine/threonine protein kinase; Provisional; Region: PRK11768 930944008489 Protein of unknown function (DUF1040); Region: DUF1040; cl01176 930944008490 molybdopterin-guanine dinucleotide biosynthesis protein MobA; Reviewed; Region: mobA; PRK00317 930944008491 MobA catalyzes the formation of molybdopterin guanine dinucleotide; Region: MobA; cd02503 930944008492 GTP binding site; other site 930944008493 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 930944008494 Walker A motif; other site 930944008495 putative transposase OrfB; Reviewed; Region: PHA02517 930944008496 Integrase core domain; Region: rve; pfam00665 930944008497 Integrase core domain; Region: rve_3; pfam13683 930944008498 Helix-turn-helix domain; Region: HTH_28; pfam13518 930944008499 Transcriptional regulators [Transcription]; Region: FadR; COG2186 930944008500 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 930944008501 DNA-binding site [nucleotide binding]; DNA binding site 930944008502 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 930944008503 Major Facilitator Superfamily; Region: MFS_1; pfam07690 930944008504 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 930944008505 putative substrate translocation pore; other site 930944008506 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 930944008507 transcriptional repressor RbsR; Provisional; Region: PRK10423 930944008508 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 930944008509 DNA binding site [nucleotide binding] 930944008510 domain linker motif; other site 930944008511 Ligand-binding domain of purine repressor, PurR, which functions as the master regulatory protein of de novo purine nucleotide biosynthesis in Escherichia coli; Region: PBP1_PurR; cd06275 930944008512 dimerization interface [polypeptide binding]; other site 930944008513 ligand binding site [chemical binding]; other site 930944008514 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 930944008515 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 930944008516 substrate binding site [chemical binding]; other site 930944008517 dimer interface [polypeptide binding]; other site 930944008518 ATP binding site [chemical binding]; other site 930944008519 D-ribose transporter subunit RbsB; Provisional; Region: PRK10653 930944008520 Periplasmic sugar-binding domain of the thermophilic Thermoanaerobacter tengcongensis ribose binding protein (ttRBP) and its mesophilic homologs; Region: PBP1_ribose_binding; cd06323 930944008521 ligand binding site [chemical binding]; other site 930944008522 dimerization interface [polypeptide binding]; other site 930944008523 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 930944008524 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 930944008525 TM-ABC transporter signature motif; other site 930944008526 D-ribose transporter ATP binding protein; Provisional; Region: PRK10762 930944008527 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 930944008528 Walker A/P-loop; other site 930944008529 ATP binding site [chemical binding]; other site 930944008530 Q-loop/lid; other site 930944008531 ABC transporter signature motif; other site 930944008532 Walker B; other site 930944008533 D-loop; other site 930944008534 H-loop/switch region; other site 930944008535 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 930944008536 D-ribose pyranase; Provisional; Region: PRK11797 930944008537 potassium transport protein Kup; Provisional; Region: trkD; PRK10745 930944008538 potassium uptake protein; Region: kup; TIGR00794 930944008539 regulatory ATPase RavA; Provisional; Region: PRK13531 930944008540 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 930944008541 Walker A motif; other site 930944008542 ATP binding site [chemical binding]; other site 930944008543 Walker B motif; other site 930944008544 arginine finger; other site 930944008545 Protein of unknown function (DUF3763); Region: DUF3763; pfam12592 930944008546 hypothetical protein; Provisional; Region: yieM; PRK10997 930944008547 VWA YIEM type: Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b...; Region: VWA_YIEM_type; cd01462 930944008548 metal ion-dependent adhesion site (MIDAS); other site 930944008549 Protein of unknown function (DUF1345); Region: DUF1345; pfam07077 930944008550 Asparagine synthetase A [Amino acid transport and metabolism]; Region: AsnA; COG2502 930944008551 motif 1; other site 930944008552 dimer interface [polypeptide binding]; other site 930944008553 active site 930944008554 motif 2; other site 930944008555 motif 3; other site 930944008556 DNA-binding transcriptional regulator AsnC; Provisional; Region: PRK11179 930944008557 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 930944008558 putative DNA binding site [nucleotide binding]; other site 930944008559 putative Zn2+ binding site [ion binding]; other site 930944008560 AsnC family; Region: AsnC_trans_reg; pfam01037 930944008561 FMN-binding protein MioC; Provisional; Region: PRK09004 930944008562 tRNA uridine 5-carboxymethylaminomethyl modification enzyme GidA; Validated; Region: PRK05192 930944008563 NAD(FAD)-utilizing enzyme possibly involved in translation [Translation, ribosomal structure and biogenesis]; Region: Gid; COG1206 930944008564 GidA associated domain 3; Region: GIDA_assoc_3; pfam13932 930944008565 Predicted S-adenosylmethionine-dependent methyltransferase involved in bacterial cell division [Cell envelope biogenesis, outer membrane]; Region: GidB; COG0357 930944008566 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 930944008567 S-adenosylmethionine binding site [chemical binding]; other site 930944008568 F0F1 ATP synthase subunit I; Validated; Region: PRK08049 930944008569 F0F1-type ATP synthase, subunit a [Energy production and conversion]; Region: AtpB; COG0356 930944008570 F0F1 ATP synthase subunit A; Validated; Region: PRK05815 930944008571 F0F1 ATP synthase subunit C; Validated; Region: PRK06876 930944008572 F0F1 ATP synthase subunit B; Validated; Region: PRK05759 930944008573 F0F1-type ATP synthase, subunit b [Energy production and conversion]; Region: AtpF; COG0711 930944008574 F0F1 ATP synthase subunit delta; Validated; Region: PRK05758 930944008575 ATP synthase delta (OSCP) subunit; Region: OSCP; pfam00213 930944008576 F0F1 ATP synthase subunit alpha; Validated; Region: PRK09281 930944008577 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 930944008578 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 930944008579 beta subunit interaction interface [polypeptide binding]; other site 930944008580 Walker A motif; other site 930944008581 ATP binding site [chemical binding]; other site 930944008582 Walker B motif; other site 930944008583 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 930944008584 mitochondrial ATP synthase gamma subunit; Region: F1-ATPase_gamma; cd12151 930944008585 core domain interface [polypeptide binding]; other site 930944008586 delta subunit interface [polypeptide binding]; other site 930944008587 epsilon subunit interface [polypeptide binding]; other site 930944008588 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 930944008589 F0F1 ATP synthase subunit beta; Validated; Region: PRK09280 930944008590 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 930944008591 alpha subunit interaction interface [polypeptide binding]; other site 930944008592 Walker A motif; other site 930944008593 ATP binding site [chemical binding]; other site 930944008594 Walker B motif; other site 930944008595 inhibitor binding site; inhibition site 930944008596 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 930944008597 F0F1 ATP synthase subunit epsilon; Validated; Region: atpC; PRK00571 930944008598 mitochondrial ATP synthase delta subunit; Region: F1-ATPase_delta; cd12152 930944008599 gamma subunit interface [polypeptide binding]; other site 930944008600 epsilon subunit interface [polypeptide binding]; other site 930944008601 LBP interface [polypeptide binding]; other site 930944008602 bifunctional N-acetylglucosamine-1-phosphate uridyltransferase/glucosamine-1-phosphate acetyltransferase; Provisional; Region: glmU; PRK09451 930944008603 N-terminal domain of bacterial GlmU; Region: GT2_GlmU_N_bac; cd02540 930944008604 Substrate binding site; other site 930944008605 Mg++ binding site; other site 930944008606 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 930944008607 active site 930944008608 substrate binding site [chemical binding]; other site 930944008609 CoA binding site [chemical binding]; other site 930944008610 glucosamine--fructose-6-phosphate aminotransferase; Reviewed; Region: PRK00331 930944008611 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 930944008612 glutaminase active site [active] 930944008613 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 930944008614 dimer interface [polypeptide binding]; other site 930944008615 active site 930944008616 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 930944008617 dimer interface [polypeptide binding]; other site 930944008618 active site 930944008619 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 930944008620 substrate binding pocket [chemical binding]; other site 930944008621 membrane-bound complex binding site; other site 930944008622 hinge residues; other site 930944008623 phosphate transporter permease subunit PstC; Provisional; Region: pstC; PRK11275 930944008624 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 930944008625 dimer interface [polypeptide binding]; other site 930944008626 conserved gate region; other site 930944008627 putative PBP binding loops; other site 930944008628 ABC-ATPase subunit interface; other site 930944008629 phosphate transporter permease subunit PtsA; Provisional; Region: pstA; PRK11268 930944008630 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 930944008631 dimer interface [polypeptide binding]; other site 930944008632 conserved gate region; other site 930944008633 putative PBP binding loops; other site 930944008634 ABC-ATPase subunit interface; other site 930944008635 phosphate transporter ATP-binding protein; Provisional; Region: pstB; PRK10744 930944008636 ATP-binding cassette domain of the phosphate transport system; Region: ABC_PstB_phosphate_transporter; cd03260 930944008637 Walker A/P-loop; other site 930944008638 ATP binding site [chemical binding]; other site 930944008639 Q-loop/lid; other site 930944008640 ABC transporter signature motif; other site 930944008641 Walker B; other site 930944008642 D-loop; other site 930944008643 H-loop/switch region; other site 930944008644 transcriptional regulator PhoU; Provisional; Region: PRK11115 930944008645 PhoU domain; Region: PhoU; pfam01895 930944008646 PhoU domain; Region: PhoU; pfam01895 930944008647 Integral membrane protein CcmA involved in cell shape determination [Cell envelope biogenesis, outer membrane]; Region: CcmA; COG1664 930944008648 Polymer-forming cytoskeletal; Region: Bactofilin; pfam04519 930944008649 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 930944008650 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 930944008651 substrate binding pocket [chemical binding]; other site 930944008652 membrane-bound complex binding site; other site 930944008653 hinge residues; other site 930944008654 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 930944008655 dimer interface [polypeptide binding]; other site 930944008656 conserved gate region; other site 930944008657 putative PBP binding loops; other site 930944008658 ABC-ATPase subunit interface; other site 930944008659 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 930944008660 dimer interface [polypeptide binding]; other site 930944008661 conserved gate region; other site 930944008662 putative PBP binding loops; other site 930944008663 ABC-ATPase subunit interface; other site 930944008664 6-phosphogluconate phosphatase; Provisional; Region: PRK10563 930944008665 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 930944008666 motif II; other site 930944008667 Xanthine/uracil/vitamin C permease [Nucleotide transport and metabolism]; Region: COG2252 930944008668 Domain of unknown function (DUF336); Region: DUF336; cl01249 930944008669 Response regulator [Signal transduction mechanisms]; Region: TtrR; COG4566 930944008670 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 930944008671 active site 930944008672 phosphorylation site [posttranslational modification] 930944008673 intermolecular recognition site; other site 930944008674 dimerization interface [polypeptide binding]; other site 930944008675 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 930944008676 DNA binding residues [nucleotide binding] 930944008677 dimerization interface [polypeptide binding]; other site 930944008678 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 930944008679 dimer interface [polypeptide binding]; other site 930944008680 phosphorylation site [posttranslational modification] 930944008681 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 930944008682 ATP binding site [chemical binding]; other site 930944008683 Mg2+ binding site [ion binding]; other site 930944008684 G-X-G motif; other site 930944008685 Predicted flavoprotein [General function prediction only]; Region: COG0431 930944008686 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 930944008687 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 930944008688 HAMP domain; Region: HAMP; pfam00672 930944008689 dimerization interface [polypeptide binding]; other site 930944008690 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 930944008691 dimer interface [polypeptide binding]; other site 930944008692 putative CheW interface [polypeptide binding]; other site 930944008693 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 930944008694 dimer interface [polypeptide binding]; other site 930944008695 conserved gate region; other site 930944008696 ABC-ATPase subunit interface; other site 930944008697 DL-methionine transporter ATP-binding subunit; Provisional; Region: metN; PRK11153 930944008698 ATP-binding cassette domain of methionine transporter; Region: ABC_MetN_methionine_transporter; cd03258 930944008699 Walker A/P-loop; other site 930944008700 ATP binding site [chemical binding]; other site 930944008701 Q-loop/lid; other site 930944008702 ABC transporter signature motif; other site 930944008703 Walker B; other site 930944008704 D-loop; other site 930944008705 H-loop/switch region; other site 930944008706 NIL domain; Region: NIL; pfam09383 930944008707 ABC-type metal ion transport system, periplasmic component/surface antigen [Inorganic ion transport and metabolism]; Region: NlpA; COG1464 930944008708 NLPA lipoprotein; Region: Lipoprotein_9; pfam03180 930944008709 trans-2-enoyl-CoA reductase; Provisional; Region: PRK13656 930944008710 NAD(P)H binding domain of trans-2-enoyl-CoA reductase; Region: Eno-Rase_NADH_b; pfam12242 930944008711 Trans-2-enoyl-CoA reductase catalytic region; Region: Enoyl_reductase; pfam12241 930944008712 Enoyl reductase FAD binding domain; Region: Eno-Rase_FAD_bd; pfam07055 930944008713 tRNA modification GTPase TrmE; Reviewed; Region: trmE; PRK05291 930944008714 GTP-binding protein TrmE N-terminus; Region: TrmE_N; pfam10396 930944008715 trmE is a tRNA modification GTPase; Region: trmE; cd04164 930944008716 G1 box; other site 930944008717 GTP/Mg2+ binding site [chemical binding]; other site 930944008718 Switch I region; other site 930944008719 G2 box; other site 930944008720 Switch II region; other site 930944008721 G3 box; other site 930944008722 G4 box; other site 930944008723 G5 box; other site 930944008724 Catalytic cysteine-containing C-terminus of GTPase, MnmE; Region: GTPase_Cys_C; pfam12631 930944008725 membrane protein insertase; Provisional; Region: PRK01318 930944008726 membrane protein insertase, YidC/Oxa1 family, C-terminal domain; Region: yidC_oxa1_cterm; TIGR03592 930944008727 Haemolytic domain; Region: Haemolytic; cl00506 930944008728 Ribonuclease P; Region: Ribonuclease_P; cl00457 930944008729 50S ribosomal protein L34; Reviewed; Region: rpmH; PRK00399 930944008730 DnaA N-terminal domain; Region: DnaA_N; pfam11638 930944008731 chromosomal replication initiator protein DnaA; Region: DnaA; TIGR00362 930944008732 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 930944008733 Walker A motif; other site 930944008734 ATP binding site [chemical binding]; other site 930944008735 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 930944008736 Walker B motif; other site 930944008737 arginine finger; other site 930944008738 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 930944008739 DnaA box-binding interface [nucleotide binding]; other site 930944008740 DNA polymerase III subunit beta; Validated; Region: PRK05643 930944008741 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 930944008742 putative DNA binding surface [nucleotide binding]; other site 930944008743 dimer interface [polypeptide binding]; other site 930944008744 beta-clamp/clamp loader binding surface; other site 930944008745 beta-clamp/translesion DNA polymerase binding surface; other site 930944008746 recombination protein F; Reviewed; Region: recF; PRK00064 930944008747 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 930944008748 Walker A/P-loop; other site 930944008749 ATP binding site [chemical binding]; other site 930944008750 Q-loop/lid; other site 930944008751 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 930944008752 ABC transporter signature motif; other site 930944008753 Walker B; other site 930944008754 D-loop; other site 930944008755 H-loop/switch region; other site 930944008756 DNA gyrase subunit B; Provisional; Region: gyrB; PRK14939 930944008757 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 930944008758 Mg2+ binding site [ion binding]; other site 930944008759 G-X-G motif; other site 930944008760 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 930944008761 anchoring element; other site 930944008762 dimer interface [polypeptide binding]; other site 930944008763 ATP binding site [chemical binding]; other site 930944008764 TOPRIM_TopoIIA_GyrB: topoisomerase-primase (TOPRIM) nucleotidyl transferase/hydrolase domain of the type found in proteins of the type IIA family of DNA topoisomerases similar to the Escherichia coli GyrB subunit. TopoIIA enzymes cut both strands of the...; Region: TOPRIM_TopoIIA_GyrB; cd03366 930944008765 active site 930944008766 putative metal-binding site [ion binding]; other site 930944008767 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 930944008768 sugar phosphate phosphatase; Provisional; Region: PRK10513 930944008769 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 930944008770 active site 930944008771 motif I; other site 930944008772 motif II; other site 930944008773 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 930944008774 Predicted ornithine cyclodeaminase, mu-crystallin homolog [Amino acid transport and metabolism]; Region: COG2423 930944008775 ornithine cyclodeaminase; Validated; Region: PRK06823 930944008776 Tryptophan synthase beta superfamily (fold type II); this family of pyridoxal phosphate (PLP)-dependent enzymes catalyzes beta-replacement and beta-elimination reactions. This CD corresponds to aminocyclopropane-1-carboxylate deaminase (ACCD), tryptophan...; Region: Trp-synth-beta_II; cl00342 930944008777 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 930944008778 pyridoxal 5'-phosphate binding site [chemical binding]; other site 930944008779 catalytic residue [active] 930944008780 Protein of unknown function (DUF3748); Region: DUF3748; pfam12566 930944008781 hypothetical protein; Provisional; Region: PRK11616 930944008782 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 930944008783 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 930944008784 putative dimer interface [polypeptide binding]; other site 930944008785 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 930944008786 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 930944008787 putative dimer interface [polypeptide binding]; other site 930944008788 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 930944008789 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 930944008790 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 930944008791 Transposase; Region: DEDD_Tnp_IS110; pfam01548 930944008792 putative transporter; Validated; Region: PRK03818 930944008793 Predicted Permease Membrane Region; Region: Asp-Al_Ex; pfam06826 930944008794 TrkA-C domain; Region: TrkA_C; pfam02080 930944008795 TrkA-C domain; Region: TrkA_C; pfam02080 930944008796 AspT/YidE/YbjL antiporter duplication domain; Region: YidE_YbjL_dupl; TIGR01625 930944008797 valine--pyruvate transaminase; Provisional; Region: avtA; PRK09440 930944008798 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 930944008799 pyridoxal 5'-phosphate binding site [chemical binding]; other site 930944008800 homodimer interface [polypeptide binding]; other site 930944008801 catalytic residue [active] 930944008802 alpha-amylase; Reviewed; Region: malS; PRK09505 930944008803 Alpha amylase catalytic domain family; Region: AmyAc_family; cl07893 930944008804 active site 930944008805 catalytic site [active] 930944008806 bifunctional glyoxylate/hydroxypyruvate reductase B; Provisional; Region: PRK15409 930944008807 D-glycerate dehydrogenase/hydroxypyruvate reductase (GDH); Region: GDH; cd05301 930944008808 dimerization interface [polypeptide binding]; other site 930944008809 ligand binding site [chemical binding]; other site 930944008810 NADP binding site [chemical binding]; other site 930944008811 catalytic site [active] 930944008812 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 930944008813 Predicted transcriptional regulator [Transcription]; Region: COG2345 930944008814 Beta/Gamma crystallin; Region: Crystall; cl02528 930944008815 Beta/Gamma crystallin; Region: Crystall; cl02528 930944008816 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 930944008817 Exotoxin A, targeting; Region: Exotox-A_target; pfam09102 930944008818 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 930944008819 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 930944008820 Coenzyme A binding pocket [chemical binding]; other site 930944008821 Methyladenine glycosylase; Region: Adenine_glyco; pfam03352 930944008822 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 930944008823 dimer interface [polypeptide binding]; other site 930944008824 motif 1; other site 930944008825 active site 930944008826 motif 2; other site 930944008827 motif 3; other site 930944008828 glycyl-tRNA synthetase subunit beta; Validated; Region: glyS; PRK01233 930944008829 DALR anticodon binding domain; Region: DALR_1; pfam05746 930944008830 Protein of unknown function (DUF3053); Region: DUF3053; pfam11254 930944008831 PTS system mannitol-specific transporter subunit IICBA; Provisional; Region: PRK15083 930944008832 PTS system, mannitol-specific IIC component; Region: mtlA; TIGR00851 930944008833 PTS_IIB_mannitol: subunit IIB of enzyme II (EII) of the mannitol-specific phosphoenolpyruvate:carbohydrate phosphotransferase system (PTS). In this system, EII is a mannitol-specific permease with two cytoplasmic domains (IIA and IIB) and a transmembrane...; Region: PTS_IIB_mannitol; cd05567 930944008834 active site 930944008835 P-loop; other site 930944008836 phosphorylation site [posttranslational modification] 930944008837 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 930944008838 active site 930944008839 phosphorylation site [posttranslational modification] 930944008840 mannitol-1-phosphate 5-dehydrogenase; Provisional; Region: PRK02318 930944008841 Mannitol dehydrogenase Rossmann domain; Region: Mannitol_dh; pfam01232 930944008842 Mannitol dehydrogenase C-terminal domain; Region: Mannitol_dh_C; pfam08125 930944008843 Transcriptional regulator [Transcription]; Region: MtlR; COG3722 930944008844 mannitol repressor protein; Provisional; Region: mtlR; PRK11001 930944008845 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 930944008846 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 930944008847 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 930944008848 DNA-binding site [nucleotide binding]; DNA binding site 930944008849 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 930944008850 pyridoxal 5'-phosphate binding site [chemical binding]; other site 930944008851 homodimer interface [polypeptide binding]; other site 930944008852 catalytic residue [active] 930944008853 hypothetical protein; Provisional; Region: PRK11020 930944008854 Virulence-associated protein and related proteins [Function unknown]; Region: VagC; COG4456 930944008855 PIN domain of ribonucleases (toxins), VapC and FitB, of prokaryotic toxin/antitoxin operons, Pyrococcus horikoshii protein PH0500, and other similar bacterial and archaeal homologs; Region: PIN_VapC-FitB; cd09881 930944008856 oligomeric interface; other site 930944008857 putative active site [active] 930944008858 homodimer interface [polypeptide binding]; other site 930944008859 6-N-hydroxylaminopurine resistance protein; Provisional; Region: PRK11536 930944008860 MOSC domain; Region: MOSC; pfam03473 930944008861 3-alpha domain; Region: 3-alpha; pfam03475 930944008862 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 930944008863 dimerization interface [polypeptide binding]; other site 930944008864 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 930944008865 dimer interface [polypeptide binding]; other site 930944008866 Methyl-accepting chemotaxis protein (MCP) signalling domain; Region: MCPsignal; pfam00015 930944008867 putative CheW interface [polypeptide binding]; other site 930944008868 superoxide dismutase; Provisional; Region: PRK10925 930944008869 Iron/manganese superoxide dismutases, alpha-hairpin domain; Region: Sod_Fe_N; pfam00081 930944008870 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 930944008871 formate dehydrogenase, alpha subunit, proteobacterial-type; Region: formate-DH-alph; TIGR01553 930944008872 Formate dehydrogenase N, alpha subunit (Formate-Dh-Na) is a major component of nitrate respiration in bacteria such as in the E. coli formate dehydrogenase N (Fdh-N). Fdh-N is a membrane protein that is a complex of three different subunits and is the...; Region: MopB_Formate-Dh-Na-like; cd02752 930944008873 [4Fe-4S] binding site [ion binding]; other site 930944008874 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 930944008875 Formate dehydrogenase N, alpha subunit (Formate-Dh-Na) is a major component of nitrate respiration in bacteria such as in the E. coli formate dehydrogenase N (Fdh-N). Fdh-N is a membrane protein that is a complex of three different subunits and is the...; Region: MopB_Formate-Dh-Na-like; cd02752 930944008876 Formate dehydrogenase N, alpha subunit (Formate-Dh-Na) is a major component of nitrate respiration in bacteria such as in the E. coli formate dehydrogenase N (Fdh-N). Fdh-N is a membrane protein that is a complex of three different subunits and is the...; Region: MopB_CT_Formate-Dh-Na-like; cd02792 930944008877 molybdopterin cofactor binding site; other site 930944008878 formate dehydrogenase, beta subunit, Fe-S containing; Region: FDH-beta; TIGR01582 930944008879 Formate dehydrogenase N, transmembrane; Region: Form-deh_trans; pfam09163 930944008880 formate dehydrogenase-O subunit gamma; Provisional; Region: PRK10639 930944008881 formate dehydrogenase, gamma subunit; Region: formate-DH-gamm; TIGR01583 930944008882 formate dehydrogenase accessory protein FdhE; Provisional; Region: PRK03564 930944008883 formate dehydrogenase accessory protein FdhE; Region: FdhE; TIGR01562 930944008884 selenocysteine synthase; Provisional; Region: PRK04311 930944008885 Selenocysteine synthase N terminal; Region: Se-cys_synth_N; pfam12390 930944008886 Selenocysteine synthase [seryl-tRNASer selenium transferase] [Amino acid transport and metabolism]; Region: SelA; COG1921 930944008887 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 930944008888 catalytic residue [active] 930944008889 selenocysteinyl-tRNA-specific translation factor; Provisional; Region: PRK10512 930944008890 SelB, the dedicated elongation factor for delivery of selenocysteinyl-tRNA to the ribosome; Region: SelB; cd04171 930944008891 G1 box; other site 930944008892 putative GEF interaction site [polypeptide binding]; other site 930944008893 GTP/Mg2+ binding site [chemical binding]; other site 930944008894 Switch I region; other site 930944008895 G2 box; other site 930944008896 G3 box; other site 930944008897 Switch II region; other site 930944008898 G4 box; other site 930944008899 G5 box; other site 930944008900 selB_II: this subfamily represents the domain of elongation factor SelB, homologous to domain II of EF-Tu. SelB may function by replacing EF-Tu. In prokaryotes, the incorporation of selenocysteine as the 21st amino acid, encoded by TGA, requires several...; Region: selB_II; cd03696 930944008901 This family represents the domain of elongation factor SelB, homologous to domain III of EF-Tu. SelB may function by replacing EF-Tu. In prokaryotes, the incorporation of selenocysteine as the 21st amino acid, encoded by TGA, requires several elements:...; Region: selB_III; cd04094 930944008902 Elongation factor SelB, winged helix; Region: SelB-wing_2; pfam09106 930944008903 DEP domain, named after Dishevelled, Egl-10, and Pleckstrin, where this domain was first discovered. The function of this domain is still not clear, but it is believed to be important for the membrane association of the signaling proteins in which it is...; Region: DEP; cl02442 930944008904 Elongation factor SelB, winged helix; Region: SelB-wing_3; pfam09107 930944008905 multidrug efflux system translocase MdfA; Provisional; Region: PRK15402 930944008906 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 930944008907 putative substrate translocation pore; other site 930944008908 Predicted O-acyltransferase [General function prediction only]; Region: COG3274 930944008909 Acyltransferase family; Region: Acyl_transf_3; pfam01757 930944008910 AraC transcriptional regulators having a Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_1; cd03137 930944008911 conserved cys residue [active] 930944008912 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 930944008913 Isochorismatase family; Region: Isochorismatase; pfam00857 930944008914 Cysteine hydrolases; This family contains amidohydrolases, like CSHase (N-carbamoylsarcosine amidohydrolase), involved in creatine metabolism and nicotinamidase, converting nicotinamide to nicotinic acid and ammonia in the pyridine nucleotide cycle. It...; Region: cysteine_hydrolases; cl00220 930944008915 catalytic triad [active] 930944008916 conserved cis-peptide bond; other site 930944008917 P pilus assembly protein, chaperone PapD [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimC; COG3121 930944008918 Gram-negative pili assembly chaperone, N-terminal domain; Region: Pili_assembly_N; pfam00345 930944008919 Gram-negative pili assembly chaperone, C-terminal domain; Region: Pili_assembly_C; pfam02753 930944008920 xylulokinase; Provisional; Region: PRK15027 930944008921 Escherichia coli xylulokinase-like D-xylulose kinases; a subgroup of the FGGY family of carbohydrate kinases; Region: FGGY_D-XK_EcXK-like; cd07808 930944008922 N- and C-terminal domain interface [polypeptide binding]; other site 930944008923 active site 930944008924 MgATP binding site [chemical binding]; other site 930944008925 catalytic site [active] 930944008926 metal binding site [ion binding]; metal-binding site 930944008927 xylulose binding site [chemical binding]; other site 930944008928 homodimer interface [polypeptide binding]; other site 930944008929 potential frameshift: common BLAST hit: gi|332163470|ref|YP_004300047.1| xylose isomerase 930944008930 Xylose isomerase [Carbohydrate transport and metabolism]; Region: XylA; cl09945 930944008931 xylose isomerase; Provisional; Region: PRK05474 930944008932 D-xylose transporter subunit XylF; Provisional; Region: xylF; PRK10355 930944008933 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 930944008934 putative ligand binding site [chemical binding]; other site 930944008935 xylose transporter ATP-binding subunit; Provisional; Region: PRK13549 930944008936 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 930944008937 Walker A/P-loop; other site 930944008938 ATP binding site [chemical binding]; other site 930944008939 Q-loop/lid; other site 930944008940 ABC transporter signature motif; other site 930944008941 Walker B; other site 930944008942 D-loop; other site 930944008943 H-loop/switch region; other site 930944008944 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 930944008945 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 930944008946 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 930944008947 TM-ABC transporter signature motif; other site 930944008948 potential frameshift: common BLAST hit: gi|332163466|ref|YP_004300043.1| AraC family transcriptional regulator 930944008949 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 930944008950 Transcriptional regulators [Transcription]; Region: PurR; COG1609 930944008951 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 930944008952 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 930944008953 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 930944008954 integrase; Provisional; Region: PRK09692 930944008955 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 930944008956 active site 930944008957 Int/Topo IB signature motif; other site 930944008958 SIR2-like domain; Region: SIR2_2; pfam13289 930944008959 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 930944008960 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 930944008961 DNA-binding interface [nucleotide binding]; DNA binding site 930944008962 Integrase core domain; Region: rve; pfam00665 930944008963 DNA replication protein [DNA replication, recombination, and repair]; Region: DnaC; COG1484 930944008964 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 930944008965 Walker A motif; other site 930944008966 ATP binding site [chemical binding]; other site 930944008967 Walker B motif; other site 930944008968 arginine finger; other site 930944008969 putative proline-specific permease; Provisional; Region: proY; PRK10580 930944008970 Phenylalanine ammonia-lyase (PAL) and histidine ammonia-lyase (HAL); Region: PAL-HAL; cd00332 930944008971 active sites [active] 930944008972 tetramer interface [polypeptide binding]; other site 930944008973 urocanate hydratase; Provisional; Region: PRK05414 930944008974 P pilus assembly protein, porin PapC [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimD; COG3188 930944008975 PapC N-terminal domain; Region: PapC_N; pfam13954 930944008976 Type VII secretion system (T7SS), usher protein; Region: Usher; pfam00577 930944008977 PapC C-terminal domain; Region: PapC_C; pfam13953 930944008978 Alpha-Mannosidase Binding Domain of Atg19/34; Region: ABD; cl15429 930944008979 mannose-6-phosphate isomerase; Provisional; Region: PRK15131 930944008980 Alpha-Mannosidase Binding Domain of Atg19/34; Region: ABD; cl15429 930944008981 Beta-glucosidase/6-phospho-beta-glucosidase/beta- galactosidase [Carbohydrate transport and metabolism]; Region: BglB; COG2723 930944008982 beta-galactosidase; Region: BGL; TIGR03356 930944008983 Carbohydrate Binding Module 6 (CBM6) domains; many are found in association with discoidin domain(s); Region: CBM6_discoidin-like; cd04083 930944008984 potential frameshift: common BLAST hit: gi|123444274|ref|YP_001008242.1| putative outer membrane porin 930944008985 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 930944008986 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 930944008987 Phosphotransferase system cellobiose-specific component IIC [Carbohydrate transport and metabolism]; Region: CelB; COG1455 930944008988 cellobiose phosphotransferase system IIC component; Reviewed; Region: celD; PRK09592 930944008989 PTS_IIB_chitobiose_lichenan: subunit IIB of enzyme II (EII) of the N,N-diacetylchitobiose-specific and lichenan-specific phosphoenolpyruvate:carbohydrate phosphotransferase system (PTS). In these systems, EII is either a lichenan- or an N; Region: PTS_IIB_chitobiose_lichenan; cd05564 930944008990 active site 930944008991 P-loop; other site 930944008992 phosphorylation site [posttranslational modification] 930944008993 Phosphotransferase system cellobiose-specific component IIC [Carbohydrate transport and metabolism]; Region: CelB; COG1455 930944008994 cellobiose phosphotransferase system IIC component; Reviewed; Region: celD; PRK09592 930944008995 PTS_IIA, PTS system, lactose/cellobiose 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_lac; cd00215 930944008996 methionine cluster; other site 930944008997 active site 930944008998 phosphorylation site [posttranslational modification] 930944008999 metal binding site [ion binding]; metal-binding site 930944009000 fructokinase; Reviewed; Region: PRK09557 930944009001 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 930944009002 nucleotide binding site [chemical binding]; other site 930944009003 Transcriptional regulators [Transcription]; Region: PurR; COG1609 930944009004 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 930944009005 DNA binding site [nucleotide binding] 930944009006 domain linker motif; other site 930944009007 Ligand binding domain of the LacI tanscriptional regulator family belonging to the type I periplasmic-binding fold protein superfamily; Region: PBP1_LacI_sugar_binding_like; cd06267 930944009008 ligand binding site [chemical binding]; other site 930944009009 dimerization interface [polypeptide binding]; other site 930944009010 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 930944009011 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 930944009012 Coenzyme A binding pocket [chemical binding]; other site 930944009013 Methyltransferase domain; Region: Methyltransf_27; pfam13708 930944009014 Protein of unknown function (DUF1219); Region: DUF1219; pfam06755 930944009015 YagB/YeeU/YfjZ family; Region: YagB_YeeU_YfjZ; pfam06154 930944009016 Transposase, Mutator family; Region: Transposase_mut; pfam00872 930944009017 MULE transposase domain; Region: MULE; pfam10551 930944009018 Lysophospholipase [Lipid metabolism]; Region: PldB; COG2267 930944009019 haemagglutination activity domain; Region: Haemagg_act; pfam05860 930944009020 Hemolysin activation/secretion protein [Intracellular trafficking and secretion]; Region: FhaC; COG2831 930944009021 POTRA domain, ShlB-type; Region: POTRA_2; pfam08479 930944009022 Haemolysin secretion/activation protein ShlB/FhaC/HecB; Region: ShlB; pfam03865 930944009023 haemagglutination activity domain; Region: Haemagg_act; pfam05860 930944009024 regulatory protein UhpC; Provisional; Region: PRK11663 930944009025 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 930944009026 putative substrate translocation pore; other site 930944009027 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 930944009028 sensory histidine kinase UhpB; Provisional; Region: PRK11644 930944009029 MASE1; Region: MASE1; pfam05231 930944009030 Histidine kinase; Region: HisKA_3; pfam07730 930944009031 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 930944009032 ATP binding site [chemical binding]; other site 930944009033 Mg2+ binding site [ion binding]; other site 930944009034 G-X-G motif; other site 930944009035 DNA-binding transcriptional activator UhpA; Provisional; Region: PRK10360 930944009036 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 930944009037 active site 930944009038 phosphorylation site [posttranslational modification] 930944009039 intermolecular recognition site; other site 930944009040 dimerization interface [polypeptide binding]; other site 930944009041 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 930944009042 DNA binding residues [nucleotide binding] 930944009043 dimerization interface [polypeptide binding]; other site 930944009044 phosphoethanolamine transferase; Provisional; Region: PRK11560 930944009045 Domain of unknown function (DUF1705); Region: DUF1705; pfam08019 930944009046 Sulfatase; Region: Sulfatase; pfam00884 930944009047 peroxiredoxin, Ohr subfamily; Region: organ_hyd_perox; TIGR03561 930944009048 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 930944009049 Transposase; Region: DEDD_Tnp_IS110; pfam01548 930944009050 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 930944009051 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 930944009052 The substrate-binding component of an ABC-type dipeptide import system contains the type 2 periplasmic binding fold; Region: PBP2_DppA_like; cd08493 930944009053 peptide binding site [polypeptide binding]; other site 930944009054 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 930944009055 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 930944009056 dimer interface [polypeptide binding]; other site 930944009057 conserved gate region; other site 930944009058 putative PBP binding loops; other site 930944009059 ABC-ATPase subunit interface; other site 930944009060 dipeptide transporter; Provisional; Region: PRK10913 930944009061 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 930944009062 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 930944009063 dimer interface [polypeptide binding]; other site 930944009064 conserved gate region; other site 930944009065 putative PBP binding loops; other site 930944009066 ABC-ATPase subunit interface; other site 930944009067 dipeptide transporter ATP-binding subunit; Provisional; Region: dppD; PRK11022 930944009068 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 930944009069 Walker A/P-loop; other site 930944009070 ATP binding site [chemical binding]; other site 930944009071 Q-loop/lid; other site 930944009072 ABC transporter signature motif; other site 930944009073 Walker B; other site 930944009074 D-loop; other site 930944009075 H-loop/switch region; other site 930944009076 oligopeptide/dipeptide ABC transporter, ATP-binding protein, C-terminal domain; Region: oligo_HPY; TIGR01727 930944009077 dipeptide transporter ATP-binding subunit; Provisional; Region: dppF; PRK11308 930944009078 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 930944009079 Walker A/P-loop; other site 930944009080 ATP binding site [chemical binding]; other site 930944009081 Q-loop/lid; other site 930944009082 ABC transporter signature motif; other site 930944009083 Walker B; other site 930944009084 D-loop; other site 930944009085 H-loop/switch region; other site 930944009086 oligopeptide/dipeptide ABC transporter, ATP-binding protein, C-terminal domain; Region: oligo_HPY; TIGR01727 930944009087 Protein of unknown function (DUF3260); Region: DUF3260; pfam11658 930944009088 Protein of unknown function (DUF2636); Region: DUF2636; cl11897 930944009089 cellulose biosynthesis protein BcsE; Provisional; Region: PRK15045 930944009090 Protein of unknown function (DUF2819); Region: DUF2819; pfam10995 930944009091 Protein of unknown function (DUF2629); Region: DUF2629; pfam10945 930944009092 YhjQ protein; Region: YhjQ; pfam06564 930944009093 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 930944009094 cellulose synthase catalytic subunit; Provisional; Region: bcsA; PRK11498 930944009095 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 930944009096 CESA_CelA_like are involved in the elongation of the glucan chain of cellulose; Region: CESA_CelA_like; cd06421 930944009097 DXD motif; other site 930944009098 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 930944009099 PilZ domain; Region: PilZ; pfam07238 930944009100 cellulose synthase regulator protein; Provisional; Region: PRK11114 930944009101 endo-1,4-D-glucanase; Provisional; Region: PRK11097 930944009102 potential frameshift: common BLAST hit: gi|332163410|ref|YP_004299987.1| cellulose synthase subunit BcsC 930944009103 cellulose synthase subunit BcsC; Provisional; Region: PRK11447 930944009104 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 930944009105 binding surface 930944009106 TPR repeat; Region: TPR_11; pfam13414 930944009107 TPR motif; other site 930944009108 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 930944009109 binding surface 930944009110 Tetratricopeptide repeat; Region: TPR_16; pfam13432 930944009111 TPR motif; other site 930944009112 Tetratricopeptide repeat; Region: TPR_16; pfam13432 930944009113 Cellulose synthase operon protein C C-terminus (BCSC_C); Region: BCSC_C; pfam05420 930944009114 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 930944009115 Oligogalacturonate-specific porin protein (KdgM); Region: KdgM; pfam06178 930944009116 Periplasmic pectate lyase; Region: Pectate_lyase_2; pfam06917 930944009117 F5/8 type C domain; Region: F5_F8_type_C; pfam00754 930944009118 sugar binding site [chemical binding]; other site 930944009119 C4-dicarboxylate transporter DctA; Reviewed; Region: PRK01663 930944009120 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 930944009121 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 930944009122 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 930944009123 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 930944009124 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 930944009125 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 930944009126 substrate binding site [chemical binding]; other site 930944009127 ATP binding site [chemical binding]; other site 930944009128 4-Oxalocrotonate Tautomerase: Catalyzes the isomerization of unsaturated ketones. The structure is a homohexamer that is arranged as a trimer of dimers. The hexamer contains six active sites, each formed by residues from three monomers, two from one...; Region: 4Oxalocrotonate_Tautomerase; cd00491 930944009129 active site 1 [active] 930944009130 dimer interface [polypeptide binding]; other site 930944009131 hexamer interface [polypeptide binding]; other site 930944009132 active site 2 [active] 930944009133 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 930944009134 Uncharacterized protein involved in outer membrane biogenesis [Cell envelope biogenesis, outer membrane]; Region: AsmA; COG2982 930944009135 AsmA-like C-terminal region; Region: AsmA_2; pfam13502 930944009136 CDP-diacylglycerol pyrophosphatase; Provisional; Region: PRK05471 930944009137 inner membrane protein YhjD; Region: TIGR00766 930944009138 Pertactin-like passenger domains (virulence factors) of autotransporter proteins of the type V secretion system. Autotransporters are proteins used by Gram-negative bacteria to transport proteins across their outer membranes. The C-terminal (beta) domain...; Region: PL_Passenger_AT; cd00253 930944009139 outer membrane autotransporter barrel domain; Region: autotrans_barl; TIGR01414 930944009140 Autotransporter beta-domain; Region: Autotransporter; smart00869 930944009141 glutathione reductase; Validated; Region: PRK06116 930944009142 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 930944009143 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 930944009144 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 930944009145 Protein involved in catabolism of external DNA [General function prediction only]; Region: ComJ; COG2961 930944009146 oligopeptidase A; Provisional; Region: PRK10911 930944009147 Peptidase family M3 dipeptidyl carboxypeptidase (DCP); Region: M3A_DCP; cd06456 930944009148 active site 930944009149 Zn binding site [ion binding]; other site 930944009150 putative methyltransferase; Provisional; Region: PRK10742 930944009151 Zinc-dependent metalloprotease, serralysin_like subfamily. Serralysins and related proteases are important virulence factors in pathogenic bacteria. They may be secreted into the medium via a mechanism found in gram-negative bacteria, that does not...; Region: ZnMc_serralysin_like; cd04277 930944009152 active site 930944009153 Peptidase M10 serralysin C terminal; Region: Peptidase_M10_C; pfam08548 930944009154 glutamate dehydrogenase; Provisional; Region: PRK09414 930944009155 Glu/Leu/Phe/Val dehydrogenase, dimerisation domain; Region: ELFV_dehydrog_N; pfam02812 930944009156 NAD(P) binding domain of glutamate dehydrogenase, subgroup 2; Region: NAD_bind_2_Glu_DH; cd05313 930944009157 NAD(P) binding site [chemical binding]; other site 930944009158 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 930944009159 Ligand Binding Site [chemical binding]; other site 930944009160 universal stress protein UspB; Provisional; Region: PRK04960 930944009161 Phosphate/sulphate permeases [Inorganic ion transport and metabolism]; Region: PitA; COG0306 930944009162 Phosphate/sulphate permeases [Inorganic ion transport and metabolism]; Region: PitA; COG0306 930944009163 Predicted flavoproteins [General function prediction only]; Region: COG2081 930944009164 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 930944009165 Sodium:dicarboxylate symporter family; Region: SDF; cl00573 930944009166 Domain of unknown function (DUF4387); Region: DUF4387; pfam14330 930944009167 Protein of unknown function (DUF1446); Region: DUF1446; pfam07287 930944009168 Methylaspartate ammonia-lyase [Amino acid transport and metabolism]; Region: Mal; COG3799 930944009169 Methylaspartate ammonia lyase (3-methylaspartase, MAL) is a homodimeric enzyme, catalyzing the magnesium-dependent reversible alpha,beta-elimination of ammonia from L-threo-(2S,3S)-3-methylaspartic acid to mesaconic acid. This reaction is part of the...; Region: MAL; cd03314 930944009170 dimer interface [polypeptide binding]; other site 930944009171 active site 930944009172 Coenzyme B12-dependent glutamate mutase epsilon subunit-like family; contains proteins similar to Clostridium cochlearium glutamate mutase (Glm) and Streptomyces tendae Tu901 NikV. Glm catalyzes a carbon-skeleton rearrangement of L-glutamate to...; Region: Glm_e; cd00245 930944009173 substrate binding site [chemical binding]; other site 930944009174 B12 cofactor binding site [chemical binding]; other site 930944009175 heterodimer (sigma-epsilon) interface [polypeptide binding]; other site 930944009176 homodimer (epsilon-epsilon) interface [polypeptide binding]; other site 930944009177 conserved hypothetical protein; Region: glmL_fam; TIGR01319 930944009178 B12 binding domain of glutamate mutase (Glm). Glutamate mutase catalysis the conversion of (S)-glutamate with (2S,3S)-3-methylaspartate. The rearrangement reaction is initiated by the extraction of a hydrogen from the protein-bound substrate by a 5'...; Region: Glm_B12_BD; cd02072 930944009179 B12 binding site [chemical binding]; other site 930944009180 heterodimer interface [polypeptide binding]; other site 930944009181 cobalt ligand [ion binding]; other site 930944009182 Protein involved in propanediol utilization, and related proteins (includes coumermycin biosynthetic protein), possible kinase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: PduX; COG4542 930944009183 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 930944009184 Uroporphyrin-III C-methyltransferase (S-Adenosyl-L-methionine:uroporphyrinogen III methyltransferase, SUMT); Region: SUMT; cd11642 930944009185 active site 930944009186 SAM binding site [chemical binding]; other site 930944009187 homodimer interface [polypeptide binding]; other site 930944009188 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 930944009189 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 930944009190 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 930944009191 dimerization interface [polypeptide binding]; other site 930944009192 fumarate hydratase; Provisional; Region: PRK15389 930944009193 Tartrate dehydratase alpha subunit/Fumarate hydratase class I, N-terminal domain [Energy production and conversion]; Region: TtdA; COG1951 930944009194 Fumarase C-terminus; Region: Fumerase_C; pfam05683 930944009195 ATP:corrinoid adenosyltransferase [Coenzyme metabolism]; Region: BtuR; COG2109 930944009196 cob(I)alamin adenolsyltransferase/cobinamide ATP-dependent adenolsyltransferase; Validated; Region: PRK05986 930944009197 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 930944009198 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 930944009199 active site 930944009200 motif I; other site 930944009201 motif II; other site 930944009202 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 930944009203 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 930944009204 Transcriptional regulator [Transcription]; Region: LysR; COG0583 930944009205 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 930944009206 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 930944009207 putative effector binding pocket; other site 930944009208 dimerization interface [polypeptide binding]; other site 930944009209 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 930944009210 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 930944009211 putative substrate translocation pore; other site 930944009212 Methylmalonate semialdehyde dehydrogenase and ALDH family members 6A1 and 6B2; Region: ALDH_F6_MMSDH; cd07085 930944009213 methylmalonic acid semialdehyde dehydrogenase; Region: MMSDH; TIGR01722 930944009214 tetrameric interface [polypeptide binding]; other site 930944009215 NAD binding site [chemical binding]; other site 930944009216 catalytic residues [active] 930944009217 Uncharacterized enzyme involved in inositol metabolism [Carbohydrate transport and metabolism]; Region: IolB; COG3718 930944009218 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 930944009219 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 930944009220 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 930944009221 putative active site [active] 930944009222 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 930944009223 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 930944009224 substrate binding site [chemical binding]; other site 930944009225 ATP binding site [chemical binding]; other site 930944009226 Uncharacterized protein conserved in bacteria (DUF2090); Region: DUF2090; pfam09863 930944009227 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3892 930944009228 Acetolactate synthase [Amino acid transport and metabolism]; Region: COG3962 930944009229 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 930944009230 dimer interface [polypeptide binding]; other site 930944009231 PYR/PP interface [polypeptide binding]; other site 930944009232 TPP binding site [chemical binding]; other site 930944009233 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 930944009234 Thiamine pyrophosphate (TPP) family, IolD subfamily, TPP-binding module; composed of proteins similar to Rhizobium leguminosarum bv. viciae IolD. IolD plays an important role in myo-inositol catabolism; Region: TPP_IolD; cd02003 930944009235 TPP-binding site; other site 930944009236 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 930944009237 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 930944009238 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 930944009239 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 930944009240 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 930944009241 putative acetyltransferase YhhY; Provisional; Region: PRK10140 930944009242 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 930944009243 Coenzyme A binding pocket [chemical binding]; other site 930944009244 Pirin-related protein [General function prediction only]; Region: COG1741 930944009245 Pirin; Region: Pirin; pfam02678 930944009246 gluconate operon transcriptional regulator; Provisional; Region: PRK14987 930944009247 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 930944009248 DNA binding site [nucleotide binding] 930944009249 domain linker motif; other site 930944009250 Ligand-binding domain of DNA transcription repressor GntR specific for gluconate, a member of the LacI-GalR family of bacterial transcription regulators; Region: PBP1_GntR; cd01575 930944009251 putative ligand binding site [chemical binding]; other site 930944009252 putative dimerization interface [polypeptide binding]; other site 930944009253 high-affinity gluconate transporter; Provisional; Region: PRK14984 930944009254 gluconate transporter; Region: gntP; TIGR00791 930944009255 Gluconate kinase (GntK) catalyzes the phosphoryl transfer from ATP to gluconate. The resulting product gluconate-6-phoshate is an important precursor of gluconate metabolism. GntK acts as a dimmer composed of two identical subunits; Region: GntK; cd02021 930944009256 AAA domain; Region: AAA_33; pfam13671 930944009257 ATP-binding site [chemical binding]; other site 930944009258 Gluconate-6-phosphate binding site [chemical binding]; other site 930944009259 putative antibiotic transporter; Provisional; Region: PRK10739 930944009260 aspartate-semialdehyde dehydrogenase; Reviewed; Region: PRK06598 930944009261 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 930944009262 acetolactate synthase; Reviewed; Region: PRK08617 930944009263 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 930944009264 PYR/PP interface [polypeptide binding]; other site 930944009265 dimer interface [polypeptide binding]; other site 930944009266 TPP binding site [chemical binding]; other site 930944009267 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 930944009268 Thiamine pyrophosphate (TPP) family, Acetolactate synthase (ALS) subfamily, TPP-binding module; composed of proteins similar to Klebsiella pneumoniae ALS, a catabolic enzyme required for butanediol fermentation. ALS catalyzes the conversion of 2...; Region: TPP_ALS; cd02010 930944009269 TPP-binding site [chemical binding]; other site 930944009270 dimer interface [polypeptide binding]; other site 930944009271 Alpha-acetolactate decarboxylase; Region: AAL_decarboxy; pfam03306 930944009272 Transcriptional regulator [Transcription]; Region: LysR; COG0583 930944009273 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 930944009274 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 930944009275 putative dimerization interface [polypeptide binding]; other site 930944009276 putative substrate binding pocket [chemical binding]; other site 930944009277 Putative regulator of cell autolysis [Signal transduction mechanisms]; Region: LytS; COG3275 930944009278 5TMR of 5TMR-LYT; Region: 5TM-5TMR_LYT; pfam07694 930944009279 Histidine kinase; Region: His_kinase; pfam06580 930944009280 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 930944009281 ATP binding site [chemical binding]; other site 930944009282 Mg2+ binding site [ion binding]; other site 930944009283 G-X-G motif; other site 930944009284 glycogen branching enzyme; Provisional; Region: PRK05402 930944009285 N-terminal Early set domain associated with the catalytic domain of prokaryotic glycogen branching enzyme; Region: E_set_GBE_prok_N; cd02855 930944009286 Alpha amylase catalytic domain found in the Glycogen branching enzyme (also called 1,4-alpha-glucan branching enzyme); Region: AmyAc_Glg_BE; cd11322 930944009287 active site 930944009288 catalytic site [active] 930944009289 Alpha amylase, C-terminal all-beta domain; Region: Alpha-amylase_C; pfam02806 930944009290 glycogen debranching enzyme; Provisional; Region: PRK03705 930944009291 N-terminal Early set domain associated with the catalytic domain of Glycogen debranching enzyme and bacterial isoamylase (also called glycogen 6-glucanohydrolase); Region: E_set_GDE_Isoamylase_N; cd02856 930944009292 Alpha amylase catalytic domain found in glycogen debranching enzymes; Region: AmyAc_Glg_debranch; cd11326 930944009293 active site 930944009294 catalytic site [active] 930944009295 glucose-1-phosphate adenylyltransferase; Provisional; Region: glgC; PRK00725 930944009296 ADP-glucose pyrophosphorylase is involved in the biosynthesis of glycogen or starch; Region: ADP_Glucose_PP; cd02508 930944009297 ligand binding site; other site 930944009298 oligomer interface; other site 930944009299 Glucose-1-phosphate adenylyltransferase, C-terminal Left-handed parallel beta helix (LbH) domain: Glucose-1-phosphate adenylyltransferase is also known as ADP-glucose synthase or ADP-glucose pyrophosphorylase. It catalyzes the first committed and...; Region: LbH_G1P_AT_C; cd04651 930944009300 sulfate 1 binding site; other site 930944009301 glycogen synthase; Provisional; Region: glgA; PRK00654 930944009302 This family is most closely related to the GT1 family of glycosyltransferases. Glycogen synthase catalyzes the formation and elongation of the alpha-1,4-glucose backbone using ADP-glucose, the second and key step of glycogen biosynthesis. This family...; Region: GT1_Glycogen_synthase_DULL1_like; cd03791 930944009303 ADP-binding pocket [chemical binding]; other site 930944009304 homodimer interface [polypeptide binding]; other site 930944009305 glycogen phosphorylase; Provisional; Region: PRK14986 930944009306 This is a family of oligosaccharide phosphorylases. It includes yeast and mammalian glycogen phosphorylases, plant starch/glucan phosphorylase, as well as the maltodextrin phosphorylases of bacteria. The members of this family catalyze the breakdown of...; Region: GT1_Glycogen_Phosphorylase; cd04300 930944009307 homodimer interface [polypeptide binding]; other site 930944009308 active site pocket [active] 930944009309 glycerol-3-phosphate dehydrogenase; Reviewed; Region: glpD; PRK12266 930944009310 DNA-binding transcriptional repressor GlpR; Provisional; Region: PRK10906 930944009311 DeoR-like helix-turn-helix domain; Region: HTH_DeoR; pfam08220 930944009312 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 930944009313 intramembrane serine protease GlpG; Provisional; Region: PRK10907 930944009314 Protein of unknown function (DUF3582); Region: DUF3582; pfam12122 930944009315 Membrane associated serine protease [Amino acid transport and metabolism]; Region: COG0705 930944009316 GlpE sulfurtransferase (ST) and homologs are members of the Rhodanese Homology Domain superfamily. Unlike other rhodanese sulfurtransferases, GlpE is a single domain protein but indications are that it functions as a dimer. The active site contains a...; Region: GlpE_ST; cd01444 930944009317 active site residue [active] 930944009318 transcriptional regulator MalT; Provisional; Region: PRK04841 930944009319 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 930944009320 DNA binding residues [nucleotide binding] 930944009321 dimerization interface [polypeptide binding]; other site 930944009322 maltodextrin phosphorylase; Provisional; Region: PRK14985 930944009323 This is a family of oligosaccharide phosphorylases. It includes yeast and mammalian glycogen phosphorylases, plant starch/glucan phosphorylase, as well as the maltodextrin phosphorylases of bacteria. The members of this family catalyze the breakdown of...; Region: GT1_Glycogen_Phosphorylase; cd04300 930944009324 active site pocket [active] 930944009325 4-alpha-glucanotransferase; Provisional; Region: malQ; PRK11052 930944009326 4-alpha-glucanotransferase [Carbohydrate transport and metabolism]; Region: MalQ; COG1640 930944009327 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 930944009328 Transposase; Region: DEDD_Tnp_IS110; pfam01548 930944009329 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 930944009330 Fe/S biogenesis protein NfuA; Provisional; Region: PRK11190 930944009331 Fe-S cluster assembly scaffold protein [Posttranslational modification, protein turnover, chaperones]; Region: sufA; COG0316 930944009332 Thioredoxin-like proteins and domains [Posttranslational modification, protein turnover, chaperones]; Region: COG0694 930944009333 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 930944009334 active site 930944009335 carboxylesterase BioH; Provisional; Region: PRK10349 930944009336 homoserine O-acetyltransferase; Provisional; Region: metX; cl17114 930944009337 Protein of unknown function (DUF1471); Region: DUF1471; pfam07338 930944009338 FeoC like transcriptional regulator; Region: FeoC; cl17677 930944009339 ferrous iron transport protein B; Reviewed; Region: feoB; PRK09554 930944009340 Ferrous iron transport protein B (FeoB) family; Region: FeoB; cd01879 930944009341 G1 box; other site 930944009342 GTP/Mg2+ binding site [chemical binding]; other site 930944009343 Switch I region; other site 930944009344 G2 box; other site 930944009345 G3 box; other site 930944009346 Switch II region; other site 930944009347 G4 box; other site 930944009348 G5 box; other site 930944009349 Nucleoside recognition; Region: Gate; pfam07670 930944009350 Ferrous iron transport protein B C terminus; Region: FeoB_C; pfam07664 930944009351 Nucleoside recognition; Region: Gate; pfam07670 930944009352 ferrous iron transport protein A; Reviewed; Region: feoA; PRK09555 930944009353 Transcriptional accessory protein [Transcription]; Region: Tex; COG2183 930944009354 Tex-like protein N-terminal domain; Region: Tex_N; pfam09371 930944009355 Likely ribonuclease with RNase H fold; Region: YqgFc; smart00732 930944009356 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 930944009357 RNA binding site [nucleotide binding]; other site 930944009358 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cl17904 930944009359 Major Facilitator Superfamily; Region: MFS_1; pfam07690 930944009360 transcription elongation factor GreB; Reviewed; Region: greB; PRK01885 930944009361 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 930944009362 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 930944009363 osmolarity response regulator; Provisional; Region: ompR; PRK09468 930944009364 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 930944009365 active site 930944009366 phosphorylation site [posttranslational modification] 930944009367 intermolecular recognition site; other site 930944009368 dimerization interface [polypeptide binding]; other site 930944009369 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 930944009370 DNA binding site [nucleotide binding] 930944009371 osmolarity sensor protein; Provisional; Region: envZ; PRK09467 930944009372 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 930944009373 dimerization interface [polypeptide binding]; other site 930944009374 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 930944009375 dimer interface [polypeptide binding]; other site 930944009376 phosphorylation site [posttranslational modification] 930944009377 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 930944009378 ATP binding site [chemical binding]; other site 930944009379 Mg2+ binding site [ion binding]; other site 930944009380 G-X-G motif; other site 930944009381 Phosphoenolpyruvate carboxykinase; Region: PEPCK_ATP; pfam01293 930944009382 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 930944009383 active site 930944009384 substrate-binding site [chemical binding]; other site 930944009385 metal-binding site [ion binding] 930944009386 ATP binding site [chemical binding]; other site 930944009387 Hsp33-like chaperonin; Reviewed; Region: hslO; PRK00114 930944009388 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 930944009389 dimerization interface [polypeptide binding]; other site 930944009390 domain crossover interface; other site 930944009391 redox-dependent activation switch; other site 930944009392 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 930944009393 RNA binding surface [nucleotide binding]; other site 930944009394 Predicted hydrolase (HAD superfamily) [General function prediction only]; Region: COG1011 930944009395 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 930944009396 motif II; other site 930944009397 Intracellular growth attenuator protein IgaA; Region: IgaA; pfam07095 930944009398 Intracellular growth attenuator protein IgaA; Region: IgaA; pfam07095 930944009399 adenosine nucleotide hydrolase NudE; Provisional; Region: nudE; PRK11762 930944009400 ADP-ribose pyrophosphatase (ADPRase) catalyzes the hydrolysis of ADP-ribose and a variety of additional ADP-sugar conjugates to AMP and ribose-5-phosphate. Like other members of the Nudix hydrolase superfamily, it requires a divalent cation, such as Mg2+; Region: ADPRase_NUDT5; cd03424 930944009401 ADP-ribose binding site [chemical binding]; other site 930944009402 dimer interface [polypeptide binding]; other site 930944009403 active site 930944009404 nudix motif; other site 930944009405 metal binding site [ion binding]; metal-binding site 930944009406 penicillin-binding protein 1a; Provisional; Region: mrcA; PRK11636 930944009407 Transglycosylase; Region: Transgly; pfam00912 930944009408 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 930944009409 Tfp pilus assembly protein, ATPase PilM [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilM; COG4972 930944009410 Tfp pilus assembly protein PilN [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilN; COG3166 930944009411 Fimbrial assembly protein (PilN); Region: PilN; pfam05137 930944009412 putative outer membrane porin HofQ; Provisional; Region: hofQ; PRK13568 930944009413 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 930944009414 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 930944009415 shikimate kinase; Reviewed; Region: aroK; PRK00131 930944009416 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 930944009417 ADP binding site [chemical binding]; other site 930944009418 magnesium binding site [ion binding]; other site 930944009419 putative shikimate binding site; other site 930944009420 Dehydroquinate synthase (DHQS) catalyzes the conversion of DAHP to DHQ in shikimate pathway for aromatic compounds synthesis; Region: DHQS; cd08195 930944009421 active site 930944009422 dimer interface [polypeptide binding]; other site 930944009423 metal binding site [ion binding]; metal-binding site 930944009424 hypothetical protein; Reviewed; Region: PRK11901 930944009425 cell division protein DamX; Validated; Region: PRK10905 930944009426 DNA adenine methylase; Provisional; Region: PRK10904 930944009427 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 930944009428 ribulose-phosphate 3-epimerase; Region: rpe; TIGR01163 930944009429 substrate binding site [chemical binding]; other site 930944009430 hexamer interface [polypeptide binding]; other site 930944009431 metal binding site [ion binding]; metal-binding site 930944009432 phosphoglycolate phosphatase; Provisional; Region: PRK13222 930944009433 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 930944009434 motif II; other site 930944009435 tryptophanyl-tRNA synthetase II; Reviewed; Region: PRK12282 930944009436 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 930944009437 active site 930944009438 HIGH motif; other site 930944009439 dimer interface [polypeptide binding]; other site 930944009440 KMSKS motif; other site 930944009441 siroheme synthase; Provisional; Region: cysG; PRK10637 930944009442 Putative NAD(P)-binding; Region: NAD_binding_7; pfam13241 930944009443 Sirohaem synthase dimerisation region; Region: CysG_dimeriser; pfam10414 930944009444 Uroporphyrin-III C-methyltransferase (S-Adenosyl-L-methionine:uroporphyrinogen III methyltransferase, SUMT); Region: SUMT; cd11642 930944009445 active site 930944009446 SAM binding site [chemical binding]; other site 930944009447 homodimer interface [polypeptide binding]; other site 930944009448 nitrite transporter NirC; Provisional; Region: PRK11562 930944009449 Assimilatory nitrite reductase (NirD) family, Rieske domain; Assimilatory nitrate and nitrite reductases convert nitrate through nitrite to ammonium. Members include bacterial and fungal proteins. The bacterial NirD contains a single Rieske domain while...; Region: Rieske_NirD; cd03529 930944009450 nitrite reductase subunit NirD; Provisional; Region: PRK14989 930944009451 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 930944009452 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; pfam04324 930944009453 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 930944009454 cytosine deaminase; Provisional; Region: PRK09230 930944009455 Bacterial cytosine deaminase and related metal-dependent hydrolases. Cytosine deaminases (CDs) catalyze the deamination of cytosine, producing uracil and ammonia. They play an important role in pyrimidine salvage. CDs are present in prokaryotes and fungi; Region: Bact_CD; cd01293 930944009456 active site 930944009457 putative transporter; Provisional; Region: PRK03699 930944009458 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 930944009459 putative substrate translocation pore; other site 930944009460 Transcriptional regulators [Transcription]; Region: PurR; COG1609 930944009461 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 930944009462 DNA binding site [nucleotide binding] 930944009463 domain linker motif; other site 930944009464 Ligand binding domain of DNA transcription iso-repressor GalS, which is one of two regulatory proteins involved in galactose transport and metabolism; Region: PBP1_GalS_like; cd06270 930944009465 dimerization interface (closed form) [polypeptide binding]; other site 930944009466 ligand binding site [chemical binding]; other site 930944009467 Alpha-galactosidases/6-phospho-beta-glucosidases, family 4 of glycosyl hydrolases [Carbohydrate transport and metabolism]; Region: CelF; COG1486 930944009468 Glycoside Hydrolases Family 4; Phospho-beta-glucosidase; Region: GH4_P_beta_glucosidase; cd05296 930944009469 NAD binding site [chemical binding]; other site 930944009470 sugar binding site [chemical binding]; other site 930944009471 divalent metal binding site [ion binding]; other site 930944009472 tetramer (dimer of dimers) interface [polypeptide binding]; other site 930944009473 dimer interface [polypeptide binding]; other site 930944009474 peptidyl-prolyl cis-trans isomerase A (rotamase A); Provisional; Region: PRK10903 930944009475 cyclophilin_EcCYP_like: cyclophilin-type A-like peptidylprolyl cis- trans isomerase (PPIase) domain similar to the cytosolic E. coli cyclophilin A and Streptomyces antibioticus SanCyp18. Compared to the archetypal cyclophilin Human cyclophilin A, these...; Region: cyclophilin_EcCYP_like; cd01920 930944009476 substrate binding site [chemical binding]; other site 930944009477 Bacterial protein of unknown function (DUF853); Region: DUF853; pfam05872 930944009478 DEAD-like helicases superfamily. A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region; Region: DEXDc; cl17251 930944009479 para-aminobenzoate synthase component II; Provisional; Region: PRK08857 930944009480 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 930944009481 glutamine binding [chemical binding]; other site 930944009482 catalytic triad [active] 930944009483 potential frameshift: common BLAST hit: gi|332163292|ref|YP_004299869.1| bifunctional 930944009484 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 930944009485 inhibitor-cofactor binding pocket; inhibition site 930944009486 pyridoxal 5'-phosphate binding site [chemical binding]; other site 930944009487 catalytic residue [active] 930944009488 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 930944009489 integral membrane protein, YccS/YhfK family; Region: YCCS_YHJK; TIGR01667 930944009490 FUSC-like inner membrane protein yccS; Region: FUSC-like; pfam12805 930944009491 Fusaric acid resistance protein-like; Region: FUSC_2; pfam13515 930944009492 DNA-binding transcriptional dual regulator Crp; Provisional; Region: PRK11753 930944009493 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 930944009494 ligand binding site [chemical binding]; other site 930944009495 flexible hinge region; other site 930944009496 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 930944009497 putative switch regulator; other site 930944009498 non-specific DNA interactions [nucleotide binding]; other site 930944009499 DNA binding site [nucleotide binding] 930944009500 sequence specific DNA binding site [nucleotide binding]; other site 930944009501 putative cAMP binding site [chemical binding]; other site 930944009502 hypothetical protein; Provisional; Region: PRK10738 930944009503 phosphoribulokinase; Provisional; Region: PRK15453 930944009504 active site 930944009505 hypothetical protein; Provisional; Region: PRK04966 930944009506 putative hydrolase; Provisional; Region: PRK10985 930944009507 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 930944009508 Predicted epimerase, PhzC/PhzF homolog [General function prediction only]; Region: COG0384 930944009509 ABC-type taurine transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: TauA; COG4521 930944009510 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 930944009511 substrate binding pocket [chemical binding]; other site 930944009512 membrane-bound complex binding site; other site 930944009513 hinge residues; other site 930944009514 taurine transporter ATP-binding subunit; Provisional; Region: tauB; PRK11248 930944009515 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 930944009516 Walker A/P-loop; other site 930944009517 ATP binding site [chemical binding]; other site 930944009518 Q-loop/lid; other site 930944009519 ABC transporter signature motif; other site 930944009520 Walker B; other site 930944009521 D-loop; other site 930944009522 H-loop/switch region; other site 930944009523 taurine transporter subunit; Provisional; Region: PRK10160 930944009524 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 930944009525 Probable taurine catabolism dioxygenase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: TauD; COG2175 930944009526 taurine dioxygenase; Reviewed; Region: tauD; PRK09553 930944009527 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 930944009528 Lipopolysaccharide heptosyltransferase is involved in the biosynthesis of lipooligosaccharide (LOS). Lipopolysaccharide (LPS) is a major component of the outer membrane of gram-negative bacteria. LPS heptosyltransferase transfers heptose molecules from...; Region: GT1_LPS_heptosyltransferase; cd03789 930944009529 putative active site [active] 930944009530 putative glycosyl transferase; Provisional; Region: PRK10073 930944009531 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 930944009532 active site 930944009533 putative ABC transporter ATP-binding protein; Provisional; Region: PRK10636 930944009534 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 930944009535 Walker A/P-loop; other site 930944009536 ATP binding site [chemical binding]; other site 930944009537 Q-loop/lid; other site 930944009538 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 930944009539 ABC transporter signature motif; other site 930944009540 Walker B; other site 930944009541 D-loop; other site 930944009542 ABC transporter; Region: ABC_tran_2; pfam12848 930944009543 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 930944009544 glutathione-regulated potassium-efflux system ancillary protein KefG; Provisional; Region: PRK04930 930944009545 glutathione-regulated potassium-efflux system protein KefB; Provisional; Region: PRK03659 930944009546 transporter, monovalent cation:proton antiporter-2 (CPA2) family; Region: 2a37; TIGR00932 930944009547 TrkA-N domain; Region: TrkA_N; pfam02254 930944009548 Predicted nucleic-acid-binding protein containing a Zn-ribbon domain [General function prediction only]; Region: COG3529 930944009549 FKBP-type peptidyl-prolyl cis-trans isomerase; Provisional; Region: PRK15095 930944009550 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 930944009551 SlyX; Region: SlyX; cl01090 930944009552 FKBP-type peptidyl-prolyl cis-trans isomerases 1 [Posttranslational modification, protein turnover, chaperones]; Region: FkpA; COG0545 930944009553 Domain amino terminal to FKBP-type peptidyl-prolyl isomerase; Region: FKBP_N; pfam01346 930944009554 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 930944009555 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2964 930944009556 YheO-like PAS domain; Region: PAS_6; pfam08348 930944009557 HTH domain; Region: HTH_22; pfam13309 930944009558 sulfur transfer complex subunit TusD; Validated; Region: PRK00207 930944009559 sulfur relay protein TusC; Validated; Region: PRK00211 930944009560 sulfur transfer complex subunit TusB; Provisional; Region: PRK13510 930944009561 S12-like family, 30S ribosomal protein S12 subfamily; S12 is located at the interface of the large and small ribosomal subunits of prokaryotes, chloroplasts and mitochondria, where it plays an important role in both tRNA and ribosomal subunit...; Region: Ribosomal_S12; cd03368 930944009562 S17 interaction site [polypeptide binding]; other site 930944009563 S8 interaction site; other site 930944009564 16S rRNA interaction site [nucleotide binding]; other site 930944009565 streptomycin interaction site [chemical binding]; other site 930944009566 23S rRNA interaction site [nucleotide binding]; other site 930944009567 aminoacyl-tRNA interaction site (A-site) [nucleotide binding]; other site 930944009568 30S ribosomal protein S7; Validated; Region: PRK05302 930944009569 elongation factor G; Reviewed; Region: PRK00007 930944009570 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 930944009571 G1 box; other site 930944009572 putative GEF interaction site [polypeptide binding]; other site 930944009573 GTP/Mg2+ binding site [chemical binding]; other site 930944009574 Switch I region; other site 930944009575 G2 box; other site 930944009576 G3 box; other site 930944009577 Switch II region; other site 930944009578 G4 box; other site 930944009579 G5 box; other site 930944009580 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 930944009581 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 930944009582 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 930944009583 elongation factor Tu; Reviewed; Region: PRK00049 930944009584 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 930944009585 G1 box; other site 930944009586 GEF interaction site [polypeptide binding]; other site 930944009587 GTP/Mg2+ binding site [chemical binding]; other site 930944009588 Switch I region; other site 930944009589 G2 box; other site 930944009590 G3 box; other site 930944009591 Switch II region; other site 930944009592 G4 box; other site 930944009593 G5 box; other site 930944009594 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 930944009595 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 930944009596 Antibiotic Binding Site [chemical binding]; other site 930944009597 bacterioferritin-associated ferredoxin; Provisional; Region: PRK10509 930944009598 Bacterioferritin (cytochrome b1) [Inorganic ion transport and metabolism]; Region: Bfr; COG2193 930944009599 Bacterioferritin, ferritin-like diiron-binding domain; Region: Bacterioferritin; cd00907 930944009600 heme binding site [chemical binding]; other site 930944009601 ferroxidase pore; other site 930944009602 ferroxidase diiron center [ion binding]; other site 930944009603 30S ribosomal protein S10; Reviewed; Region: rpsJ; PRK00596 930944009604 50S ribosomal protein L3; Validated; Region: rplC; PRK00001 930944009605 50S ribosomal protein L4; Provisional; Region: rplD; PRK05319 930944009606 50S ribosomal protein L23; Reviewed; Region: rplW; PRK05738 930944009607 50S ribosomal protein L2; Validated; Region: rplB; PRK09374 930944009608 Ribosomal Proteins L2, RNA binding domain; Region: Ribosomal_L2; pfam00181 930944009609 Ribosomal Proteins L2, C-terminal domain; Region: Ribosomal_L2_C; pfam03947 930944009610 30S ribosomal protein S19; Reviewed; Region: rpsS; PRK00357 930944009611 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 930944009612 protein-rRNA interface [nucleotide binding]; other site 930944009613 putative translocon binding site; other site 930944009614 30S ribosomal protein S3; Reviewed; Region: rpsC; PRK00310 930944009615 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 930944009616 G-X-X-G motif; other site 930944009617 Ribosomal protein S3, C-terminal domain; Region: Ribosomal_S3_C; pfam00189 930944009618 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 930944009619 23S rRNA interface [nucleotide binding]; other site 930944009620 5S rRNA interface [nucleotide binding]; other site 930944009621 putative antibiotic binding site [chemical binding]; other site 930944009622 L25 interface [polypeptide binding]; other site 930944009623 L27 interface [polypeptide binding]; other site 930944009624 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 930944009625 23S rRNA interface [nucleotide binding]; other site 930944009626 putative translocon interaction site; other site 930944009627 signal recognition particle (SRP54) interaction site; other site 930944009628 L23 interface [polypeptide binding]; other site 930944009629 trigger factor interaction site; other site 930944009630 50S ribosomal protein L14; Validated; Region: rplN; PRK05483 930944009631 50S ribosomal protein L24; Reviewed; Region: rplX; PRK00004 930944009632 KOW motif of Ribosomal Protein L26; Region: KOW_RPL26; cd06089 930944009633 RNA binding site [nucleotide binding]; other site 930944009634 50S ribosomal protein L5; Validated; Region: rplE; PRK00010 930944009635 Ribosomal protein L5; Region: Ribosomal_L5; pfam00281 930944009636 ribosomal L5P family C-terminus; Region: Ribosomal_L5_C; pfam00673 930944009637 30S ribosomal protein S14; Reviewed; Region: rpsN; PRK08881 930944009638 30S ribosomal protein S8; Validated; Region: rpsH; PRK00136 930944009639 50S ribosomal protein L6; Validated; Region: rplF; PRK05498 930944009640 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 930944009641 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 930944009642 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 930944009643 5S rRNA interface [nucleotide binding]; other site 930944009644 23S rRNA interface [nucleotide binding]; other site 930944009645 L5 interface [polypeptide binding]; other site 930944009646 30S ribosomal protein S5; Validated; Region: rpsE; PRK00550 930944009647 Ribosomal protein S5, N-terminal domain; Region: Ribosomal_S5; pfam00333 930944009648 Ribosomal protein S5, C-terminal domain; Region: Ribosomal_S5_C; pfam03719 930944009649 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 930944009650 23S rRNA binding site [nucleotide binding]; other site 930944009651 50S ribosomal protein L15; Reviewed; Region: rplO; PRK05592 930944009652 preprotein translocase subunit SecY; Reviewed; Region: secY; PRK09204 930944009653 SecY translocase; Region: SecY; pfam00344 930944009654 50S ribosomal protein L36; Reviewed; Region: rpmJ; PRK00465 930944009655 30S ribosomal protein S13; Validated; Region: rpsM; PRK05179 930944009656 30S ribosomal protein S13; Region: bact_S13; TIGR03631 930944009657 30S ribosomal protein S11; Validated; Region: PRK05309 930944009658 30S ribosomal protein S4; Validated; Region: rpsD; PRK05327 930944009659 Ribosomal protein S4/S9 N-terminal domain; Region: Ribosomal_S4; pfam00163 930944009660 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 930944009661 RNA binding surface [nucleotide binding]; other site 930944009662 DNA-directed RNA polymerase subunit alpha; Provisional; Region: PRK05182 930944009663 N-terminal domain of the Alpha subunit of Bacterial RNA polymerase; Region: RNAP_alpha_NTD; cd06928 930944009664 alphaNTD homodimer interface [polypeptide binding]; other site 930944009665 alphaNTD - beta interaction site [polypeptide binding]; other site 930944009666 alphaNTD - beta' interaction site [polypeptide binding]; other site 930944009667 Bacterial RNA polymerase, alpha chain C terminal domain; Region: RNA_pol_A_CTD; pfam03118 930944009668 50S ribosomal protein L17; Validated; Region: rplQ; PRK05591 930944009669 hypothetical protein; Provisional; Region: PRK10203 930944009670 zinc-responsive transcriptional regulator; Provisional; Region: zntR; PRK09514 930944009671 Helix-Turn-Helix DNA binding domain of Heavy Metal Resistance transcription regulators; Region: HTH_HMRTR; cd04770 930944009672 DNA binding residues [nucleotide binding] 930944009673 dimer interface [polypeptide binding]; other site 930944009674 metal binding site [ion binding]; metal-binding site 930944009675 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3036 930944009676 Transposase domain (DUF772); Region: DUF772; pfam05598 930944009677 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 930944009678 Large-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscL; COG1970 930944009679 large-conductance mechanosensitive channel; Reviewed; Region: mscL; PRK00567 930944009680 potassium transporter peripheral membrane component; Reviewed; Region: trkA; PRK09496 930944009681 TrkA-N domain; Region: TrkA_N; pfam02254 930944009682 TrkA-C domain; Region: TrkA_C; pfam02080 930944009683 TrkA-N domain; Region: TrkA_N; pfam02254 930944009684 TrkA-C domain; Region: TrkA_C; pfam02080 930944009685 16S rRNA methyltransferase B; Provisional; Region: PRK10901 930944009686 N-terminal RNA binding domain of the methyltransferase Sun. The rRNA-specific 5-methylcytidine transferase Sun, also known as RrmB or Fmu shares the RNA-binding non-catalytic domain with the transcription termination factor NusB. The precise biological...; Region: Methyltransferase_Sun; cd00620 930944009687 putative RNA binding site [nucleotide binding]; other site 930944009688 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 930944009689 S-adenosylmethionine binding site [chemical binding]; other site 930944009690 methionyl-tRNA formyltransferase; Reviewed; Region: fmt; PRK00005 930944009691 Methionyl-tRNA formyltransferase, N-terminal hydrolase domain; Region: FMT_core_Met-tRNA-FMT_N; cd08646 930944009692 putative active site [active] 930944009693 substrate binding site [chemical binding]; other site 930944009694 putative cosubstrate binding site; other site 930944009695 catalytic site [active] 930944009696 C-terminal domain of Formyltransferase and other enzymes; Region: Met_tRNA_FMT_C; cd08704 930944009697 substrate binding site [chemical binding]; other site 930944009698 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 930944009699 active site 930944009700 catalytic residues [active] 930944009701 metal binding site [ion binding]; metal-binding site 930944009702 hypothetical protein; Provisional; Region: PRK10736 930944009703 DNA protecting protein DprA; Region: dprA; TIGR00732 930944009704 hypothetical protein; Validated; Region: PRK03430 930944009705 Zn-finger domain associated with topoisomerase type I [DNA replication, recombination, and repair]; Region: TopA; COG0551 930944009706 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 930944009707 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 930944009708 tRNA(ANN) t(6)A37 threonylcarbamoyladenosine modification protein; Provisional; Region: PRK10634 930944009709 shikimate 5-dehydrogenase; Reviewed; Region: aroE; PRK00258 930944009710 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 930944009711 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 930944009712 shikimate binding site; other site 930944009713 NAD(P) binding site [chemical binding]; other site 930944009714 Carbonic anhydrases/acetyltransferases, isoleucine patch superfamily [General function prediction only]; Region: PaaY; COG0663 930944009715 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 930944009716 trimer interface [polypeptide binding]; other site 930944009717 putative metal binding site [ion binding]; other site 930944009718 Periplasmic binding domain of ABC-type YtfQ-like transport systems; Region: PBP1_YtfQ_like; cd06309 930944009719 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 930944009720 putative ligand binding site [chemical binding]; other site 930944009721 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 930944009722 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 930944009723 Walker A/P-loop; other site 930944009724 ATP binding site [chemical binding]; other site 930944009725 Q-loop/lid; other site 930944009726 ABC transporter signature motif; other site 930944009727 Walker B; other site 930944009728 D-loop; other site 930944009729 H-loop/switch region; other site 930944009730 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 930944009731 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 930944009732 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 930944009733 TM-ABC transporter signature motif; other site 930944009734 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 930944009735 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 930944009736 TM-ABC transporter signature motif; other site 930944009737 transcriptional regulator HdfR; Provisional; Region: PRK03601 930944009738 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 930944009739 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 930944009740 dimerization interface [polypeptide binding]; other site 930944009741 hypothetical protein; Provisional; Region: PRK11027 930944009742 Predicted ATPase with chaperone activity [Posttranslational modification, protein turnover, chaperones]; Region: COG0606 930944009743 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 930944009744 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase; pfam01078 930944009745 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase_2; pfam13335 930944009746 acetolactate synthase 2 catalytic subunit; Reviewed; Region: PRK08978 930944009747 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 930944009748 PYR/PP interface [polypeptide binding]; other site 930944009749 dimer interface [polypeptide binding]; other site 930944009750 TPP binding site [chemical binding]; other site 930944009751 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 930944009752 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 930944009753 TPP-binding site [chemical binding]; other site 930944009754 dimer interface [polypeptide binding]; other site 930944009755 acetolactate synthase 2 regulatory subunit; Provisional; Region: ilvM; PRK11152 930944009756 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 930944009757 BCAT_beta_family: Branched-chain aminotransferase catalyses the transamination of the branched-chain amino acids leusine, isoleucine and valine to their respective alpha-keto acids, alpha-ketoisocaproate, alpha-keto-beta-methylvalerate and...; Region: BCAT_beta_family; cd01557 930944009758 homodimer interface [polypeptide binding]; other site 930944009759 substrate-cofactor binding pocket; other site 930944009760 catalytic residue [active] 930944009761 dihydroxy-acid dehydratase; Provisional; Region: PRK12448 930944009762 threonine dehydratase; Reviewed; Region: PRK09224 930944009763 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 930944009764 tetramer interface [polypeptide binding]; other site 930944009765 pyridoxal 5'-phosphate binding site [chemical binding]; other site 930944009766 catalytic residue [active] 930944009767 First of two tandem C-terminal ACT domains of threonine dehydratase I (ThrD-I; L-threonine hydrolyase); Region: ACT_ThrD-I_1; cd04906 930944009768 putative Ile/Val binding site [chemical binding]; other site 930944009769 Second of two tandem C-terminal ACT domains of threonine dehydratase I (ThrD-I; L-threonine hydrolyase); Region: ACT_ThrD-I_2; cd04907 930944009770 putative Ile/Val binding site [chemical binding]; other site 930944009771 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 930944009772 DNA-binding transcriptional regulator IlvY; Provisional; Region: PRK11716 930944009773 The C-terminal substrate binding of LysR-type transcriptional regulator IlvY, which activates the expression of ilvC gene that encoding acetohydroxy acid isomeroreductase for the biosynthesis of branched amino acids; contains the type 2 periplasmic bindin; Region: PBP2_IlvY; cd08430 930944009774 putative dimerization interface [polypeptide binding]; other site 930944009775 ketol-acid reductoisomerase; Validated; Region: PRK05225 930944009776 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvN; pfam07991 930944009777 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvC; pfam01450 930944009778 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvC; pfam01450 930944009779 Colicin-like bacteriocin tRNase domain; Region: Cloacin; pfam03515 930944009780 S-type Pyocin; Region: Pyocin_S; pfam06958 930944009781 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 930944009782 active site 930944009783 Colicin immunity protein / pyocin immunity protein; Region: Colicin_Pyocin; pfam01320 930944009784 Colicin immunity protein / pyocin immunity protein; Region: Colicin_Pyocin; pfam01320 930944009785 Phage antitermination protein Q; Region: Phage_antitermQ; pfam06530 930944009786 P pilus assembly protein, chaperone PapD [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimC; COG3121 930944009787 Gram-negative pili assembly chaperone, N-terminal domain; Region: Pili_assembly_N; pfam00345 930944009788 Gram-negative pili assembly chaperone, C-terminal domain; Region: Pili_assembly_C; pfam02753 930944009789 Fimbrial protein; Region: Fimbrial; cl01416 930944009790 P pilus assembly protein, porin PapC [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimD; COG3188 930944009791 PapC N-terminal domain; Region: PapC_N; pfam13954 930944009792 Type VII secretion system (T7SS), usher protein; Region: Usher; pfam00577 930944009793 PapC C-terminal domain; Region: PapC_C; pfam13953 930944009794 P pilus assembly protein, chaperone PapD [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimC; COG3121 930944009795 Gram-negative pili assembly chaperone, N-terminal domain; Region: Pili_assembly_N; pfam00345 930944009796 Gram-negative pili assembly chaperone, C-terminal domain; Region: Pili_assembly_C; pfam02753 930944009797 P pilus assembly protein, pilin FimA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimA; COG3539 930944009798 PPIC-type PPIASE domain; Region: Rotamase_2; cl08278 930944009799 ATP-dependent DNA helicase Rep; Provisional; Region: PRK10919 930944009800 Part of AAA domain; Region: AAA_19; pfam13245 930944009801 Family description; Region: UvrD_C_2; pfam13538 930944009802 Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all...; Region: FN3; cd00063 930944009803 Endopygalactorunase [Cell envelope biogenesis, outer membrane]; Region: PGU1; COG5434 930944009804 Interdomain contacts; other site 930944009805 Cytokine receptor motif; other site 930944009806 Probable polygalacturonase At3g15720; Region: PLN03003; cl14103 930944009807 guanosine pentaphosphate phosphohydrolase; Provisional; Region: PRK11031 930944009808 Ppx/GppA phosphatase family; Region: Ppx-GppA; pfam02541 930944009809 ATP-dependent RNA helicase RhlB; Provisional; Region: PRK04837 930944009810 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 930944009811 ATP binding site [chemical binding]; other site 930944009812 Mg++ binding site [ion binding]; other site 930944009813 motif III; other site 930944009814 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 930944009815 nucleotide binding region [chemical binding]; other site 930944009816 ATP-binding site [chemical binding]; other site 930944009817 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 930944009818 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 930944009819 catalytic residues [active] 930944009820 transcription termination factor Rho; Provisional; Region: rho; PRK09376 930944009821 Rho termination factor, N-terminal domain; Region: Rho_N; smart00959 930944009822 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 930944009823 RNA binding site [nucleotide binding]; other site 930944009824 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 930944009825 multimer interface [polypeptide binding]; other site 930944009826 Walker A motif; other site 930944009827 ATP binding site [chemical binding]; other site 930944009828 Walker B motif; other site 930944009829 undecaprenyl-phosphate alpha-N-acetylglucosaminyl 1-phosphate transferase; Provisional; Region: PRK15119 930944009830 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 930944009831 Mg++ binding site [ion binding]; other site 930944009832 putative catalytic motif [active] 930944009833 substrate binding site [chemical binding]; other site 930944009834 lipopolysaccharide biosynthesis protein WzzE; Provisional; Region: PRK11638 930944009835 Chain length determinant protein; Region: Wzz; pfam02706 930944009836 UDP-N-acetylglucosamine 2-epimerase [Cell envelope biogenesis, outer membrane]; Region: WecB; COG0381 930944009837 Bacterial members of the UDP-N-Acetylglucosamine (GlcNAc) 2-Epimerase family are known to catalyze the reversible interconversion of UDP-GlcNAc and UDP-N-acetylmannosamine (UDP-ManNAc). The enzyme serves to produce an activated form of ManNAc residues; Region: GT1_UDP-GlcNAc_2-Epimerase; cd03786 930944009838 active site 930944009839 homodimer interface [polypeptide binding]; other site 930944009840 UDP-N-acetyl-D-mannosamine dehydrogenase; Provisional; Region: wecC; PRK11064 930944009841 Ketopantoate reductase PanE/ApbA; Region: ApbA; pfam02558 930944009842 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 930944009843 UDP binding domain; Region: UDPG_MGDP_dh_C; smart00984 930944009844 dTDP-glucose 4,6-dehydratase; Provisional; Region: PRK10217 930944009845 dTDP-D-glucose 4,6-dehydratase, extended (e) SDRs; Region: dTDP_GD_SDR_e; cd05246 930944009846 NAD binding site [chemical binding]; other site 930944009847 substrate binding site [chemical binding]; other site 930944009848 homodimer interface [polypeptide binding]; other site 930944009849 active site 930944009850 G1P_TT_short is the short form of glucose-1-phosphate thymidylyltransferase; Region: G1P_TT_short; cd02538 930944009851 glucose-1-phosphate thymidylyltransferase, short form; Region: rmlA; TIGR01207 930944009852 substrate binding site; other site 930944009853 tetramer interface; other site 930944009854 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 930944009855 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 930944009856 Coenzyme A binding pocket [chemical binding]; other site 930944009857 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 930944009858 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 930944009859 inhibitor-cofactor binding pocket; inhibition site 930944009860 pyridoxal 5'-phosphate binding site [chemical binding]; other site 930944009861 catalytic residue [active] 930944009862 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 930944009863 Uncharacterized subfamily of the multidrug and toxic compound extrusion (MATE) proteins; Region: MATE_like_10; cd13125 930944009864 4-alpha-L-fucosyltransferase glycosyl transferase group 56; Region: Glyco_transf_56; pfam07429 930944009865 putative common antigen polymerase; Provisional; Region: PRK02975 930944009866 Teichoic acid biosynthesis proteins [Cell envelope biogenesis, outer membrane]; Region: WecG; COG1922 930944009867 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 930944009868 potential frameshift: common BLAST hit: gi|332159808|ref|YP_004296385.1| putative transport protein YifK 930944009869 Spore germination protein; Region: Spore_permease; cl17796 930944009870 putative transport protein YifK; Provisional; Region: PRK10746 930944009871 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 930944009872 Transposase; Region: DEDD_Tnp_IS110; pfam01548 930944009873 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 930944009874 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 930944009875 putative protoheme IX biogenesis protein; Provisional; Region: PRK10747 930944009876 HemY protein N-terminus; Region: HemY_N; pfam07219 930944009877 Uncharacterized enzyme of heme biosynthesis [Coenzyme metabolism]; Region: HemX; COG2959 930944009878 putative uroporphyrinogen III C-methyltransferase; Provisional; Region: PRK10920 930944009879 uroporphyrinogen-III synthase; Reviewed; Region: hemD; PRK05928 930944009880 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 930944009881 active site 930944009882 porphobilinogen deaminase; Reviewed; Region: hemC; PRK00072 930944009883 Hydroxymethylbilane synthase (HMBS), also known as porphobilinogen deaminase (PBGD), is an intermediate enzyme in the biosynthetic pathway of tetrapyrrolic ring systems, such as heme, chlorophylls, and vitamin B12. HMBS catalyzes the conversion of...; Region: HMBS; cd00494 930944009884 domain interfaces; other site 930944009885 active site 930944009886 Adenylate cyclase [Nucleotide transport and metabolism]; Region: CyaA; COG3072 930944009887 Adenylate cyclase NT domain; Region: Adenyl_cycl_N; pfam12633 930944009888 Adenylate cyclase, class-I; Region: Adenylate_cycl; pfam01295 930944009889 Frataxin is a nuclear-encoded mitochondrial protein implicated in Friedreich's ataxia (FRDA), an human autosomal recessive neurodegenerative disease; Frataxin is found in eukaryotes and in purple bacteria; lack of frataxin causes iron to accumulate...; Region: Frataxin; cd00503 930944009890 putative iron binding site [ion binding]; other site 930944009891 Predicted small periplasmic lipoprotein [Cell motility and secretion]; Region: COG5567 930944009892 diaminopimelate epimerase; Provisional; Region: dapF; PRK00450 930944009893 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 930944009894 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 930944009895 hypothetical protein; Provisional; Region: PRK10963 930944009896 Site-specific recombinase XerC [DNA replication, recombination, and repair]; Region: XerC; COG4973 930944009897 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 930944009898 active site 930944009899 DNA binding site [nucleotide binding] 930944009900 Int/Topo IB signature motif; other site 930944009901 flavin mononucleotide phosphatase; Provisional; Region: PRK10748 930944009902 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 930944009903 motif II; other site 930944009904 DNA-dependent helicase II; Provisional; Region: uvrD; PRK11773 930944009905 Part of AAA domain; Region: AAA_19; pfam13245 930944009906 Family description; Region: UvrD_C_2; pfam13538 930944009907 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 930944009908 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 930944009909 Uncharacterized conserved protein [Function unknown]; Region: COG5441 930944009910 Uncharacterized protein family (UPF0261); Region: UPF0261; pfam06792 930944009911 TIM-barrel signal transduction protein; Region: TIM-br_sig_trns; pfam09370 930944009912 Escherichia coli Mg2+ transporter CorA_like subgroup; Region: EcCorA-like_1; cd12835 930944009913 CorA-like Mg2+ transporter protein; Region: CorA; pfam01544 930944009914 Cl binding site [ion binding]; other site 930944009915 oligomer interface [polypeptide binding]; other site 930944009916 putative chloramphenical resistance permease RarD; Provisional; Region: PRK15430 930944009917 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 930944009918 CoenzymeA binding site [chemical binding]; other site 930944009919 subunit interaction site [polypeptide binding]; other site 930944009920 PHB binding site; other site 930944009921 The outer membrane phospholipase A (OMPLA) is an integral membrane enzyme that catalyses the hydrolysis of acylester bonds in phospholipids using calcium as a cofactor. The enzyme has a fold of transmembrane beta-barrels and is widespread among...; Region: OMPLA; cd00541 930944009922 dimerization interface [polypeptide binding]; other site 930944009923 substrate binding site [chemical binding]; other site 930944009924 active site 930944009925 calcium binding site [ion binding]; other site 930944009926 ATP-dependent DNA helicase RecQ; Provisional; Region: PRK11057 930944009927 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 930944009928 ATP binding site [chemical binding]; other site 930944009929 putative Mg++ binding site [ion binding]; other site 930944009930 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 930944009931 nucleotide binding region [chemical binding]; other site 930944009932 ATP-binding site [chemical binding]; other site 930944009933 This DNA-binding domain is found in the RecQ helicase among others and has a helix-turn-helix structure; Region: RQC; smart00956 930944009934 HRDC domain; Region: HRDC; pfam00570 930944009935 threonine efflux system; Provisional; Region: PRK10229 930944009936 homoserine/homoserine lactone efflux protein; Provisional; Region: rhtB; PRK10520 930944009937 lysophospholipase L2; Provisional; Region: PRK10749 930944009938 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 930944009939 putative hydrolase; Provisional; Region: PRK10976 930944009940 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 930944009941 active site 930944009942 motif I; other site 930944009943 motif II; other site 930944009944 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 930944009945 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 930944009946 Transposase; Region: DEDD_Tnp_IS110; pfam01548 930944009947 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 930944009948 glycerophosphodiester phosphodiesterase; Provisional; Region: glpQ; PRK11143 930944009949 Glycerophosphodiester phosphodiesterase domain of Escherichia coli (GlpQ) and similar proteins; Region: GDPD_EcGlpQ_like; cd08600 930944009950 active site 930944009951 catalytic site [active] 930944009952 metal binding site [ion binding]; metal-binding site 930944009953 sn-glycerol-3-phosphate transporter; Provisional; Region: glpT; PRK11273 930944009954 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 930944009955 putative substrate translocation pore; other site 930944009956 sn-glycerol-3-phosphate dehydrogenase subunit A; Provisional; Region: glpA; PRK11101 930944009957 hydroxyglutarate oxidase; Provisional; Region: PRK11728 930944009958 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; pfam04324 930944009959 anaerobic glycerol-3-phosphate dehydrogenase subunit B; Validated; Region: PRK05329 930944009960 glycerol-3-phosphate dehydrogenase, anaerobic, B subunit; Region: glycerol3P_GlpB; TIGR03378 930944009961 glycerol-3-phosphate dehydrogenase, anaerobic, C subunit; Region: glycerol3P_GlpC; TIGR03379 930944009962 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 930944009963 Cysteine-rich domain; Region: CCG; pfam02754 930944009964 Cysteine-rich domain; Region: CCG; pfam02754 930944009965 hypothetical protein; Provisional; Region: PRK11615 930944009966 hypothetical protein; Provisional; Region: PRK11212 930944009967 SirA (also known as UvrY, and YhhP) belongs to a family of two-component response regulators that controls secondary metabolism and virulence. The other member of this two-component system is a sensor kinase called BarA which phosphorylates SirA. A...; Region: SirA; cd03423 930944009968 CPxP motif; other site 930944009969 zinc/cadmium/mercury/lead-transporting ATPase; Provisional; Region: zntA; PRK11033 930944009970 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 930944009971 metal-binding site [ion binding] 930944009972 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 930944009973 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 930944009974 motif II; other site 930944009975 Predicted membrane protein [Function unknown]; Region: COG3714 930944009976 Domain of unknown function (DUF1820); Region: DUF1820; cl11545 930944009977 Protein of unknown function (DUF2500); Region: DUF2500; pfam10694 930944009978 hypothetical protein; Provisional; Region: PRK10910 930944009979 N6-adenine-specific methylase [DNA replication, recombination, and repair]; Region: COG0742 930944009980 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 930944009981 S-adenosylmethionine binding site [chemical binding]; other site 930944009982 signal recognition particle-docking protein FtsY; Provisional; Region: PRK10416 930944009983 SRP54-type protein, helical bundle domain; Region: SRP54_N; pfam02881 930944009984 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 930944009985 P loop; other site 930944009986 GTP binding site [chemical binding]; other site 930944009987 cell division protein FtsE; Provisional; Region: PRK10908 930944009988 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 930944009989 Walker A/P-loop; other site 930944009990 ATP binding site [chemical binding]; other site 930944009991 Q-loop/lid; other site 930944009992 ABC transporter signature motif; other site 930944009993 Walker B; other site 930944009994 D-loop; other site 930944009995 H-loop/switch region; other site 930944009996 cell division ABC transporter subunit FtsX; Provisional; Region: ftsX; PRK11026 930944009997 putative protein insertion permease FtsX; Region: ftsX; TIGR00439 930944009998 RNA polymerase factor sigma-32; Reviewed; Region: PRK06596 930944009999 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 930944010000 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 930944010001 DNA binding residues [nucleotide binding] 930944010002 Transposase, Mutator family; Region: Transposase_mut; pfam00872 930944010003 Acetyltransferase (GNAT) domain; Region: DUF3749; pfam12568 930944010004 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 930944010005 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 930944010006 dimerization interface [polypeptide binding]; other site 930944010007 ligand binding site [chemical binding]; other site 930944010008 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 930944010009 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 930944010010 TM-ABC transporter signature motif; other site 930944010011 leucine/isoleucine/valine transporter permease subunit; Provisional; Region: livM; PRK11301 930944010012 Domain of unknown function (DUF3382); Region: DUF3382; pfam11862 930944010013 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 930944010014 TM-ABC transporter signature motif; other site 930944010015 leucine/isoleucine/valine transporter ATP-binding subunit; Provisional; Region: livG; PRK11300 930944010016 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 930944010017 Walker A/P-loop; other site 930944010018 ATP binding site [chemical binding]; other site 930944010019 Q-loop/lid; other site 930944010020 ABC transporter signature motif; other site 930944010021 Walker B; other site 930944010022 D-loop; other site 930944010023 H-loop/switch region; other site 930944010024 leucine/isoleucine/valine transporter ATP-binding subunit; Provisional; Region: livF; PRK11614 930944010025 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 930944010026 Walker A/P-loop; other site 930944010027 ATP binding site [chemical binding]; other site 930944010028 Q-loop/lid; other site 930944010029 ABC transporter signature motif; other site 930944010030 Walker B; other site 930944010031 D-loop; other site 930944010032 H-loop/switch region; other site 930944010033 putative fimbrial protein TcfA; Provisional; Region: PRK15308 930944010034 putative fimbrial protein TcfA; Provisional; Region: PRK15308 930944010035 Type VII secretion system (T7SS), usher protein; Region: Usher; pfam00577 930944010036 CS1 type fimbrial major subunit; Region: Fimbrial_CS1; cl04524 930944010037 potential frameshift: common BLAST hit: gi|332159866|ref|YP_004296443.1| glycerol-3-phosphate transporter periplasmic binding protein 930944010038 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 930944010039 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 930944010040 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 930944010041 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 930944010042 ABC-type polysaccharide transport system, permease component [Carbohydrate transport and metabolism]; Region: LplB; COG4209 930944010043 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 930944010044 dimer interface [polypeptide binding]; other site 930944010045 conserved gate region; other site 930944010046 putative PBP binding loops; other site 930944010047 ABC-ATPase subunit interface; other site 930944010048 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 930944010049 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 930944010050 dimer interface [polypeptide binding]; other site 930944010051 conserved gate region; other site 930944010052 putative PBP binding loops; other site 930944010053 ABC-ATPase subunit interface; other site 930944010054 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 930944010055 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 930944010056 Walker A/P-loop; other site 930944010057 ATP binding site [chemical binding]; other site 930944010058 Q-loop/lid; other site 930944010059 ABC transporter signature motif; other site 930944010060 Walker B; other site 930944010061 D-loop; other site 930944010062 H-loop/switch region; other site 930944010063 TOBE domain; Region: TOBE_2; pfam08402 930944010064 cytoplasmic glycerophosphodiester phosphodiesterase; Provisional; Region: ugpQ; PRK09454 930944010065 Glycerophosphodiester phosphodiesterase domain in Escherichia coli cytosolic glycerophosphodiester phosphodiesterase UgpQ and similar proteins; Region: GDPD_EcUgpQ_like; cd08562 930944010066 putative active site [active] 930944010067 catalytic site [active] 930944010068 putative metal binding site [ion binding]; other site 930944010069 Predicted permeases [General function prediction only]; Region: COG0679 930944010070 DNA-binding transcriptional regulator MetR; Provisional; Region: PRK15421 930944010071 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 930944010072 The C-terminal substrate binding domain of LysR-type transcriptional regulator metR, which regulates the expression of methionine biosynthetic genes, contains type 2 periplasmic binding fold; Region: PBP2_MetR; cd08441 930944010073 putative dimerization interface [polypeptide binding]; other site 930944010074 5-methyltetrahydropteroyltriglutamate--homocysteine S-methyltransferase; Provisional; Region: PRK05222 930944010075 CIMS - Cobalamine-independent methonine synthase, or MetE, N-terminal domain_like. Many members have been characterized as 5-methyltetrahydropteroyltriglutamate-homocysteine methyltransferases, EC:2.1.1.14, mostly from bacteria and plants. This enzyme...; Region: CIMS_N_terminal_like; cd03312 930944010076 THF binding site; other site 930944010077 CIMS - Cobalamine-independent methonine synthase, or MetE, C-terminal domain_like. Many members have been characterized as 5-methyltetrahydropteroyltriglutamate-homocysteine methyltransferases, EC:2.1.1.14, mostly from bacteria and plants. This enzyme...; Region: CIMS_C_terminal_like; cd03311 930944010078 substrate binding site [chemical binding]; other site 930944010079 THF binding site; other site 930944010080 zinc-binding site [ion binding]; other site 930944010081 Dienelactone hydrolase and related enzymes [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG0412 930944010082 BAAT / Acyl-CoA thioester hydrolase C terminal; Region: BAAT_C; pfam08840 930944010083 uridine phosphorylase; Provisional; Region: PRK11178 930944010084 uridine phosphorylase; Region: Uridine-psphlse; TIGR01718 930944010085 Yersinia protein of unknown function (DUF3831); Region: DUF3831; pfam12908 930944010086 potential frameshift: common BLAST hit: gi|332163183|ref|YP_004299760.1| putative transposase for IS1667 930944010087 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 930944010088 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 930944010089 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl17173 930944010090 potential frameshift: common BLAST hit: gi|332163183|ref|YP_004299760.1| putative transposase for IS1667 930944010091 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 930944010092 Transposase; Region: DEDD_Tnp_IS110; pfam01548 930944010093 Tyrosine phosphatase family; Region: Y_phosphatase3; pfam13350 930944010094 Rhodanese Homology Domain (RHOD); an alpha beta fold domain found duplicated in the rhodanese protein. The cysteine containing enzymatically active version of the domain is also found in the Cdc25 class of protein phosphatases and a variety of proteins...; Region: RHOD; cl00125 930944010095 Tyrosine phosphatase family C-terminal region; Region: Y_phosphatase3C; pfam13348 930944010096 Carbon starvation protein, predicted membrane protein [Signal transduction mechanisms]; Region: CstA; COG1966 930944010097 Carbon starvation protein CstA; Region: CstA; pfam02554 930944010098 C-terminal domain on CstA (DUF4161); Region: DUF4161; pfam13722 930944010099 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 930944010100 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 930944010101 Predicted nuclease of restriction endonuclease-like fold, RmuC family [General function prediction only]; Region: COG1322 930944010102 RmuC family; Region: RmuC; pfam02646 930944010103 ubiE/COQ5 methyltransferase family; Region: Ubie_methyltran; pfam01209 930944010104 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 930944010105 S-adenosylmethionine binding site [chemical binding]; other site 930944010106 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4627 930944010107 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3165 930944010108 SCP-2 sterol transfer family; Region: SCP2; pfam02036 930944010109 putative ubiquinone biosynthesis protein UbiB; Reviewed; Region: ubiB; PRK04750 930944010110 2-polyprenylphenol 6-hydroxylase; Region: UbiB; TIGR01982 930944010111 mttA/Hcf106 family; Region: MttA_Hcf106; cl00788 930944010112 twin arginine translocase protein A; Provisional; Region: tatA; PRK00575 930944010113 sec-independent translocase; Provisional; Region: PRK01770 930944010114 sec-independent translocase; Provisional; Region: tatB; PRK00404 930944010115 twin-arginine protein translocation system subunit TatC; Provisional; Region: PRK10921 930944010116 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 930944010117 active site 930944010118 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 930944010119 dimer interface [polypeptide binding]; other site 930944010120 allosteric magnesium binding site [ion binding]; other site 930944010121 active site 930944010122 aspartate-rich active site metal binding site; other site 930944010123 Schiff base residues; other site 930944010124 transcriptional activator RfaH; Provisional; Region: rfaH; PRK09014 930944010125 N-Utilization Substance G (NusG) N-terminal domain in the NusG Specialized Paralog (SP), RfaH; Region: NGN_SP_RfaH; cd09892 930944010126 KOW (Kyprides, Ouzounis, Woese) motif; Region: KOW; smart00739 930944010127 3-octaprenyl-4-hydroxybenzoate decarboxylase; Provisional; Region: PRK10922 930944010128 NAD(P)H dependent flavin oxidoreductases use flavin as a substrate in mediating electron transfer from iron complexes or iron proteins. Structurally similar to ferredoxin reductases, but with only 15% sequence identity, flavin reductases reduce FAD, FMN; Region: flavin_oxioreductase; cd06189 930944010129 FMN reductase; Validated; Region: fre; PRK08051 930944010130 FAD binding pocket [chemical binding]; other site 930944010131 FAD binding motif [chemical binding]; other site 930944010132 phosphate binding motif [ion binding]; other site 930944010133 beta-alpha-beta structure motif; other site 930944010134 NAD binding pocket [chemical binding]; other site 930944010135 3-ketoacyl-CoA thiolase; Reviewed; Region: fadA; PRK08947 930944010136 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 930944010137 dimer interface [polypeptide binding]; other site 930944010138 active site 930944010139 multifunctional fatty acid oxidation complex subunit alpha; Reviewed; Region: fadB; PRK11730 930944010140 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 930944010141 substrate binding site [chemical binding]; other site 930944010142 oxyanion hole (OAH) forming residues; other site 930944010143 trimer interface [polypeptide binding]; other site 930944010144 Replication protein A, class 2b aminoacyl-tRNA synthetases, and related proteins with oligonucleotide/oligosaccharide (OB) fold; Region: RPA_2b-aaRSs_OBF_like; cl09930 930944010145 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 930944010146 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 930944010147 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 930944010148 proline dipeptidase; Provisional; Region: PRK13607 930944010149 Prolidase. E.C. 3.4.13.9. Also known as Xaa-Pro dipeptidase, X-Pro dipeptidase, proline dipeptidase., imidodipeptidase, peptidase D, gamma-peptidase. Catalyses hydrolysis of Xaa-Pro dipeptides; also acts on aminoacyl-hydroxyproline analogs. No action on...; Region: Prolidase; cd01087 930944010150 active site 930944010151 hypothetical protein; Provisional; Region: PRK11568 930944010152 Uncharacterized protein family UPF0029; Region: UPF0029; pfam01205 930944010153 Domain of unknown function (DUF1949); Region: DUF1949; pfam09186 930944010154 potassium transporter; Provisional; Region: PRK10750 930944010155 potassium uptake protein, TrkH family; Region: 2a38; TIGR00933 930944010156 Flavodoxin domain; Region: Flavodoxin_5; cl17428 930944010157 Helix-turn-helix domain; Region: HTH_28; pfam13518 930944010158 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 930944010159 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 930944010160 UDP-N-acetylenolpyruvoylglucosamine reductase; Provisional; Region: murB; PRK00046 930944010161 FAD binding domain; Region: FAD_binding_4; pfam01565 930944010162 UDP-N-acetylenolpyruvoylglucosamine reductase, C-terminal domain; Region: MurB_C; pfam02873 930944010163 Biotin operon repressor [Transcription]; Region: BirA; COG1654 930944010164 bifunctional biotin--[acetyl-CoA-carboxylase] synthetase/biotin operon repressor; Provisional; Region: PRK11886 930944010165 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; pfam03099 930944010166 Biotin protein ligase C terminal domain; Region: BPL_C; pfam02237 930944010167 pantothenate kinase; Provisional; Region: PRK05439 930944010168 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 930944010169 ATP-binding site [chemical binding]; other site 930944010170 CoA-binding site [chemical binding]; other site 930944010171 Mg2+-binding site [ion binding]; other site 930944010172 potential frameshift: common BLAST hit: gi|332159904|ref|YP_004296481.1| putative acetyltransferase 930944010173 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 930944010174 Phosphate metabolism protein; Region: DUF3779; pfam12621 930944010175 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 930944010176 Coenzyme A binding pocket [chemical binding]; other site 930944010177 elongation factor Tu; Reviewed; Region: PRK00049 930944010178 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 930944010179 G1 box; other site 930944010180 GEF interaction site [polypeptide binding]; other site 930944010181 GTP/Mg2+ binding site [chemical binding]; other site 930944010182 Switch I region; other site 930944010183 G2 box; other site 930944010184 G3 box; other site 930944010185 Switch II region; other site 930944010186 G4 box; other site 930944010187 G5 box; other site 930944010188 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 930944010189 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 930944010190 Antibiotic Binding Site [chemical binding]; other site 930944010191 preprotein translocase subunit SecE; Reviewed; Region: secE; PRK05740 930944010192 transcription antitermination protein NusG; Validated; Region: nusG; PRK05609 930944010193 Bacterial N-Utilization Substance G (NusG) N-terminal (NGN) domain, subgroup 1; Region: NGN_Bact_1; cd09891 930944010194 putative homodimer interface [polypeptide binding]; other site 930944010195 NusG contains an NGN domain at its N-terminus and KOW motif at its C-terminus; Region: KOW_NusG; cd06091 930944010196 heterodimer interface [polypeptide binding]; other site 930944010197 homodimer interface [polypeptide binding]; other site 930944010198 50S ribosomal protein L11; Validated; Region: rplK; PRK00140 930944010199 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 930944010200 23S rRNA interface [nucleotide binding]; other site 930944010201 L7/L12 interface [polypeptide binding]; other site 930944010202 putative thiostrepton binding site; other site 930944010203 L25 interface [polypeptide binding]; other site 930944010204 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 930944010205 mRNA/rRNA interface [nucleotide binding]; other site 930944010206 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 930944010207 23S rRNA interface [nucleotide binding]; other site 930944010208 Interface with L7/L12 ribosomal proteins [polypeptide binding]; other site 930944010209 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 930944010210 core dimer interface [polypeptide binding]; other site 930944010211 peripheral dimer interface [polypeptide binding]; other site 930944010212 L10 interface [polypeptide binding]; other site 930944010213 L11 interface [polypeptide binding]; other site 930944010214 putative EF-Tu interaction site [polypeptide binding]; other site 930944010215 putative EF-G interaction site [polypeptide binding]; other site 930944010216 DNA-directed RNA polymerase subunit beta; Reviewed; Region: rpoB; PRK00405 930944010217 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 930944010218 RNA polymerase Rpb2, domain 2; Region: RNA_pol_Rpb2_2; pfam04561 930944010219 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 930944010220 RNA polymerase Rpb2, domain 6; Region: RNA_pol_Rpb2_6; pfam00562 930944010221 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 930944010222 RPB3 interaction site [polypeptide binding]; other site 930944010223 RPB1 interaction site [polypeptide binding]; other site 930944010224 RPB11 interaction site [polypeptide binding]; other site 930944010225 RPB10 interaction site [polypeptide binding]; other site 930944010226 RNA polymerase Rpb1, domain 1; Region: RNA_pol_Rpb1_1; pfam04997 930944010227 DNA-directed RNA polymerase, beta' subunit/160 kD subunit [Transcription]; Region: RpoC; COG0086 930944010228 RNA polymerase I subunit A N-terminus; Region: RPOLA_N; smart00663 930944010229 RNA polymerase Rpb1, domain 3; Region: RNA_pol_Rpb1_3; pfam04983 930944010230 RNA polymerase Rpb1, domain 4; Region: RNA_pol_Rpb1_4; pfam05000 930944010231 RNA polymerase Rpb1, domain 5; Region: RNA_pol_Rpb1_5; pfam04998 930944010232 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 930944010233 Rpb1 - Rpb6 interaction site [polypeptide binding]; other site 930944010234 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 930944010235 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 930944010236 DNA binding site [nucleotide binding] 930944010237 Rpb1 (beta') - Rpb2 (beta) interaction site [polypeptide binding]; other site 930944010238 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 930944010239 Transposase; Region: DEDD_Tnp_IS110; pfam01548 930944010240 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 930944010241 thiamine biosynthesis protein ThiH; Reviewed; Region: thiH; PRK09240 930944010242 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 930944010243 FeS/SAM binding site; other site 930944010244 Biotin and Thiamin Synthesis associated domain; Region: BATS; pfam06968 930944010245 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 930944010246 ThiS interaction site; other site 930944010247 putative active site [active] 930944010248 tetramer interface [polypeptide binding]; other site 930944010249 ThiaminS ubiquitin-like sulfur carrier protein; Region: ThiS; cd00565 930944010250 thiS-thiF/thiG interaction site; other site 930944010251 molybdopterin biosynthesis protein MoeB; Provisional; Region: PRK05690 930944010252 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 930944010253 ATP binding site [chemical binding]; other site 930944010254 substrate interface [chemical binding]; other site 930944010255 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 930944010256 thiamine phosphate binding site [chemical binding]; other site 930944010257 active site 930944010258 pyrophosphate binding site [ion binding]; other site 930944010259 thiamine biosynthesis protein ThiC; Provisional; Region: PRK09284 930944010260 ThiC-associated domain; Region: ThiC-associated; pfam13667 930944010261 Thiamine biosynthesis protein ThiC [Coenzyme metabolism]; Region: ThiC; COG0422 930944010262 Regulator of sigma D [Transcription]; Region: Rsd; COG3160 930944010263 NADH pyrophosphatase; Reviewed; Region: nudC; PRK00241 930944010264 NADH pyrophosphatase-like rudimentary NUDIX domain; Region: NUDIX-like; pfam09296 930944010265 NADH pyrophosphatase zinc ribbon domain; Region: zf-NADH-PPase; pfam09297 930944010266 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 930944010267 putative NADH binding site [chemical binding]; other site 930944010268 putative active site [active] 930944010269 nudix motif; other site 930944010270 putative metal binding site [ion binding]; other site 930944010271 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 930944010272 substrate binding site [chemical binding]; other site 930944010273 active site 930944010274 Endonuclease_V, a DNA repair enzyme that initiates repair of nitrosative deaminated purine bases; Region: Endonuclease_V; cd06559 930944010275 Active_site [active] 930944010276 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3068 930944010277 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 930944010278 IHF dimer interface [polypeptide binding]; other site 930944010279 IHF - DNA interface [nucleotide binding]; other site 930944010280 Protein of unknown function (DUF1481); Region: DUF1481; pfam07356 930944010281 phosphoribosylamine--glycine ligase; Provisional; Region: PRK00885 930944010282 Phosphoribosylglycinamide synthetase, N domain; Region: GARS_N; pfam02844 930944010283 Phosphoribosylglycinamide synthetase, ATP-grasp (A) domain; Region: GARS_A; pfam01071 930944010284 Phosphoribosylglycinamide synthetase, C domain; Region: GARS_C; pfam02843 930944010285 bifunctional phosphoribosylaminoimidazolecarboxamide formyltransferase/IMP cyclohydrolase; Provisional; Region: purH; PRK00881 930944010286 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 930944010287 purine monophosphate binding site [chemical binding]; other site 930944010288 dimer interface [polypeptide binding]; other site 930944010289 putative catalytic residues [active] 930944010290 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; smart00798 930944010291 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; cl03362 930944010292 Predicted symporter [General function prediction only]; Region: DhlC; COG4147 930944010293 Uncharacterized bacterial solute carrier 5 subfamily; putative solute-binding domain; Region: SLC5sbd_u4; cd11480 930944010294 Na binding site [ion binding]; other site 930944010295 Predicted membrane protein [Function unknown]; Region: COG3162 930944010296 acetyl-CoA synthetase; Provisional; Region: PRK00174 930944010297 Acetyl-CoA synthetase (also known as acetate-CoA ligase and acetyl-activating enzyme); Region: ACS; cd05966 930944010298 active site 930944010299 CoA binding site [chemical binding]; other site 930944010300 acyl-activating enzyme (AAE) consensus motif; other site 930944010301 AMP binding site [chemical binding]; other site 930944010302 acetate binding site [chemical binding]; other site 930944010303 glutamate/aspartate:proton symporter; Provisional; Region: gltP; PRK11283 930944010304 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 930944010305 two component system sensor kinase SsrB; Provisional; Region: PRK15369 930944010306 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 930944010307 active site 930944010308 phosphorylation site [posttranslational modification] 930944010309 intermolecular recognition site; other site 930944010310 dimerization interface [polypeptide binding]; other site 930944010311 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 930944010312 DNA binding residues [nucleotide binding] 930944010313 dimerization interface [polypeptide binding]; other site 930944010314 two component system sensor kinase SsrA; Provisional; Region: PRK15347 930944010315 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 930944010316 dimer interface [polypeptide binding]; other site 930944010317 phosphorylation site [posttranslational modification] 930944010318 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 930944010319 ATP binding site [chemical binding]; other site 930944010320 Mg2+ binding site [ion binding]; other site 930944010321 G-X-G motif; other site 930944010322 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 930944010323 active site 930944010324 phosphorylation site [posttranslational modification] 930944010325 intermolecular recognition site; other site 930944010326 dimerization interface [polypeptide binding]; other site 930944010327 Hpt domain; Region: Hpt; pfam01627 930944010328 pathogenicity island chaperone protein SpiC; Provisional; Region: PRK15368 930944010329 outer membrane secretin SsaC; Provisional; Region: PRK15346 930944010330 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 930944010331 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 930944010332 type III secretion system protein SsaD; Provisional; Region: PRK15367 930944010333 type III secretion apparatus protein, YscD/HrpQ family; Region: type_III_yscD; TIGR02500 930944010334 type III secretion system protein, YseE family; Region: type_III_yscE; TIGR02501 930944010335 EspA-like secreted protein; Region: EspA; cl04069 930944010336 pathogenicity island 2 chaperone protein SscA; Provisional; Region: PRK15363 930944010337 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 930944010338 TPR motif; other site 930944010339 binding surface 930944010340 Secretion system effector C (SseC) like family; Region: SseC; pfam04888 930944010341 pathogenicity island 2 effector protein SseD; Provisional; Region: PRK15361 930944010342 pathogenicity island 2 effector protein SseE; Provisional; Region: PRK15360 930944010343 type III secretion low calcium response chaperone LcrH/SycD; Region: LcrH_SycD; TIGR02552 930944010344 pathogenicity island 2 effector protein SseF; Provisional; Region: PRK15358 930944010345 Helix-turn-helix domain; Region: HTH_18; pfam12833 930944010346 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 930944010347 Type III secretion needle MxiH like; Region: MxiH; cl09641 930944010348 type III secretion system protein, SsaH family; Region: type_III_ssaH; TIGR02498 930944010349 Type III secretion needle MxiH like; Region: MxiH; cl09641 930944010350 Type III secretory pathway, lipoprotein EscJ [Intracellular trafficking and secretion]; Region: EscJ; COG4669 930944010351 Type III secretion system subunit; Region: T3SS_LEE_assoc; pfam13327 930944010352 type III secretion apparatus protein, HrpE/YscL family; Region: HrpE_YscL_not; TIGR02499 930944010353 type III secretion system protein SsaK; Provisional; Region: PRK15354 930944010354 type III secretion system protein SsaM; Provisional; Region: PRK15353 930944010355 secretion system apparatus protein SsaV; Provisional; Region: PRK12720 930944010356 FHIPEP family; Region: FHIPEP; pfam00771 930944010357 type III secretion system ATPase; Validated; Region: PRK06820 930944010358 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 930944010359 Walker A motif; other site 930944010360 ATP binding site [chemical binding]; other site 930944010361 Walker B motif; other site 930944010362 type III secretion system protein SsaQ; Validated; Region: PRK08035 930944010363 Flagellar motor switch/type III secretory pathway protein [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FliN; COG1886 930944010364 Type III secretory pathway, component EscR [Intracellular trafficking and secretion]; Region: EscR; COG4790 930944010365 Type III secretory pathway, component EscS [Intracellular trafficking and secretion]; Region: EscS; COG4794 930944010366 potential frameshift: common BLAST hit: gi|332159964|ref|YP_004296541.1| type III secretory pathway, component EscT 930944010367 Type III secretory pathway, component EscT [Intracellular trafficking and secretion]; Region: EscT; COG4791 930944010368 Type III secretory pathway, component EscT [Intracellular trafficking and secretion]; Region: EscT; COG4791 930944010369 secretion system apparatus protein SsaU; Reviewed; Region: PRK12721 930944010370 ABC-2 type transporter; Region: ABC2_membrane; cl17235 930944010371 Uncharacterized homolog of the cytoplasmic domain of flagellar protein FhlB [Function unknown]; Region: COG2257; cl15822 930944010372 potential frameshift: common BLAST hit: gi|332159966|ref|YP_004296543.1| YeeE/YedE family protein 930944010373 putative inner membrane protein; Provisional; Region: PRK11099 930944010374 putative inner membrane protein; Provisional; Region: PRK11099 930944010375 YedF is a bacterial SirA-like protein of unknown function. SirA (also known as UvrY, and YhhP) belongs to a family of a two-component response regulators that controls secondary metabolism and virulence. The other member of this two-component system...; Region: YedF; cd03422 930944010376 CPxP motif; other site 930944010377 Periplasmic protein TonB, links inner and outer membranes [Cell envelope biogenesis, outer membrane]; Region: TonB; COG0810 930944010378 Gram-negative bacterial tonB protein; Region: TonB; pfam03544 930944010379 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 930944010380 RNA polymerase sigma factor; Reviewed; Region: PRK12527 930944010381 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 930944010382 DNA binding residues [nucleotide binding] 930944010383 Fe2+-dicitrate sensor, membrane component [Inorganic ion transport and metabolism / Signal transduction mechanisms]; Region: FecR; COG3712 930944010384 FecR protein; Region: FecR; pfam04773 930944010385 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 930944010386 TonB dependent receptor; Region: TonB_dep_Rec; pfam00593 930944010387 ABC-type uncharacterized transport system, permease and ATPase components [General function prediction only]; Region: COG4178 930944010388 ABC transporter transmembrane region 2; Region: ABC_membrane_2; cl00549 930944010389 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 930944010390 Walker A/P-loop; other site 930944010391 ATP binding site [chemical binding]; other site 930944010392 Q-loop/lid; other site 930944010393 ABC transporter signature motif; other site 930944010394 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 930944010395 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 930944010396 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 930944010397 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 930944010398 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 930944010399 Antitoxin Phd_YefM, type II toxin-antitoxin system; Region: PhdYeFM_antitox; cl09153 930944010400 Plasmid encoded toxin Txe; Region: Plasmid_Txe; pfam06769 930944010401 Protein of unknown function (DUF3772); Region: DUF3772; pfam12607 930944010402 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: COG3264 930944010403 Mechanosensitive ion channel; Region: MS_channel; pfam00924 930944010404 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 930944010405 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 930944010406 N-terminal plug; other site 930944010407 ligand-binding site [chemical binding]; other site 930944010408 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 930944010409 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 930944010410 DNA-binding site [nucleotide binding]; DNA binding site 930944010411 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 930944010412 pyridoxal 5'-phosphate binding site [chemical binding]; other site 930944010413 homodimer interface [polypeptide binding]; other site 930944010414 catalytic residue [active] 930944010415 hemin importer ATP-binding subunit; Provisional; Region: hmuV; PRK13548 930944010416 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 930944010417 Walker A/P-loop; other site 930944010418 ATP binding site [chemical binding]; other site 930944010419 Q-loop/lid; other site 930944010420 ABC transporter signature motif; other site 930944010421 Walker B; other site 930944010422 D-loop; other site 930944010423 H-loop/switch region; other site 930944010424 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 930944010425 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 930944010426 ABC-ATPase subunit interface; other site 930944010427 dimer interface [polypeptide binding]; other site 930944010428 putative PBP binding regions; other site 930944010429 ABC-type hemin transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: ChuT; COG4558 930944010430 Hemin binding protein HutB. These proteins have been shown to function as initial receptors in ABC transport of hemin and hemoproteins in many eubacterial species. They belong to the TroA superfamily of periplasmic metal binding proteins that share a...; Region: HutB; cd01149 930944010431 putative hemin binding site; other site 930944010432 Putative heme degradation protein [Inorganic ion transport and metabolism]; Region: HemS; COG3720 930944010433 Haemin-degrading HemS.ChuX domain; Region: HemS; pfam05171 930944010434 Haemin-degrading HemS.ChuX domain; Region: HemS; pfam05171 930944010435 TonB-dependent heme/hemoglobin receptor family protein; Region: TonB-hemin; TIGR01785 930944010436 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 930944010437 N-terminal plug; other site 930944010438 ligand-binding site [chemical binding]; other site 930944010439 Hemin uptake protein hemP; Region: hemP; pfam10636 930944010440 atypical (a) SDRs, subgroup 5; Region: SDR_a5; cd05243 930944010441 NADH(P)-binding; Region: NAD_binding_10; pfam13460 930944010442 NAD(P) binding site [chemical binding]; other site 930944010443 putative active site [active] 930944010444 Putative heme iron utilization protein [Inorganic ion transport and metabolism]; Region: HugX; COG3721 930944010445 coproporphyrinogen III oxidase; Provisional; Region: PRK09058 930944010446 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 930944010447 FeS/SAM binding site; other site 930944010448 Threonine dehydratase [Amino acid transport and metabolism]; Region: IlvA; COG1171 930944010449 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 930944010450 tetramer interface [polypeptide binding]; other site 930944010451 pyridoxal 5'-phosphate binding site [chemical binding]; other site 930944010452 catalytic residue [active] 930944010453 threonine/serine transporter TdcC; Provisional; Region: PRK13629 930944010454 Amino acid permeases [Amino acid transport and metabolism]; Region: SdaC; COG0814 930944010455 propionate/acetate kinase; Provisional; Region: PRK12379 930944010456 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 930944010457 nucleotide binding site [chemical binding]; other site 930944010458 Butyrate kinase [Energy production and conversion]; Region: COG3426 930944010459 formate acetyltransferase 1; Region: pyr_form_ly_1; TIGR01255 930944010460 Pyruvate formate lyase 1; Region: PFL1; cd01678 930944010461 coenzyme A binding site [chemical binding]; other site 930944010462 active site 930944010463 catalytic residues [active] 930944010464 glycine loop; other site 930944010465 putative transcriptional regulator; Provisional; Region: PRK11640 930944010466 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 930944010467 potential frameshift: common BLAST hit: gi|123440731|ref|YP_001004723.1| putative glycerate kinase 930944010468 Glycerate kinase family; Region: Gly_kinase; cl00841 930944010469 Glycerate kinase [Carbohydrate transport and metabolism]; Region: COG1929 930944010470 thiol:disulfide interchange protein precursor; Provisional; Region: dipZ; PRK00293 930944010471 Disulphide bond corrector protein DsbC; Region: DsbC; pfam11412 930944010472 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; cl15788 930944010473 DsbD gamma family; DsbD gamma is the C-terminal periplasmic domain of the bacterial protein DsbD. It contains a CXXC motif in a TRX fold and shuttles the reducing potential from the membrane domain (DsbD beta) to the N-terminal periplasmic domain (DsbD...; Region: DsbDgamma; cd02953 930944010474 DsbD alpha interface [polypeptide binding]; other site 930944010475 catalytic residues [active] 930944010476 divalent-cation tolerance protein CutA; Provisional; Region: PRK10645 930944010477 Anaerobic C4-dicarboxylate transporter [General function prediction only]; Region: DcuB; COG2704 930944010478 anaerobic C4-dicarboxylate transporter; Reviewed; Region: PRK09412 930944010479 aspartate ammonia-lyase; Provisional; Region: aspA; PRK12273 930944010480 Aspartase; Region: Aspartase; cd01357 930944010481 active sites [active] 930944010482 tetramer interface [polypeptide binding]; other site 930944010483 Protein affecting phage T7 exclusion by the F plasmid [General function prediction only]; Region: FxsA; COG3030 930944010484 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 930944010485 oligomerisation interface [polypeptide binding]; other site 930944010486 mobile loop; other site 930944010487 roof hairpin; other site 930944010488 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 930944010489 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 930944010490 ring oligomerisation interface [polypeptide binding]; other site 930944010491 ATP/Mg binding site [chemical binding]; other site 930944010492 stacking interactions; other site 930944010493 hinge regions; other site 930944010494 Domain of unknown function (DUF4156); Region: DUF4156; pfam13698 930944010495 Lysine 2,3-aminomutase [Amino acid transport and metabolism]; Region: KamA; COG1509 930944010496 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 930944010497 FeS/SAM binding site; other site 930944010498 elongation factor P; Validated; Region: PRK00529 930944010499 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 930944010500 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 930944010501 RNA binding site [nucleotide binding]; other site 930944010502 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 930944010503 RNA binding site [nucleotide binding]; other site 930944010504 Entericidin EcnA/B family; Region: Entericidin; pfam08085 930944010505 multidrug efflux system protein; Provisional; Region: PRK11431 930944010506 outer membrane lipoprotein Blc; Provisional; Region: PRK10477 930944010507 Lipocalin-like domain; Region: Lipocalin_2; pfam08212 930944010508 Quinol:fumarate reductase (QFR) Type D subfamily, 13kD hydrophobic subunit D; QFR couples the reduction of fumarate to succinate to the oxidation of quinol to quinone, the opposite reaction to that catalyzed by the related protein, succinate:quinine...; Region: QFR_TypeD_subunitD; cd00547 930944010509 Iron-sulfur protein interface; other site 930944010510 proximal quinone binding site [chemical binding]; other site 930944010511 C-subunit interface; other site 930944010512 distal quinone binding site; other site 930944010513 Quinol:fumarate reductase (QFR) Type D subfamily, 15kD hydrophobic subunit C; QFR couples the reduction of fumarate to succinate to the oxidation of quinol to quinone, the opposite reaction to that catalyzed by the related protein, succinate:quinine...; Region: QFR_TypeD_subunitC; cd00546 930944010514 D-subunit interface [polypeptide binding]; other site 930944010515 Iron-sulfur protein interface; other site 930944010516 proximal quinone binding site [chemical binding]; other site 930944010517 fumarate reductase iron-sulfur subunit; Provisional; Region: PRK12385 930944010518 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 930944010519 catalytic loop [active] 930944010520 iron binding site [ion binding]; other site 930944010521 fumarate reductase flavoprotein subunit; Validated; Region: PRK09231 930944010522 L-aspartate oxidase; Provisional; Region: PRK06175 930944010523 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 930944010524 poxB regulator PoxA; Provisional; Region: PRK09350 930944010525 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 930944010526 motif 1; other site 930944010527 dimer interface [polypeptide binding]; other site 930944010528 active site 930944010529 motif 2; other site 930944010530 motif 3; other site 930944010531 putative mechanosensitive channel protein; Provisional; Region: PRK10929 930944010532 Mechanosensitive ion channel inner membrane domain 1; Region: MscS_TM; pfam12794 930944010533 Mechanosensitive ion channel; Region: MS_channel; pfam00924 930944010534 phosphatidylserine decarboxylase; Reviewed; Region: psd; PRK00044 930944010535 GTPase RsgA; Reviewed; Region: PRK12288 930944010536 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 930944010537 RNA binding site [nucleotide binding]; other site 930944010538 Ribosomal interacting GTPase YjeQ/EngC, a circularly permuted subfamily of the Ras GTPases; Region: YjeQ_EngC; cd01854 930944010539 GTPase/Zn-binding domain interface [polypeptide binding]; other site 930944010540 GTP/Mg2+ binding site [chemical binding]; other site 930944010541 G4 box; other site 930944010542 G5 box; other site 930944010543 G1 box; other site 930944010544 Switch I region; other site 930944010545 G2 box; other site 930944010546 G3 box; other site 930944010547 Switch II region; other site 930944010548 DEDDh 3'-5' exonuclease domain of oligoribonuclease and similar proteins; Region: Orn; cd06135 930944010549 catalytic site [active] 930944010550 putative active site [active] 930944010551 putative substrate binding site [chemical binding]; other site 930944010552 dimer interface [polypeptide binding]; other site 930944010553 epoxyqueuosine reductase; Region: TIGR00276 930944010554 Domain of unknown function (DUF1730); Region: DUF1730; pfam08331 930944010555 putative carbohydrate kinase; Provisional; Region: PRK10565 930944010556 Uncharacterized conserved protein [Function unknown]; Region: COG0062 930944010557 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 930944010558 putative substrate binding site [chemical binding]; other site 930944010559 putative ATP binding site [chemical binding]; other site 930944010560 ADP-binding protein; Provisional; Region: PRK10646 930944010561 N-acetylmuramoyl-l-alanine amidase II; Provisional; Region: PRK10431 930944010562 AMIN domain; Region: AMIN; pfam11741 930944010563 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 930944010564 active site 930944010565 metal binding site [ion binding]; metal-binding site 930944010566 FOG: LysM repeat [Cell envelope biogenesis, outer membrane]; Region: LytE; COG1388 930944010567 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 930944010568 FOG: LysM repeat [Cell envelope biogenesis, outer membrane]; Region: LytE; COG1388 930944010569 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 930944010570 DNA mismatch repair protein; Reviewed; Region: mutL; PRK00095 930944010571 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 930944010572 ATP binding site [chemical binding]; other site 930944010573 Mg2+ binding site [ion binding]; other site 930944010574 G-X-G motif; other site 930944010575 MutL_Trans_MutL: transducer domain, having a ribosomal S5 domain 2-like fold, found in proteins similar to Escherichia coli MutL. EcMutL belongs to the DNA mismatch repair (MutL/MLH1/PMS2) family. This transducer domain is homologous to the second...; Region: MutL_Trans_MutL; cd03482 930944010576 ATP binding site [chemical binding]; other site 930944010577 MutL C terminal dimerisation domain; Region: MutL_C; pfam08676 930944010578 potential frameshift: common BLAST hit: gi|332160021|ref|YP_004296598.1| tRNA delta(2)-isopentenylpyrophosphate transferase 930944010579 tRNA delta(2)-isopentenylpyrophosphate transferase [Translation, ribosomal structure and biogenesis]; Region: MiaA; COG0324 930944010580 tRNA delta(2)-isopentenylpyrophosphate transferase; Reviewed; Region: miaA; PRK00091 930944010581 tRNA delta(2)-isopentenylpyrophosphate transferase [Translation, ribosomal structure and biogenesis]; Region: MiaA; cl17639 930944010582 bacterial Hfq-like; Region: Hfq; cd01716 930944010583 hexamer interface [polypeptide binding]; other site 930944010584 Sm1 motif; other site 930944010585 RNA binding site [nucleotide binding]; other site 930944010586 Sm2 motif; other site 930944010587 GTPase HflX; Provisional; Region: PRK11058 930944010588 GTP-binding GTPase N-terminal; Region: GTP-bdg_N; pfam13167 930944010589 HflX GTPase family; Region: HflX; cd01878 930944010590 G1 box; other site 930944010591 GTP/Mg2+ binding site [chemical binding]; other site 930944010592 Switch I region; other site 930944010593 G2 box; other site 930944010594 G3 box; other site 930944010595 Switch II region; other site 930944010596 G4 box; other site 930944010597 G5 box; other site 930944010598 FtsH protease regulator HflK; Provisional; Region: PRK10930 930944010599 Bacterial membrane protein N terminal; Region: HflK_N; pfam12221 930944010600 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 930944010601 FtsH protease regulator HflC; Provisional; Region: PRK11029 930944010602 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 930944010603 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3242 930944010604 Adenylosuccinate synthetase; Region: Adenylsucc_synt; smart00788 930944010605 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 930944010606 GDP-binding site [chemical binding]; other site 930944010607 ACT binding site; other site 930944010608 IMP binding site; other site 930944010609 transcriptional repressor NsrR; Provisional; Region: PRK11014 930944010610 Predicted transcriptional regulator [Transcription]; Region: COG1959 930944010611 exoribonuclease R; Provisional; Region: PRK11642 930944010612 Ribonuclease R winged-helix domain; Region: HTH_12; pfam08461 930944010613 Ribonuclease B OB domain; Region: OB_RNB; pfam08206 930944010614 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 930944010615 RNB domain; Region: RNB; pfam00773 930944010616 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 930944010617 RNA binding site [nucleotide binding]; other site 930944010618 23S rRNA (guanosine-2'-O-)-methyltransferase; Provisional; Region: PRK11181 930944010619 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; pfam08032 930944010620 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 930944010621 potential frameshift: common BLAST hit: gi|332160031|ref|YP_004296608.1| isovaleryl CoA dehydrogenase 930944010622 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 930944010623 active site 930944010624 isovaleryl CoA dehydrogenase; Provisional; Region: PRK11561 930944010625 putative biofilm stress and motility protein A; Provisional; Region: PRK14864 930944010626 esterase; Provisional; Region: PRK10566 930944010627 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 930944010628 Protein of unknown function (DUF1471); Region: DUF1471; pfam07338 930944010629 30S ribosomal protein S6; Reviewed; Region: rpsF; PRK00453 930944010630 Replication protein A, class 2b aminoacyl-tRNA synthetases, and related proteins with oligonucleotide/oligosaccharide (OB) fold; Region: RPA_2b-aaRSs_OBF_like; cl09930 930944010631 generic binding surface I; other site 930944010632 generic binding surface II; other site 930944010633 30S ribosomal protein S18; Reviewed; Region: rpsR; PRK00391 930944010634 50S ribosomal protein L9; Reviewed; Region: rplI; PRK00137 930944010635 Ribosomal protein L9, N-terminal domain; Region: Ribosomal_L9_N; pfam01281 930944010636 Ribosomal protein L9, C-terminal domain; Region: Ribosomal_L9_C; pfam03948 930944010637 Protein of unknown function (DUF3757); Region: DUF3757; pfam12582 930944010638 Cell envelope opacity-associated protein A [Cell envelope biogenesis, outer membrane]; Region: OapA; COG3061 930944010639 Opacity-associated protein A LysM-like domain; Region: OapA; pfam04225 930944010640 peptidyl-prolyl cis-trans isomerase; Provisional; Region: PRK11570 930944010641 Domain amino terminal to FKBP-type peptidyl-prolyl isomerase; Region: FKBP_N; pfam01346 930944010642 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 930944010643 iron-sulfur cluster repair di-iron protein; Provisional; Region: PRK10992 930944010644 Domain of Unknown function (DUF542); Region: ScdA_N; pfam04405 930944010645 Hemerythrin-like domain; Region: Hr-like; cd12108 930944010646 Fe binding site [ion binding]; other site 930944010647 bifunctional 2',3'-cyclic nucleotide 2'-phosphodiesterase/3'-nucleotidase periplasmic precursor protein; Reviewed; Region: cpdB; PRK09420 930944010648 Escherichia coli CpdB and related proteins, N-terminal metallophosphatase domain; Region: MPP_CpdB_N; cd07410 930944010649 active site 930944010650 metal binding site [ion binding]; metal-binding site 930944010651 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 930944010652 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 930944010653 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 930944010654 active site 930944010655 Bacterial protein of unknown function (YtfJ_HI0045); Region: YtfJ_HI0045; cl17398 930944010656 Protein of unknown function (DUF1107); Region: DUF1107; pfam06526 930944010657 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 930944010658 Domain of unknown function DUF21; Region: DUF21; pfam01595 930944010659 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 930944010660 Transporter associated domain; Region: CorC_HlyC; smart01091 930944010661 methionine sulfoxide reductase A; Provisional; Region: PRK00058 930944010662 Outer membrane protein [Cell envelope biogenesis, outer membrane]; Region: COG0729 930944010663 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 930944010664 Surface antigen; Region: Bac_surface_Ag; pfam01103 930944010665 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2911 930944010666 Family of unknown function (DUF490); Region: DUF490; pfam04357 930944010667 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 930944010668 dimerization interface [polypeptide binding]; other site 930944010669 putative active site pocket [active] 930944010670 putative catalytic residue [active] 930944010671 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 930944010672 dimer interface [polypeptide binding]; other site 930944010673 substrate binding site [chemical binding]; other site 930944010674 metal binding sites [ion binding]; metal-binding site 930944010675 ligand binding domain of Tar- and Tsr-related chemoreceptors; Region: Tar_Tsr_LBD; cd00181 930944010676 dimer interface [polypeptide binding]; other site 930944010677 ligand binding site [chemical binding]; other site 930944010678 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 930944010679 dimerization interface [polypeptide binding]; other site 930944010680 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 930944010681 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 930944010682 dimer interface [polypeptide binding]; other site 930944010683 putative CheW interface [polypeptide binding]; other site 930944010684 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 930944010685 AMP binding site [chemical binding]; other site 930944010686 metal binding site [ion binding]; metal-binding site 930944010687 active site 930944010688 UDP-N-acetylmuramate:L-alanyl-gamma-D-glutamyl- meso-diaminopimelate ligase; Region: mpl; TIGR01081 930944010689 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 930944010690 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 930944010691 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 930944010692 Protein of unknown function (DUF1471); Region: DUF1471; pfam07338 930944010693 arginine repressor; Provisional; Region: PRK05066 930944010694 Arginine repressor, DNA binding domain; Region: Arg_repressor; pfam01316 930944010695 Arginine repressor, C-terminal domain; Region: Arg_repressor_C; pfam02863 930944010696 malate dehydrogenase; Provisional; Region: PRK05086 930944010697 Glyoxysomal and mitochondrial malate dehydrogenases; Region: MDH_glyoxysomal_mitochondrial; cd01337 930944010698 NAD binding site [chemical binding]; other site 930944010699 dimerization interface [polypeptide binding]; other site 930944010700 Substrate binding site [chemical binding]; other site 930944010701 Mu DNA-binding domain; Region: HTH_Tnp_Mu_1; pfam02316 930944010702 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 930944010703 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 930944010704 substrate binding pocket [chemical binding]; other site 930944010705 chain length determination region; other site 930944010706 substrate-Mg2+ binding site; other site 930944010707 catalytic residues [active] 930944010708 aspartate-rich region 1; other site 930944010709 active site lid residues [active] 930944010710 aspartate-rich region 2; other site 930944010711 50S ribosomal protein L21/unknown domain fusion protein; Provisional; Region: PRK12278 930944010712 50S ribosomal protein L21; Validated; Region: rplU; PRK05573 930944010713 50S ribosomal protein L27; Validated; Region: rpmA; PRK05435 930944010714 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 930944010715 EamA-like transporter family; Region: EamA; pfam00892 930944010716 GTPase CgtA; Reviewed; Region: obgE; PRK12298 930944010717 GTP1/OBG; Region: GTP1_OBG; pfam01018 930944010718 Obg GTPase; Region: Obg; cd01898 930944010719 G1 box; other site 930944010720 GTP/Mg2+ binding site [chemical binding]; other site 930944010721 Switch I region; other site 930944010722 G2 box; other site 930944010723 G3 box; other site 930944010724 Switch II region; other site 930944010725 G4 box; other site 930944010726 G5 box; other site 930944010727 sensor protein BasS/PmrB; Provisional; Region: PRK10755 930944010728 HAMP domain; Region: HAMP; pfam00672 930944010729 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 930944010730 dimer interface [polypeptide binding]; other site 930944010731 phosphorylation site [posttranslational modification] 930944010732 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 930944010733 ATP binding site [chemical binding]; other site 930944010734 Mg2+ binding site [ion binding]; other site 930944010735 G-X-G motif; other site 930944010736 DNA-binding transcriptional regulator BasR; Provisional; Region: PRK10643 930944010737 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 930944010738 active site 930944010739 phosphorylation site [posttranslational modification] 930944010740 intermolecular recognition site; other site 930944010741 dimerization interface [polypeptide binding]; other site 930944010742 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 930944010743 DNA binding site [nucleotide binding] 930944010744 D-alanyl-D-alanine carboxypeptidase/endopeptidase; Provisional; Region: PRK11113 930944010745 D-alanyl-D-alanine carboxypeptidase, serine-type, PBP4 family; Region: PBP4; TIGR00666 930944010746 transcription elongation factor GreA; Reviewed; Region: greA; PRK00226 930944010747 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 930944010748 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 930944010749 RNA-binding protein YhbY; Provisional; Region: PRK10343 930944010750 23S rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: FtsJ; COG0293 930944010751 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 930944010752 S-adenosylmethionine binding site [chemical binding]; other site 930944010753 ATP-dependent metalloprotease; Reviewed; Region: hflB; PRK10733 930944010754 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 930944010755 Walker A motif; other site 930944010756 ATP binding site [chemical binding]; other site 930944010757 Walker B motif; other site 930944010758 arginine finger; other site 930944010759 Peptidase family M41; Region: Peptidase_M41; pfam01434 930944010760 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 930944010761 dihydropteroate synthase; Region: DHPS; TIGR01496 930944010762 substrate binding pocket [chemical binding]; other site 930944010763 dimer interface [polypeptide binding]; other site 930944010764 inhibitor binding site; inhibition site 930944010765 phosphoglucosamine mutase; Provisional; Region: glmM; PRK10887 930944010766 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 930944010767 active site 930944010768 substrate binding site [chemical binding]; other site 930944010769 metal binding site [ion binding]; metal-binding site 930944010770 Preprotein translocase SecG subunit; Region: SecG; pfam03840 930944010771 ribosome maturation protein RimP; Reviewed; Region: PRK00092 930944010772 Sm and related proteins; Region: Sm_like; cl00259 930944010773 Bacillus subtilis YxlS-like, C-terminal domain; Region: YlxS_C; cd01734 930944010774 putative oligomer interface [polypeptide binding]; other site 930944010775 putative RNA binding site [nucleotide binding]; other site 930944010776 transcription elongation factor NusA; Validated; Region: nusA; PRK09202 930944010777 NusA N-terminal domain; Region: NusA_N; pfam08529 930944010778 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 930944010779 RNA binding site [nucleotide binding]; other site 930944010780 homodimer interface [polypeptide binding]; other site 930944010781 NusA-like KH domain; Region: KH_5; pfam13184 930944010782 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 930944010783 G-X-X-G motif; other site 930944010784 transcription termination factor NusA, C-terminal duplication; Region: nusA_Cterm_rpt; TIGR01954 930944010785 transcription termination factor NusA, C-terminal duplication; Region: nusA_Cterm_rpt; TIGR01954 930944010786 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 930944010787 Bacterial translation initiation factor IF-2 associated region; Region: IF2_assoc; pfam08364 930944010788 translation initiation factor IF-2; Validated; Region: infB; PRK05306 930944010789 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 930944010790 Initiation Factor 2 (IF2)/ eukaryotic Initiation Factor 5B (eIF5B) family; Region: IF2_eIF5B; cd01887 930944010791 G1 box; other site 930944010792 putative GEF interaction site [polypeptide binding]; other site 930944010793 GTP/Mg2+ binding site [chemical binding]; other site 930944010794 Switch I region; other site 930944010795 G2 box; other site 930944010796 G3 box; other site 930944010797 Switch II region; other site 930944010798 G4 box; other site 930944010799 G5 box; other site 930944010800 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 930944010801 Translation-initiation factor 2; Region: IF-2; pfam11987 930944010802 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 930944010803 ribosome-binding factor A; Validated; Region: rbfA; PRK00521 930944010804 tRNA pseudouridine synthase B; Provisional; Region: truB; PRK05033 930944010805 Pseudouridine synthase, Escherichia coli TruB like; Region: PseudoU_synth_EcTruB; cd02573 930944010806 RNA binding site [nucleotide binding]; other site 930944010807 active site 930944010808 Pseudouridine synthase II TruB, C-terminal; Region: TruB-C_2; pfam09157 930944010809 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 930944010810 16S/18S rRNA binding site [nucleotide binding]; other site 930944010811 S13e-L30e interaction site [polypeptide binding]; other site 930944010812 25S rRNA binding site [nucleotide binding]; other site 930944010813 polynucleotide phosphorylase/polyadenylase; Provisional; Region: PRK11824 930944010814 Polyribonucleotide nucleotidyltransferase, repeat 1; Region: RNase_PH_PNPase_1; cd11363 930944010815 RNase E interface [polypeptide binding]; other site 930944010816 trimer interface [polypeptide binding]; other site 930944010817 Polyribonucleotide nucleotidyltransferase, RNA binding domain; Region: PNPase; pfam03726 930944010818 Polyribonucleotide nucleotidyltransferase, repeat 2; Region: RNase_PH_PNPase_2; cd11364 930944010819 RNase E interface [polypeptide binding]; other site 930944010820 trimer interface [polypeptide binding]; other site 930944010821 active site 930944010822 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 930944010823 putative nucleic acid binding region [nucleotide binding]; other site 930944010824 G-X-X-G motif; other site 930944010825 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 930944010826 RNA binding site [nucleotide binding]; other site 930944010827 domain interface; other site 930944010828 lipoprotein NlpI; Provisional; Region: PRK11189 930944010829 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 930944010830 binding surface 930944010831 TPR motif; other site 930944010832 ATP-dependent RNA helicase DeaD; Provisional; Region: PRK11634 930944010833 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 930944010834 ATP binding site [chemical binding]; other site 930944010835 Mg++ binding site [ion binding]; other site 930944010836 motif III; other site 930944010837 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 930944010838 nucleotide binding region [chemical binding]; other site 930944010839 ATP-binding site [chemical binding]; other site 930944010840 RNA recognition motif in Escherichia coli cold-shock DEAD box protein A (CsdA) and similar proteins; Region: RRM_EcCsdA_like; cd12499 930944010841 putative RNA binding site [nucleotide binding]; other site 930944010842 hypothetical protein; Provisional; Region: PRK10508 930944010843 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cd00347 930944010844 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 930944010845 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cd00347 930944010846 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 930944010847 Outer membrane efflux protein; Region: OEP; pfam02321 930944010848 Amino acid permeases [Amino acid transport and metabolism]; Region: SdaC; COG0814 930944010849 threonine/serine transporter TdcC; Provisional; Region: PRK13629; cl17672 930944010850 L-cysteine desulfidase [Amino acid transport and metabolism]; Region: COG3681 930944010851 putative protease; Provisional; Region: PRK15447 930944010852 Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]; Region: COG0826 930944010853 Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]; Region: COG0826 930944010854 Peptidase family U32; Region: Peptidase_U32; pfam01136 930944010855 Putative lipid carrier protein [Lipid metabolism]; Region: COG3154 930944010856 Predicted acetyltransferase [General function prediction only]; Region: COG3153 930944010857 The GIY-YIG domain of uncharacterized protein family UPF0213 related to structure-specific endonuclease SLX1; Region: GIY-YIG_UPF0213; cd10456 930944010858 GIY-YIG motif/motif A; other site 930944010859 putative active site [active] 930944010860 putative metal binding site [ion binding]; other site 930944010861 putrescine transporter; Provisional; Region: potE; PRK10655 930944010862 ornithine decarboxylase; Provisional; Region: PRK13578 930944010863 Orn/Lys/Arg decarboxylase, N-terminal domain; Region: OKR_DC_1_N; pfam03709 930944010864 Ornithine decarboxylase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD corresponds to ornithine decarboxylase (ODC), arginine decarboxylase (ADC) and lysine...; Region: Orn_deC_like; cd00615 930944010865 homodimer interface [polypeptide binding]; other site 930944010866 pyridoxal 5'-phosphate binding site [chemical binding]; other site 930944010867 catalytic residue [active] 930944010868 Orn/Lys/Arg decarboxylase, C-terminal domain; Region: OKR_DC_1_C; pfam03711 930944010869 Alginate Lyase A1-III; enzymatically depolymerizes alginate, a complex copolymer of beta-D-mannuronate and alpha-L-guluronate, by cleaving the beta-(1,4) glycosidic bond; Region: AlgLyase; cl00179 930944010870 Heparinase II/III-like protein; Region: Hepar_II_III; pfam07940 930944010871 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 930944010872 Alginate lyase; Region: Alginate_lyase; pfam05426 930944010873 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 930944010874 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 930944010875 ABC-type polysaccharide transport system, permease component [Carbohydrate transport and metabolism]; Region: LplB; COG4209 930944010876 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 930944010877 dimer interface [polypeptide binding]; other site 930944010878 putative PBP binding loops; other site 930944010879 ABC-ATPase subunit interface; other site 930944010880 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 930944010881 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 930944010882 dimer interface [polypeptide binding]; other site 930944010883 conserved gate region; other site 930944010884 putative PBP binding loops; other site 930944010885 ABC-ATPase subunit interface; other site 930944010886 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 930944010887 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 930944010888 Walker A/P-loop; other site 930944010889 ATP binding site [chemical binding]; other site 930944010890 Q-loop/lid; other site 930944010891 ABC transporter signature motif; other site 930944010892 Walker B; other site 930944010893 D-loop; other site 930944010894 H-loop/switch region; other site 930944010895 TOBE domain; Region: TOBE_2; pfam08402 930944010896 Alginate lyase; Region: Alginate_lyase; pfam05426 930944010897 hypothetical protein; Provisional; Region: PRK03467 930944010898 Antitoxin Phd_YefM, type II toxin-antitoxin system; Region: PhdYeFM_antitox; pfam02604 930944010899 Cytotoxic translational repressor of toxin-antitoxin stability system [Translation, ribosomal structure and biogenesis / Cell division and chromosome partitioning]; Region: RelE; COG2026 930944010900 CC3(TIP30)-like, atypical (a) SDRs; Region: CC3_like_SDR_a; cd05250 930944010901 Predicted nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG0702 930944010902 NAD binding site [chemical binding]; other site 930944010903 active site 930944010904 carbon-phosphorus lyase complex accessory protein; Provisional; Region: phnP; PRK11244 930944010905 potential frameshift: common BLAST hit: gi|332160110|ref|YP_004296687.1| ribose 1,5-bisphosphokinase 930944010906 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 930944010907 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 930944010908 active site 930944010909 phosphonate metabolism protein PhnM; Provisional; Region: PRK15446 930944010910 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 930944010911 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 930944010912 active site 930944010913 ABC-type phosphonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: PhnL; COG4778 930944010914 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 930944010915 Walker A/P-loop; other site 930944010916 ATP binding site [chemical binding]; other site 930944010917 Q-loop/lid; other site 930944010918 ABC transporter signature motif; other site 930944010919 Walker B; other site 930944010920 D-loop; other site 930944010921 H-loop/switch region; other site 930944010922 phosphonate C-P lyase system protein PhnK; Provisional; Region: phnK; PRK11701 930944010923 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 930944010924 Walker A/P-loop; other site 930944010925 ATP binding site [chemical binding]; other site 930944010926 Q-loop/lid; other site 930944010927 ABC transporter signature motif; other site 930944010928 Walker B; other site 930944010929 D-loop; other site 930944010930 H-loop/switch region; other site 930944010931 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 930944010932 Uncharacterized enzyme of phosphonate metabolism [Inorganic ion transport and metabolism]; Region: PhnJ; COG3627 930944010933 potential frameshift: common BLAST hit: gi|332160115|ref|YP_004296692.1| PhnI protein 930944010934 Bacterial phosphonate metabolism protein (PhnI); Region: PhnI; cl01456 930944010935 Bacterial phosphonate metabolism protein (PhnI); Region: PhnI; cl01456 930944010936 carbon-phosphorus lyase complex subunit; Validated; Region: phnH; PRK10147 930944010937 Phosphonate metabolism protein PhnG; Region: PhnG; pfam06754 930944010938 phosphonate metabolism transcriptional regulator PhnF; Provisional; Region: PRK10079 930944010939 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 930944010940 DNA-binding site [nucleotide binding]; DNA binding site 930944010941 UTRA domain; Region: UTRA; pfam07702 930944010942 Hemolysin activation/secretion protein [Intracellular trafficking and secretion]; Region: FhaC; COG2831 930944010943 POTRA domain, ShlB-type; Region: POTRA_2; pfam08479 930944010944 anaerobic ribonucleoside-triphosphate reductase activating protein; Region: NrdG; TIGR02491 930944010945 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 930944010946 FeS/SAM binding site; other site 930944010947 anaerobic ribonucleoside triphosphate reductase; Provisional; Region: PRK09263 930944010948 ATP cone domain; Region: ATP-cone; pfam03477 930944010949 Class III ribonucleotide reductase; Region: RNR_III; cd01675 930944010950 effector binding site; other site 930944010951 active site 930944010952 Zn binding site [ion binding]; other site 930944010953 glycine loop; other site 930944010954 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 930944010955 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppF; COG1124 930944010956 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 930944010957 Walker A/P-loop; other site 930944010958 ATP binding site [chemical binding]; other site 930944010959 Q-loop/lid; other site 930944010960 ABC transporter signature motif; other site 930944010961 Walker B; other site 930944010962 D-loop; other site 930944010963 H-loop/switch region; other site 930944010964 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppF; COG1124 930944010965 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 930944010966 Walker A/P-loop; other site 930944010967 ATP binding site [chemical binding]; other site 930944010968 Q-loop/lid; other site 930944010969 ABC transporter signature motif; other site 930944010970 Walker B; other site 930944010971 D-loop; other site 930944010972 H-loop/switch region; other site 930944010973 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 930944010974 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 930944010975 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 930944010976 dimer interface [polypeptide binding]; other site 930944010977 conserved gate region; other site 930944010978 ABC-ATPase subunit interface; other site 930944010979 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 930944010980 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 930944010981 putative PBP binding loops; other site 930944010982 dimer interface [polypeptide binding]; other site 930944010983 ABC-ATPase subunit interface; other site 930944010984 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 930944010985 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 930944010986 Beta-galactosidase, beta subunit [Carbohydrate transport and metabolism]; Region: EbgC; COG2731 930944010987 ornithine carbamoyltransferase subunit I; Provisional; Region: PRK03515 930944010988 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 930944010989 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 930944010990 RNase E inhibitor protein; Provisional; Region: PRK11191 930944010991 Protein of unknown function (DUF1260); Region: DUF1260; pfam06877 930944010992 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 930944010993 Transposase; Region: DEDD_Tnp_IS110; pfam01548 930944010994 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 930944010995 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 930944010996 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 930944010997 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl17173 930944010998 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 930944010999 valyl-tRNA synthetase; Reviewed; Region: valS; PRK05729 930944011000 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 930944011001 HIGH motif; other site 930944011002 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 930944011003 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 930944011004 active site 930944011005 KMSKS motif; other site 930944011006 Anticodon-binding domain of valyl tRNA synthetases; Region: Anticodon_Ia_Val; cd07962 930944011007 tRNA binding surface [nucleotide binding]; other site 930944011008 anticodon binding site; other site 930944011009 Valyl tRNA synthetase tRNA binding arm; Region: Val_tRNA-synt_C; pfam10458 930944011010 DNA polymerase III subunit chi; Validated; Region: PRK05728 930944011011 multifunctional aminopeptidase A; Provisional; Region: PRK00913 930944011012 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 930944011013 interface (dimer of trimers) [polypeptide binding]; other site 930944011014 Substrate-binding/catalytic site; other site 930944011015 Zn-binding sites [ion binding]; other site 930944011016 lipopolysaccharide ABC transporter permease LptF; Provisional; Region: PRK15120 930944011017 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 930944011018 lipopolysaccharide ABC transporter permease; Provisional; Region: PRK15071 930944011019 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 930944011020 Methyltransferase domain; Region: Methyltransf_27; pfam13708 930944011021 Predicted transcriptional regulator [Transcription]; Region: COG3905 930944011022 Plasmid stabilisation system protein; Region: Plasmid_stabil; pfam05016 930944011023 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 930944011024 non-specific DNA binding site [nucleotide binding]; other site 930944011025 salt bridge; other site 930944011026 sequence-specific DNA binding site [nucleotide binding]; other site 930944011027 DNA replication protein [DNA replication, recombination, and repair]; Region: DnaC; COG1484 930944011028 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 930944011029 Walker A motif; other site 930944011030 ATP binding site [chemical binding]; other site 930944011031 Walker B motif; other site 930944011032 arginine finger; other site 930944011033 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 930944011034 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 930944011035 DNA-binding interface [nucleotide binding]; DNA binding site 930944011036 Integrase core domain; Region: rve; pfam00665 930944011037 Superfamily I DNA and RNA helicases and helicase subunits [DNA replication, recombination, and repair]; Region: COG1112 930944011038 AAA domain; Region: AAA_12; pfam13087 930944011039 C-terminal domain of Escherichia coli uncharacterized protein yjhR and similar proteins; Region: PLDc_yjhR_C_like; cd09118 930944011040 putative active site [active] 930944011041 catalytic site [active] 930944011042 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 930944011043 Coenzyme A binding pocket [chemical binding]; other site 930944011044 PAS fold; Region: PAS_4; pfam08448 930944011045 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 930944011046 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 930944011047 DNA binding residues [nucleotide binding] 930944011048 dimerization interface [polypeptide binding]; other site 930944011049 potential frameshift: common BLAST hit: gi|123440884|ref|YP_001004875.1| putative permease 930944011050 Solute carrier families 5 and 6-like; solute binding domain; Region: SLC5-6-like_sbd; cl00456 930944011051 Na binding site [ion binding]; other site 930944011052 Solute carrier families 5 and 6-like; solute binding domain; Region: SLC5-6-like_sbd; cl00456 930944011053 Na binding site [ion binding]; other site 930944011054 HNH endonuclease; Region: HNH_2; pfam13391 930944011055 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 930944011056 hypothetical protein; Provisional; Region: PRK11667 930944011057 autoinducer-2 (AI-2) modifying protein LsrG; Provisional; Region: PRK10486 930944011058 DhnA-type fructose-1,6-bisphosphate aldolase and related enzymes [Carbohydrate transport and metabolism]; Region: FbaB; COG1830 930944011059 Class I fructose-1,6-bisphosphate (FBP) aldolases of the archaeal type (DhnA homologs); Region: DhnA; cd00958 930944011060 putative active site; other site 930944011061 catalytic residue [active] 930944011062 autoinducer 2-binding protein lsrB; Provisional; Region: PRK15408 930944011063 Periplasmic binding domain of autoinducer-2 (AI-2) receptor LsrB from Salmonella typhimurium and its close homologs; Region: PBP1_LsrB_Quorum_Sensing; cd06302 930944011064 ligand binding site [chemical binding]; other site 930944011065 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 930944011066 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 930944011067 TM-ABC transporter signature motif; other site 930944011068 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 930944011069 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 930944011070 TM-ABC transporter signature motif; other site 930944011071 autoinducer 2 ABC transporter ATP-binding protein LsrA; Provisional; Region: PRK15439 930944011072 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 930944011073 Walker A/P-loop; other site 930944011074 ATP binding site [chemical binding]; other site 930944011075 Q-loop/lid; other site 930944011076 ABC transporter signature motif; other site 930944011077 Walker B; other site 930944011078 D-loop; other site 930944011079 H-loop/switch region; other site 930944011080 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 930944011081 transcriptional regulator LsrR; Provisional; Region: PRK15418 930944011082 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 930944011083 non-specific DNA interactions [nucleotide binding]; other site 930944011084 DNA binding site [nucleotide binding] 930944011085 sequence specific DNA binding site [nucleotide binding]; other site 930944011086 putative cAMP binding site [chemical binding]; other site 930944011087 Putative sugar-binding domain; Region: Sugar-bind; pfam04198 930944011088 autoinducer-2 (AI-2) kinase; Provisional; Region: PRK10939 930944011089 Autoinducer-2 kinases; a subfamily of the FGGY family of carbohydrate kinases; Region: FGGY_AI-2K; cd07775 930944011090 putative N- and C-terminal domain interface [polypeptide binding]; other site 930944011091 putative active site [active] 930944011092 putative MgATP binding site [chemical binding]; other site 930944011093 catalytic site [active] 930944011094 metal binding site [ion binding]; metal-binding site 930944011095 putative carbohydrate binding site [chemical binding]; other site 930944011096 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 930944011097 lipopolysaccharide core biosynthesis protein; Provisional; Region: PRK10422 930944011098 Lipopolysaccharide heptosyltransferase is involved in the biosynthesis of lipooligosaccharide (LOS). Lipopolysaccharide (LPS) is a major component of the outer membrane of gram-negative bacteria. LPS heptosyltransferase transfers heptose molecules from...; Region: GT1_LPS_heptosyltransferase; cd03789 930944011099 putative active site [active] 930944011100 Lipid A core - O-antigen ligase and related enzymes [Cell envelope biogenesis, outer membrane]; Region: RfaL; COG3307 930944011101 O-Antigen ligase; Region: Wzy_C; pfam04932 930944011102 arginine-ornithine antiporter; Region: arg_ornith_anti; TIGR03810 930944011103 arginine deiminase; Provisional; Region: PRK01388 930944011104 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 930944011105 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 930944011106 HlyD family secretion protein; Region: HlyD_3; pfam13437 930944011107 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 930944011108 Glycerol dehydrogenase and related enzymes [Energy production and conversion]; Region: GldA; COG0371 930944011109 Glycerol dehydrogenases (GlyDH) catalyzes oxidation of glycerol to dihydroxyacetone in glycerol dissmilation; Region: GlyDH; cd08170 930944011110 dimer interface [polypeptide binding]; other site 930944011111 active site 930944011112 metal binding site [ion binding]; metal-binding site 930944011113 dihydroxyacetone kinase subunit DhaK; Provisional; Region: PRK11468 930944011114 Dak1 domain; Region: Dak1; pfam02733 930944011115 dihydroxyacetone kinase subunit DhaL; Provisional; Region: PRK10005 930944011116 dihydroxyacetone kinase subunit M; Provisional; Region: PRK11377 930944011117 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; cl00025 930944011118 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 930944011119 dimerization domain swap beta strand [polypeptide binding]; other site 930944011120 regulatory protein interface [polypeptide binding]; other site 930944011121 active site 930944011122 regulatory phosphorylation site [posttranslational modification]; other site 930944011123 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 930944011124 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 930944011125 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 930944011126 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 930944011127 Predicted carbamoyl transferase, NodU family [Posttranslational modification, protein turnover, chaperones]; Region: COG2192 930944011128 Carbamoyltransferase; Region: CmcH_NodU; pfam02543 930944011129 Predicted flavoprotein involved in K+ transport [Inorganic ion transport and metabolism]; Region: TrkA; COG2072 930944011130 putative hydrolase, CocE/NonD family; Region: /NonD; TIGR00976 930944011131 Choline dehydrogenase and related flavoproteins [Amino acid transport and metabolism]; Region: BetA; COG2303 930944011132 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 930944011133 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 930944011134 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 930944011135 Major Facilitator Superfamily; Region: MFS_1; pfam07690 930944011136 putative substrate translocation pore; other site 930944011137 Biofilm formation and stress response factor; Region: BsmA; pfam10014 930944011138 putative pectinesterase; Region: PLN02432; cl01911 930944011139 Pectinesterase; Region: Pectinesterase; pfam01095 930944011140 DNA-binding transcriptional regulator DhaR; Provisional; Region: PRK11388 930944011141 GAF domain; Region: GAF; cl17456 930944011142 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 930944011143 putative active site [active] 930944011144 heme pocket [chemical binding]; other site 930944011145 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 930944011146 Walker A motif; other site 930944011147 ATP binding site [chemical binding]; other site 930944011148 Walker B motif; other site 930944011149 arginine finger; other site 930944011150 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 930944011151 D-fructose-responsive transcription factor; Region: fruct_sucro_rep; TIGR02417 930944011152 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 930944011153 DNA binding site [nucleotide binding] 930944011154 domain linker motif; other site 930944011155 Ligand binding domain of DNA transcription repressor specific for fructose (FruR) and its close homologs; Region: PBP1_FruR; cd06274 930944011156 dimerization interface [polypeptide binding]; other site 930944011157 ligand binding site [chemical binding]; other site 930944011158 sucrose-6-phosphate hydrolase; Region: scrB_fam; TIGR01322 930944011159 Glycosyl hydrolase family 32, beta-fructosidases; Region: GH32_B_Fructosidase; cd08996 930944011160 substrate binding [chemical binding]; other site 930944011161 active site 930944011162 PTS system, sucrose-specific IIBC component; Region: PTS-II-BC-sucr; TIGR01996 930944011163 PTS_IIB, PTS system, glucose/sucrose specific IIB subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIB_glc; cd00212 930944011164 active site turn [active] 930944011165 phosphorylation site [posttranslational modification] 930944011166 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 930944011167 Maltoporin periplasmic N-terminal extension; Region: Sugarporin_N; pfam11471 930944011168 The Maltoporin-like channels (LamB porin) form a trimeric structure which facilitate the diffusion of maltodextrins and other sugars across the outer membrane of Gram-negative bacteria. The membrane channel is formed by an 18-strand antiparallel...; Region: Maltoporin-like; cd01346 930944011169 trimer interface; other site 930944011170 sugar binding site [chemical binding]; other site 930944011171 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 930944011172 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 930944011173 putative substrate binding site [chemical binding]; other site 930944011174 putative ATP binding site [chemical binding]; other site 930944011175 ferrichrome/ferrioxamine B periplasmic transporter; Provisional; Region: PRK14048 930944011176 Periplasmic binding protein TroA_f. These proteins are predicted to function as initial receptors in the ABC metal ion uptake in eubacteria and archaea. They belong to the TroA superfamily of helical backbone metal receptor proteins that share a...; Region: TroA_f; cd01139 930944011177 putative ligand binding residues [chemical binding]; other site 930944011178 Outer membrane receptor for Fe3+-dicitrate [Inorganic ion transport and metabolism]; Region: FecA; COG4772 930944011179 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 930944011180 N-terminal plug; other site 930944011181 ligand-binding site [chemical binding]; other site 930944011182 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 930944011183 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 930944011184 metal binding site [ion binding]; metal-binding site 930944011185 active site 930944011186 I-site; other site 930944011187 Protein of unknown function (DUF1435); Region: DUF1435; pfam07256 930944011188 Transcriptional regulator [Transcription]; Region: LysR; COG0583 930944011189 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 930944011190 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator CrgA-like, contains the type 2 periplasmic binding fold; Region: PBP2_CrgA_like_3; cd08472 930944011191 putative effector binding pocket; other site 930944011192 putative dimerization interface [polypeptide binding]; other site 930944011193 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 930944011194 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 930944011195 active site 930944011196 catalytic tetrad [active] 930944011197 16S ribosomal RNA m2G1207 methyltransferase; Provisional; Region: rsmC; PRK09489 930944011198 Methyltransferase small domain N-terminal; Region: MTS_N; pfam08468 930944011199 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 930944011200 S-adenosylmethionine binding site [chemical binding]; other site 930944011201 DNA polymerase III subunit psi; Validated; Region: PRK06856 930944011202 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 930944011203 Coenzyme A binding pocket [chemical binding]; other site 930944011204 peptide chain release factor 3; Provisional; Region: prfC; PRK00741 930944011205 Release Factor 3 (RF3) protein involved in the terminal step of translocation in bacteria; Region: RF3; cd04169 930944011206 G1 box; other site 930944011207 putative GEF interaction site [polypeptide binding]; other site 930944011208 GTP/Mg2+ binding site [chemical binding]; other site 930944011209 Switch I region; other site 930944011210 G2 box; other site 930944011211 G3 box; other site 930944011212 Switch II region; other site 930944011213 G4 box; other site 930944011214 G5 box; other site 930944011215 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 930944011216 periplasmic protein; Provisional; Region: PRK10568 930944011217 BON domain; Region: BON; pfam04972 930944011218 BON domain; Region: BON; pfam04972 930944011219 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: COG4667 930944011220 Hypothetical patatin similar to yjju protein of Escherichia coli; Region: Pat_hypo_Ecoli_yjju_like; cd07208 930944011221 active site 930944011222 nucleophile elbow; other site 930944011223 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 930944011224 active site 930944011225 Nucleoside permease [Nucleotide transport and metabolism]; Region: NupC; COG1972 930944011226 Na+ dependent nucleoside transporter N-terminus; Region: Nucleos_tra2_N; pfam01773 930944011227 Nucleoside recognition; Region: Gate; pfam07670 930944011228 Na+ dependent nucleoside transporter C-terminus; Region: Nucleos_tra2_C; pfam07662 930944011229 2-deoxyribose-5-phosphate aldolase (DERA) of the DeoC family; Region: DeoC; cd00959 930944011230 intersubunit interface [polypeptide binding]; other site 930944011231 active site 930944011232 catalytic residue [active] 930944011233 thymidine phosphorylase; Reviewed; Region: deoA; PRK05820 930944011234 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 930944011235 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 930944011236 Pyrimidine nucleoside phosphorylase C-terminal domain; Region: PYNP_C; smart00941 930944011237 phosphopentomutase; Provisional; Region: PRK05362 930944011238 Metalloenzyme superfamily; Region: Metalloenzyme; pfam01676 930944011239 purine nucleoside phosphorylase; Reviewed; Region: deoD; PRK05819 930944011240 Uridine phosphorylase [Nucleotide transport and metabolism]; Region: Udp; COG2820 930944011241 hypothetical protein; Provisional; Region: PRK11246 930944011242 phosphoserine phosphatase; Provisional; Region: serB; PRK11133 930944011243 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 930944011244 motif II; other site 930944011245 DNA repair protein RadA; Provisional; Region: PRK11823 930944011246 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 930944011247 Walker A motif/ATP binding site; other site 930944011248 ATP binding site [chemical binding]; other site 930944011249 Walker B motif; other site 930944011250 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 930944011251 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 930944011252 non-specific DNA binding site [nucleotide binding]; other site 930944011253 salt bridge; other site 930944011254 bifunctional DNA-binding transcriptional repressor/ NMN adenylyltransferase; Provisional; Region: PRK08099 930944011255 sequence-specific DNA binding site [nucleotide binding]; other site 930944011256 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 930944011257 active site 930944011258 nucleotide binding site [chemical binding]; other site 930944011259 HIGH motif; other site 930944011260 KMSKS motif; other site 930944011261 Predicted ATPase/kinase involved in NAD metabolism [Coenzyme metabolism]; Region: NadR; COG3172 930944011262 Arginate lyase and other MDR family members; Region: AL_MDR; cd08252 930944011263 zinc-binding alcohol dehydrogenase family protein; Region: adh_fam_1; TIGR02817 930944011264 putative NAD(P) binding site [chemical binding]; other site 930944011265 dimer interface [polypeptide binding]; other site 930944011266 Transcriptional regulator [Transcription]; Region: LysR; COG0583 930944011267 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 930944011268 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 930944011269 putative effector binding pocket; other site 930944011270 dimerization interface [polypeptide binding]; other site 930944011271 Fic family protein [Function unknown]; Region: COG3177 930944011272 Domain of unknown function (DUF4172); Region: DUF4172; pfam13776 930944011273 Fic/DOC family; Region: Fic; pfam02661 930944011274 putative ABC transporter ATP-binding protein; Reviewed; Region: PRK11819 930944011275 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 930944011276 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 930944011277 ABC transporter; Region: ABC_tran_2; pfam12848 930944011278 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 930944011279 putative outer membrane lipoprotein; Provisional; Region: PRK09967 930944011280 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 930944011281 ligand binding site [chemical binding]; other site 930944011282 putative inner membrane diguanylate cyclase; Provisional; Region: PRK09966 930944011283 HAMP domain; Region: HAMP; pfam00672 930944011284 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 930944011285 metal binding site [ion binding]; metal-binding site 930944011286 active site 930944011287 I-site; other site 930944011288 Domain of unknown function (DUF4154); Region: DUF4154; pfam13689 930944011289 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: MgtA; COG0474 930944011290 Cation transporter/ATPase, N-terminus; Region: Cation_ATPase_N; smart00831 930944011291 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 930944011292 Putative hydrolase of sodium-potassium ATPase alpha subunit; Region: Hydrolase_like2; pfam13246 930944011293 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 930944011294 motif II; other site 930944011295 Cation transporting ATPase, C-terminus; Region: Cation_ATPase_C; pfam00689 930944011296 lytic murein transglycosylase; Provisional; Region: PRK11619 930944011297 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 930944011298 N-acetyl-D-glucosamine binding site [chemical binding]; other site 930944011299 catalytic residue [active] 930944011300 Trp operon repressor; Provisional; Region: PRK01381 930944011301 inosine/xanthosine triphosphatase; Reviewed; Region: PRK05074 930944011302 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 930944011303 catalytic core [active] 930944011304 right oriC-binding transcriptional activator; Provisional; Region: PRK15121 930944011305 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 930944011306 GyrI-like small molecule binding domain; Region: GyrI-like; pfam06445 930944011307 hypothetical protein; Provisional; Region: PRK10756 930944011308 CreA protein; Region: CreA; pfam05981 930944011309 two-component response regulator; Provisional; Region: PRK11173 930944011310 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 930944011311 active site 930944011312 phosphorylation site [posttranslational modification] 930944011313 intermolecular recognition site; other site 930944011314 dimerization interface [polypeptide binding]; other site 930944011315 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 930944011316 DNA binding site [nucleotide binding] 930944011317 bifunctional aspartokinase I/homoserine dehydrogenase I; Provisional; Region: thrA; PRK09436 930944011318 AAK_AK-HSDH: Amino Acid Kinase Superfamily (AAK), AK-HSDH; this CD includes the N-terminal catalytic domain of aspartokinase (AK) of the bifunctional enzyme AK - homoserine dehydrogenase (HSDH). These aspartokinases are found in bacteria (E. coli...; Region: AAK_AK-HSDH; cd04257 930944011319 putative catalytic residues [active] 930944011320 putative nucleotide binding site [chemical binding]; other site 930944011321 putative aspartate binding site [chemical binding]; other site 930944011322 ACT domains of the bifunctional enzyme aspartokinase (AK) - homoserine dehydrogenase (HSDH); Region: ACT_AKi-HSDH-ThrA-like_1; cd04921 930944011323 dimer interface [polypeptide binding]; other site 930944011324 putative threonine allosteric regulatory site; other site 930944011325 ACT domains of the bifunctional enzyme aspartokinase (AK) - homoserine dehydrogenase (HSDH); Region: ACT_AKi-HSDH-ThrA_2; cd04922 930944011326 putative threonine allosteric regulatory site; other site 930944011327 Homoserine dehydrogenase, NAD binding domain; Region: NAD_binding_3; pfam03447 930944011328 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 930944011329 homoserine kinase; Provisional; Region: PRK01212 930944011330 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 930944011331 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 930944011332 threonine synthase; Validated; Region: PRK09225 930944011333 Threonine synthase [Amino acid transport and metabolism]; Region: ThrC; COG0498 930944011334 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 930944011335 catalytic residue [active] 930944011336 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 930944011337 Transposase; Region: DEDD_Tnp_IS110; pfam01548 930944011338 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 930944011339 hypothetical protein; Validated; Region: PRK02101 930944011340 transaldolase-like protein; Provisional; Region: PTZ00411 930944011341 Transaldolases including both TalA and TalB; Region: Transaldolase_TalAB; cd00957 930944011342 active site 930944011343 dimer interface [polypeptide binding]; other site 930944011344 catalytic residue [active] 930944011345 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 930944011346 MPT binding site; other site 930944011347 trimer interface [polypeptide binding]; other site 930944011348 metabolite-proton symporter; Region: 2A0106; TIGR00883 930944011349 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 930944011350 putative substrate translocation pore; other site 930944011351 Beta/Gamma crystallin; Region: Crystall; cl02528 930944011352 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 930944011353 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 930944011354 hypothetical protein; Provisional; Region: PRK10659 930944011355 molecular chaperone DnaK; Provisional; Region: dnaK; PRK00290 930944011356 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 930944011357 nucleotide binding site [chemical binding]; other site 930944011358 chaperone protein DnaJ; Provisional; Region: PRK10767 930944011359 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 930944011360 HSP70 interaction site [polypeptide binding]; other site 930944011361 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cl03262 930944011362 substrate binding site [polypeptide binding]; other site 930944011363 Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cd10719 930944011364 Zn binding sites [ion binding]; other site 930944011365 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 930944011366 dimer interface [polypeptide binding]; other site 930944011367 pH-dependent sodium/proton antiporter; Reviewed; Region: nhaA; PRK09561 930944011368 transcriptional activator NhaR; Provisional; Region: nhaR; PRK11062 930944011369 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 930944011370 The C-terminal substrate binding domain of LysR-type transcriptional activator of the nhaA gene, encoding Na+/H+ antiporter, contains the type 2 periplasmic binding fold; Region: PBP2_NhaR; cd08429 930944011371 putative dimerization interface [polypeptide binding]; other site 930944011372 30S ribosomal protein S20; Reviewed; Region: rpsT; PRK00239 930944011373 bifunctional riboflavin kinase/FMN adenylyltransferase; Reviewed; Region: PRK05627 930944011374 FAD synthetase, N-terminal domain of the bifunctional enzyme; Region: FAD_synthetase_N; cd02064 930944011375 active site 930944011376 Riboflavin kinase; Region: Flavokinase; smart00904 930944011377 isoleucyl-tRNA synthetase; Reviewed; Region: ileS; PRK05743 930944011378 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 930944011379 active site 930944011380 HIGH motif; other site 930944011381 nucleotide binding site [chemical binding]; other site 930944011382 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 930944011383 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 930944011384 active site 930944011385 KMSKS motif; other site 930944011386 Anticodon-binding domain of bacterial and eukaryotic mitochondrial isoleucyl tRNA synthetases; Region: Anticodon_Ia_Ile_BEm; cd07960 930944011387 tRNA binding surface [nucleotide binding]; other site 930944011388 anticodon binding site; other site 930944011389 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 930944011390 lipoprotein signal peptidase; Reviewed; Region: lspA; PRK00376 930944011391 lipoprotein signal peptidase; Provisional; Region: PRK14787 930944011392 FKBP-type peptidyl-prolyl cis-trans isomerase; Provisional; Region: PRK15095 930944011393 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 930944011394 4-hydroxy-3-methylbut-2-enyl diphosphate reductase; Reviewed; Region: ispH; PRK01045 930944011395 4-Hydroxy-3-methylbut-2-enyl diphosphate reductase IspH [Lipid metabolism]; Region: lytB; COG0761 930944011396 Dihydrodipicolinate reductase [Amino acid transport and metabolism]; Region: DapB; COG0289 930944011397 Dihydrodipicolinate reductase, N-terminus; Region: DapB_N; pfam01113 930944011398 Dihydrodipicolinate reductase, C-terminus; Region: DapB_C; pfam05173 930944011399 Carbamoylphosphate synthase small subunit [Amino acid transport and metabolism / Nucleotide transport and metabolism]; Region: CarA; COG0505 930944011400 Carbamoyl-phosphate synthase small chain, CPSase domain; Region: CPSase_sm_chain; smart01097 930944011401 Small chain of the glutamine-dependent form of carbamoyl phosphate synthase, CPSase II; Region: GATase1_CPSase; cd01744 930944011402 catalytic site [active] 930944011403 subunit interface [polypeptide binding]; other site 930944011404 carbamoyl phosphate synthase large subunit; Reviewed; Region: carB; PRK05294 930944011405 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 930944011406 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 930944011407 Carbamoyl-phosphate synthetase large chain, oligomerisation domain; Region: CPSase_L_D3; pfam02787 930944011408 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 930944011409 ATP-grasp domain; Region: ATP-grasp_4; cl17255 930944011410 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 930944011411 IMP binding site; other site 930944011412 dimer interface [polypeptide binding]; other site 930944011413 interdomain contacts; other site 930944011414 partial ornithine binding site; other site 930944011415 LysE type translocator; Region: LysE; cl00565 930944011416 Uncharacterized conserved protein [Function unknown]; Region: COG2966 930944011417 Protein of unknown function (DUF1212); Region: DUF1212; pfam06738 930944011418 Protein of unknown function (DUF3815); Region: DUF3815; cl01118 930944011419 Dihydrofolate reductase [Coenzyme metabolism]; Region: FolA; COG0262 930944011420 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 930944011421 folate binding site [chemical binding]; other site 930944011422 NADP+ binding site [chemical binding]; other site 930944011423 diadenosine tetraphosphatase; Reviewed; Region: apaH; PRK00166 930944011424 Escherichia coli ApaH and related proteins, metallophosphatase domain; Region: MPP_ApaH; cd07422 930944011425 active site 930944011426 metal binding site [ion binding]; metal-binding site 930944011427 CO2+/MG2+ efflux protein ApaG; Reviewed; Region: apaG; PRK05461 930944011428 16S ribosomal RNA methyltransferase KsgA/Dim1 family protein; Reviewed; Region: ksgA; PRK00274 930944011429 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 930944011430 S-adenosylmethionine binding site [chemical binding]; other site 930944011431 4-hydroxythreonine-4-phosphate dehydrogenase; Reviewed; Region: pdxA; PRK00232 930944011432 peptidyl-prolyl cis-trans isomerase SurA; Provisional; Region: PRK10770 930944011433 SurA N-terminal domain; Region: SurA_N; pfam09312 930944011434 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 930944011435 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 930944011436 LPS assembly outer membrane complex protein LptD; Provisional; Region: PRK03761 930944011437 OstA-like protein; Region: OstA; pfam03968 930944011438 Organic solvent tolerance protein; Region: OstA_C; pfam04453 930944011439 Dna-J like membrane chaperone protein; Provisional; Region: djlA; PRK09430 930944011440 N-terminal tellurium resistance protein terB-like domain of heat shock DnaJ-like proteins; Region: terB_like_DjlA; cd07316 930944011441 putative metal binding site [ion binding]; other site 930944011442 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 930944011443 HSP70 interaction site [polypeptide binding]; other site 930944011444 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 930944011445 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 930944011446 active site 930944011447 Protein of unknown function (DUF3442); Region: DUF3442; pfam11924 930944011448 Bacterial Ig-like domain (group 1); Region: BID_1; smart00634 930944011449 Bacterial Ig-like domain (group 1); Region: BID_1; smart00634 930944011450 Bacterial Ig-like domain (group 1); Region: Big_1; cl17740 930944011451 ATP-dependent helicase HepA; Validated; Region: PRK04914 930944011452 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 930944011453 ATP binding site [chemical binding]; other site 930944011454 putative Mg++ binding site [ion binding]; other site 930944011455 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 930944011456 nucleotide binding region [chemical binding]; other site 930944011457 ATP-binding site [chemical binding]; other site 930944011458 DNA polymerase II; Reviewed; Region: PRK05762 930944011459 DEDDy 3'-5' exonuclease domain of Escherichia coli DNA polymerase II and similar bacterial family-B DNA polymerases; Region: DNA_polB_II_exo; cd05784 930944011460 active site 930944011461 catalytic site [active] 930944011462 substrate binding site [chemical binding]; other site 930944011463 DNA polymerase type-II subfamily catalytic domain. Bacteria contain five DNA polymerases (I, II, III, IV and V). DNA polymerase II (Pol II) is a prototype for the B-family of polymerases. The role of Pol II in a variety of cellular activities, such as...; Region: POLBc_Pol_II; cd05537 930944011464 active site 930944011465 metal-binding site 930944011466 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 930944011467 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 930944011468 thiamine transporter ATP-binding subunit; Provisional; Region: thiQ; PRK10771 930944011469 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 930944011470 Walker A/P-loop; other site 930944011471 ATP binding site [chemical binding]; other site 930944011472 Q-loop/lid; other site 930944011473 ABC transporter signature motif; other site 930944011474 Walker B; other site 930944011475 D-loop; other site 930944011476 H-loop/switch region; other site 930944011477 thiamine transporter membrane protein; Reviewed; Region: thiP; PRK09433 930944011478 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 930944011479 dimer interface [polypeptide binding]; other site 930944011480 conserved gate region; other site 930944011481 putative PBP binding loops; other site 930944011482 ABC-ATPase subunit interface; other site 930944011483 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 930944011484 dimer interface [polypeptide binding]; other site 930944011485 conserved gate region; other site 930944011486 putative PBP binding loops; other site 930944011487 ABC-ATPase subunit interface; other site 930944011488 ABC-type thiamine transport system, periplasmic component [Coenzyme metabolism]; Region: TbpA; COG4143 930944011489 thiamine transporter substrate binding subunit; Provisional; Region: tbpA; PRK11205 930944011490 Protein of unknown function (DUF4225); Region: DUF4225; pfam13988 930944011491 transcriptional regulator SgrR; Provisional; Region: PRK13626 930944011492 Sugar transport-related sRNA regulator N-term; Region: SgrR_N; pfam12793 930944011493 The C-terminal solute-binding domain of DNA-binding transcriptional regulator SgrR is related to the ABC-type oligopeptide-binding proteins and contains the type 2 periplasmic-binding fold; Region: PBP2_SgrR_like; cd08507 930944011494 glycyl-radical enzyme activating protein family; Region: PFLE_PFLC; TIGR02494 930944011495 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 930944011496 FeS/SAM binding site; other site 930944011497 glycyl radical enzyme, PFL2/glycerol dehydratase family; Region: PFL2-3; TIGR01774 930944011498 Pyruvate formate lyase 2 and related enzymes; Region: PFL2_DhaB_BssA; cd01677 930944011499 dimer interface [polypeptide binding]; other site 930944011500 active site 930944011501 glycine loop; other site 930944011502 sugar efflux transporter; Region: 2A0120; TIGR00899 930944011503 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 930944011504 putative substrate translocation pore; other site 930944011505 tryptophan permease; Provisional; Region: PRK10483 930944011506 aromatic amino acid transport protein; Region: araaP; TIGR00837 930944011507 potential frameshift: common BLAST hit: gi|332160392|ref|YP_004296969.1| tryptophanase 930944011508 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 930944011509 catalytic residue [active] 930944011510 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 930944011511 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 930944011512 isopropylmalate isomerase small subunit; Provisional; Region: leuD; PRK01641 930944011513 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 930944011514 substrate binding site [chemical binding]; other site 930944011515 3-isopropylmalate dehydratase large subunit; Reviewed; Region: PRK00402 930944011516 3-isopropylmalate dehydratase catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate; Region: IPMI; cd01583 930944011517 substrate binding site [chemical binding]; other site 930944011518 ligand binding site [chemical binding]; other site 930944011519 3-isopropylmalate dehydrogenase; Provisional; Region: PRK00772 930944011520 tartrate dehydrogenase; Region: TTC; TIGR02089 930944011521 2-isopropylmalate synthase; Validated; Region: PRK00915 930944011522 2-isopropylmalate synthase (IPMS), N-terminal catalytic TIM barrel domain; Region: DRE_TIM_IPMS; cd07940 930944011523 active site 930944011524 catalytic residues [active] 930944011525 metal binding site [ion binding]; metal-binding site 930944011526 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; pfam08502 930944011527 leucine transcriptional activator; Reviewed; Region: leuO; PRK09508 930944011528 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 930944011529 The C-terminal substrate binding domain of LysR-type transcriptional regulator LeuO, an activator of leucine synthesis operon, contains the type 2 periplasmic binding fold; Region: PBP2_LeuO; cd08466 930944011530 putative substrate binding pocket [chemical binding]; other site 930944011531 putative dimerization interface [polypeptide binding]; other site 930944011532 Long-chain acyl-CoA synthetases (AMP-forming) [Lipid metabolism]; Region: FAA1; COG1022 930944011533 Long-chain fatty acid CoA synthetases and Bubblegum-like very long-chain fatty acid CoA synthetases; Region: VL_LC_FACS_like; cd05907 930944011534 acyl-activating enzyme (AAE) consensus motif; other site 930944011535 putative AMP binding site [chemical binding]; other site 930944011536 putative active site [active] 930944011537 putative CoA binding site [chemical binding]; other site 930944011538 acetolactate synthase 3 catalytic subunit; Validated; Region: PRK07979 930944011539 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 930944011540 PYR/PP interface [polypeptide binding]; other site 930944011541 dimer interface [polypeptide binding]; other site 930944011542 TPP binding site [chemical binding]; other site 930944011543 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 930944011544 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 930944011545 TPP-binding site [chemical binding]; other site 930944011546 dimer interface [polypeptide binding]; other site 930944011547 acetolactate synthase 3 regulatory subunit; Reviewed; Region: ilvH; PRK11895 930944011548 N-terminal ACT domain of the Escherichia coli IlvH-like regulatory subunit of acetohydroxyacid synthase (AHAS); Region: ACT_AHAS; cd04878 930944011549 putative valine binding site [chemical binding]; other site 930944011550 dimer interface [polypeptide binding]; other site 930944011551 Small subunit of acetolactate synthase; Region: ALS_ss_C; pfam10369 930944011552 DNA-binding transcriptional regulator FruR; Provisional; Region: PRK11303 930944011553 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 930944011554 DNA binding site [nucleotide binding] 930944011555 domain linker motif; other site 930944011556 Ligand binding domain of DNA transcription repressor specific for fructose (FruR) and its close homologs; Region: PBP1_FruR; cd06274 930944011557 dimerization interface [polypeptide binding]; other site 930944011558 ligand binding site [chemical binding]; other site 930944011559 Protein of unknown function (DUF1144); Region: DUF1144; pfam06610 930944011560 cell division protein MraZ; Reviewed; Region: PRK00326 930944011561 MraZ protein; Region: MraZ; pfam02381 930944011562 MraZ protein; Region: MraZ; pfam02381 930944011563 MraW methylase family; Region: Methyltransf_5; pfam01795 930944011564 16S rRNA m(4)C1402 methyltranserfase; Provisional; Region: PRK00050 930944011565 cell division protein FtsL; Provisional; Region: PRK10772 930944011566 peptidoglycan synthase FtsI; Provisional; Region: PRK15105 930944011567 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 930944011568 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 930944011569 UDP-N-acetylmuramoylalanyl-D-glutamate--2, 6-diaminopimelate ligase; Provisional; Region: murE; PRK00139 930944011570 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 930944011571 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 930944011572 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 930944011573 UDP-N-acetylmuramoyl-tripeptide--D-alanyl-D-alanine ligase; Reviewed; Region: murF; PRK10773 930944011574 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 930944011575 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 930944011576 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 930944011577 phospho-N-acetylmuramoyl-pentapeptide-transferase; Provisional; Region: mraY; PRK00108 930944011578 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 930944011579 Mg++ binding site [ion binding]; other site 930944011580 putative catalytic motif [active] 930944011581 putative substrate binding site [chemical binding]; other site 930944011582 UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase; Provisional; Region: murD; PRK03806 930944011583 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 930944011584 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 930944011585 cell division protein FtsW; Provisional; Region: PRK10774 930944011586 undecaprenyldiphospho-muramoylpentapeptide beta-N- acetylglucosaminyltransferase; Provisional; Region: murG; PRK00726 930944011587 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 930944011588 active site 930944011589 homodimer interface [polypeptide binding]; other site 930944011590 UDP-N-acetylmuramate--L-alanine ligase; Provisional; Region: murC; PRK00421 930944011591 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 930944011592 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 930944011593 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 930944011594 D-alanine--D-alanine ligase; Reviewed; Region: ddl; PRK01372 930944011595 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 930944011596 D-ala D-ala ligase C-terminus; Region: Dala_Dala_lig_C; pfam07478 930944011597 cell division protein FtsQ; Provisional; Region: PRK10775 930944011598 POTRA domain, FtsQ-type; Region: POTRA_1; pfam08478 930944011599 Cell division protein FtsQ; Region: FtsQ; pfam03799 930944011600 cell division protein FtsA; Reviewed; Region: ftsA; PRK09472 930944011601 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 930944011602 Cell division protein FtsA; Region: FtsA; pfam14450 930944011603 cell division protein FtsZ; Validated; Region: PRK09330 930944011604 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 930944011605 nucleotide binding site [chemical binding]; other site 930944011606 SulA interaction site; other site 930944011607 UDP-3-O-[3-hydroxymyristoyl] N-acetylglucosamine deacetylase; Reviewed; Region: lpxC; PRK13186 930944011608 UDP-3-O-acyl N-acetylglycosamine deacetylase; Region: LpxC; pfam03331 930944011609 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4701 930944011610 SecA regulator SecM; Provisional; Region: PRK02943 930944011611 preprotein translocase subunit SecA; Reviewed; Region: PRK12904 930944011612 SecA preprotein cross-linking domain; Region: SecA_PP_bind; smart00958 930944011613 SEC-C motif; Region: SEC-C; pfam02810 930944011614 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 930944011615 active site 930944011616 8-oxo-dGMP binding site [chemical binding]; other site 930944011617 nudix motif; other site 930944011618 metal binding site [ion binding]; metal-binding site 930944011619 DNA gyrase inhibitor; Reviewed; Region: PRK00418 930944011620 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4582 930944011621 Dephospho-CoA kinase [Coenzyme metabolism]; Region: CoaE; COG0237 930944011622 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 930944011623 CoA-binding site [chemical binding]; other site 930944011624 ATP-binding [chemical binding]; other site 930944011625 guanosine 5'-monophosphate oxidoreductase; Provisional; Region: PRK05096 930944011626 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 930944011627 active site 930944011628 type IV pilin biogenesis protein; Provisional; Region: PRK10573 930944011629 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 930944011630 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 930944011631 hypothetical protein; Provisional; Region: PRK10436 930944011632 Type II secretion system (T2SS), protein E, N-terminal domain; Region: T2SE_Nter; pfam05157 930944011633 PulE/GspE The type II secretory pathway is the main terminal branch of the general secretory pathway (GSP). It is responsible for the export the majority of Gram-negative bacterial exoenzymes and toxins. PulE is a cytoplasmic protein of the GSP, which...; Region: PulE-GspE; cd01129 930944011634 Walker A motif; other site 930944011635 ATP binding site [chemical binding]; other site 930944011636 Walker B motif; other site 930944011637 putative major pilin subunit; Provisional; Region: PRK10574 930944011638 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; pfam13544 930944011639 quinolinate phosphoribosyltransferase; Validated; Region: PRK09016 930944011640 Quinolinate phosphoribosyl transferase (QAPRTase or QPRTase), also called nicotinate-nucleotide pyrophosphorylase, is involved in the de novo synthesis of NAD in both prokaryotes and eukaryotes. It catalyses the reaction of quinolinic acid (QA) with...; Region: QPRTase; cd01572 930944011641 dimerization interface [polypeptide binding]; other site 930944011642 active site 930944011643 N-acetyl-anhydromuramyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: ampD; COG3023 930944011644 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 930944011645 amidase catalytic site [active] 930944011646 substrate binding site [chemical binding]; other site 930944011647 Zn binding residues [ion binding]; other site 930944011648 regulatory protein AmpE; Provisional; Region: PRK10987 930944011649 aromatic amino acid transporter; Provisional; Region: PRK10238 930944011650 aromatic amino acid transporter; Provisional; Region: PRK10238 930944011651 transcriptional regulator PdhR; Reviewed; Region: pdhR; PRK09464 930944011652 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 930944011653 DNA-binding site [nucleotide binding]; DNA binding site 930944011654 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 930944011655 pyruvate dehydrogenase subunit E1; Reviewed; Region: aceE; PRK09405 930944011656 Thiamine pyrophosphate (TPP) family, E1 of E. coli PDC-like subfamily, TPP-binding module; composed of proteins similar to the E1 component of the Escherichia coli pyruvate dehydrogenase multienzyme complex (PDC). PDC catalyzes the oxidative...; Region: TPP_E1_EcPDC_like; cd02017 930944011657 dimer interface [polypeptide binding]; other site 930944011658 TPP-binding site [chemical binding]; other site 930944011659 pyruvate dehydrogenase dihydrolipoyltransacetylase; Validated; Region: aceF; PRK11854 930944011660 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 930944011661 E3 interaction surface; other site 930944011662 lipoyl attachment site [posttranslational modification]; other site 930944011663 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 930944011664 E3 interaction surface; other site 930944011665 lipoyl attachment site [posttranslational modification]; other site 930944011666 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 930944011667 E3 interaction surface; other site 930944011668 lipoyl attachment site [posttranslational modification]; other site 930944011669 e3 binding domain; Region: E3_binding; pfam02817 930944011670 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 930944011671 dihydrolipoamide dehydrogenase; Reviewed; Region: PRK06467 930944011672 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 930944011673 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 930944011674 VIP2; A family of actin-ADP-ribosylating toxin. A member of the Bacillus-prodiced vegetative insecticidal proteins (VIPs) possesses high specificity against the major insect pest, corn rootworms, and belongs to a classs of binary toxins and regulators of...; Region: VIP2; cl00173 930944011675 conformational flexibility of ligand binding pocket; other site 930944011676 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 930944011677 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 930944011678 outer membrane receptor FepA; Provisional; Region: PRK13524 930944011679 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 930944011680 N-terminal plug; other site 930944011681 ligand-binding site [chemical binding]; other site 930944011682 bifunctional aconitate hydratase 2/2-methylisocitrate dehydratase; Validated; Region: PRK09238 930944011683 Aconitase B swivel domain. Aconitate hydratase B is involved in energy metabolism as part of the TCA cycle. It catalyses the formation of cis-aconitate from citrate. This is the aconitase swivel domain, which undergoes swivelling conformational change in...; Region: AcnB_Swivel; cd01576 930944011684 substrate binding site [chemical binding]; other site 930944011685 Aconitate hydratase B catalyses the formation of cis-aconitate from citrate as part of the TCA cycle; Region: AcnB; cd01581 930944011686 substrate binding site [chemical binding]; other site 930944011687 ligand binding site [chemical binding]; other site 930944011688 hypothetical protein; Provisional; Region: PRK05248 930944011689 aromatic amino acid exporter; Provisional; Region: PRK11689 930944011690 EamA-like transporter family; Region: EamA; cl17759 930944011691 S-adenosylmethionine decarboxylase; Provisional; Region: PRK05462 930944011692 spermidine synthase; Provisional; Region: PRK00811 930944011693 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 930944011694 S-adenosylmethionine binding site [chemical binding]; other site 930944011695 Bacterial chaperone lipoprotein (PulS_OutS); Region: PulS_OutS; cl09898 930944011696 multicopper oxidase; Provisional; Region: PRK10965 930944011697 Multicopper oxidase; Region: Cu-oxidase_3; pfam07732 930944011698 Multicopper oxidase; Region: Cu-oxidase; pfam00394 930944011699 Multicopper oxidase; Region: Cu-oxidase_2; pfam07731 930944011700 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 930944011701 active site 930944011702 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 930944011703 active site clefts [active] 930944011704 zinc binding site [ion binding]; other site 930944011705 dimer interface [polypeptide binding]; other site 930944011706 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 930944011707 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 930944011708 Walker A/P-loop; other site 930944011709 ATP binding site [chemical binding]; other site 930944011710 Q-loop/lid; other site 930944011711 ABC transporter signature motif; other site 930944011712 Walker B; other site 930944011713 D-loop; other site 930944011714 H-loop/switch region; other site 930944011715 inner membrane transport permease; Provisional; Region: PRK15066 930944011716 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 930944011717 Bacterial SH3 domain; Region: SH3_3; cl17532 930944011718 Putative catalytic polysaccharide deacetylase domain of uncharacterized protein yadE and similar proteins; Region: CE4_yadE_5s; cd10966 930944011719 putative active site [active] 930944011720 putative metal binding site [ion binding]; other site 930944011721 Aspartate alpha-decarboxylase or L-aspartate 1-decarboxylase, a pyruvoyl group-dependent decarboxylase in beta-alanine production; Region: Asp_decarbox; cd06919 930944011722 tetramerization interface [polypeptide binding]; other site 930944011723 active site 930944011724 Pantoate-beta-alanine ligase; Region: PanC; cd00560 930944011725 pantoate--beta-alanine ligase; Region: panC; TIGR00018 930944011726 active site 930944011727 ATP-binding site [chemical binding]; other site 930944011728 pantoate-binding site; other site 930944011729 HXXH motif; other site 930944011730 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 930944011731 oligomerization interface [polypeptide binding]; other site 930944011732 active site 930944011733 metal binding site [ion binding]; metal-binding site 930944011734 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 930944011735 catalytic center binding site [active] 930944011736 ATP binding site [chemical binding]; other site 930944011737 poly(A) polymerase I; Provisional; Region: pcnB; PRK11623 930944011738 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 930944011739 active site 930944011740 NTP binding site [chemical binding]; other site 930944011741 metal binding triad [ion binding]; metal-binding site 930944011742 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 930944011743 Polymerase A arginine-rich C-terminus; Region: PolyA_pol_arg_C; pfam12626 930944011744 glutamyl-Q tRNA(Asp) synthetase; Reviewed; Region: PRK05710 930944011745 Glutamyl- and glutaminyl-tRNA synthetases [Translation, ribosomal structure and biogenesis]; Region: GlnS; COG0008 930944011746 active site 930944011747 nucleotide binding site [chemical binding]; other site 930944011748 HIGH motif; other site 930944011749 KMSKS motif; other site 930944011750 RNA polymerase-binding transcription factor; Provisional; Region: dksA; PRK10778 930944011751 putative DNA-binding transcriptional regulator; Reviewed; Region: PRK00347 930944011752 2'-5' RNA ligase; Provisional; Region: PRK15124 930944011753 LigT like Phosphoesterase; Region: LigT_PEase; pfam02834 930944011754 ATP-dependent RNA helicase HrpB; Provisional; Region: PRK11664 930944011755 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 930944011756 ATP binding site [chemical binding]; other site 930944011757 putative Mg++ binding site [ion binding]; other site 930944011758 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 930944011759 nucleotide binding region [chemical binding]; other site 930944011760 ATP-binding site [chemical binding]; other site 930944011761 Helicase associated domain (HA2) Add an annotation; Region: HA2; smart00847 930944011762 ATP-dependent helicase C-terminal; Region: HrpB_C; pfam08482 930944011763 bifunctional glycosyl transferase/transpeptidase; Reviewed; Region: mrcB; PRK09506 930944011764 Transglycosylase; Region: Transgly; pfam00912 930944011765 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 930944011766 iron-hydroxamate transporter ATP-binding subunit; Provisional; Region: PRK10575 930944011767 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 930944011768 Walker A/P-loop; other site 930944011769 ATP binding site [chemical binding]; other site 930944011770 Q-loop/lid; other site 930944011771 ABC transporter signature motif; other site 930944011772 Walker B; other site 930944011773 D-loop; other site 930944011774 H-loop/switch region; other site 930944011775 Fe3+-siderophore binding domain FhuD. These proteins have been shown to function as initial receptors in ABC transport of Fe3+-siderophores in many eubacterial species. They belong to the TroA-like superfamily of helical backbone metal receptor proteins...; Region: FhuD; cd01146 930944011776 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 930944011777 siderophore binding site; other site 930944011778 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 930944011779 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 930944011780 ABC-ATPase subunit interface; other site 930944011781 dimer interface [polypeptide binding]; other site 930944011782 putative PBP binding regions; other site 930944011783 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 930944011784 ABC-ATPase subunit interface; other site 930944011785 dimer interface [polypeptide binding]; other site 930944011786 putative PBP binding regions; other site 930944011787 nitrite extrusion protein (nitrite facilitator); Region: 2A0108; TIGR00886 930944011788 glutamate-1-semialdehyde aminotransferase; Provisional; Region: PRK00062 930944011789 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 930944011790 inhibitor-cofactor binding pocket; inhibition site 930944011791 pyridoxal 5'-phosphate binding site [chemical binding]; other site 930944011792 catalytic residue [active] 930944011793 Chloride channel protein EriC [Inorganic ion transport and metabolism]; Region: EriC; COG0038 930944011794 ClC chloride channel EriC. This domain is found in the EriC chloride transporters that mediate the extreme acid resistance response in eubacteria and archaea. This response allows bacteria to survive in the acidic environments by decarboxylation-linked...; Region: EriC; cd01031 930944011795 Cl- selectivity filter; other site 930944011796 Cl- binding residues [ion binding]; other site 930944011797 pore gating glutamate residue; other site 930944011798 dimer interface [polypeptide binding]; other site 930944011799 H+/Cl- coupling transport residue; other site 930944011800 iron-sulfur cluster insertion protein ErpA; Provisional; Region: PRK13623 930944011801 hypothetical protein; Provisional; Region: PRK10578 930944011802 UPF0126 domain; Region: UPF0126; pfam03458 930944011803 UPF0126 domain; Region: UPF0126; pfam03458 930944011804 vitamin B12-transporter protein BtuF; Provisional; Region: PRK03379 930944011805 Cobalamin binding protein BtuF. These proteins have been shown to function as initial receptors in ABC transport of vitamin B12 (cobalamin) in eubacterial and some archaeal species. They belong to the TroA superfamily of helical backbone metal receptor...; Region: BtuF; cd01144 930944011806 cobalamin binding residues [chemical binding]; other site 930944011807 putative BtuC binding residues; other site 930944011808 dimer interface [polypeptide binding]; other site 930944011809 5'-methylthioadenosine/S-adenosylhomocysteine nucleosidase; Validated; Region: PRK05584 930944011810 5'-methylthioadenosine/S-adenosylhomocysteine nucleosidase; Region: MTA/SAH-Nsdase; TIGR01704 930944011811 deoxyguanosinetriphosphate triphosphohydrolase; Provisional; Region: dgt; PRK04926 930944011812 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 930944011813 Zn2+ binding site [ion binding]; other site 930944011814 Mg2+ binding site [ion binding]; other site 930944011815 Phosphohydrolase-associated domain; Region: HD_assoc; pfam13286 930944011816 serine endoprotease; Provisional; Region: PRK10942 930944011817 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 930944011818 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 930944011819 protein binding site [polypeptide binding]; other site 930944011820 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 930944011821 protein binding site [polypeptide binding]; other site 930944011822 potential frameshift: common BLAST hit: gi|123441097|ref|YP_001005086.1| hybrid sensory histidine kinase BarA 930944011823 Histidine Phosphotransfer domain, involved in signalling through a two part component systems in which an autophosphorylating histidine protein kinase serves as a phosphoryl donor to a response regulator protein; the response regulator protein is...; Region: HPT; cd00088 930944011824 putative binding surface; other site 930944011825 active site 930944011826 Uncharacterized signal transduction histidine kinase domain (DUF2222); Region: DUF2222; pfam09984 930944011827 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 930944011828 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 930944011829 dimerization interface [polypeptide binding]; other site 930944011830 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 930944011831 dimer interface [polypeptide binding]; other site 930944011832 phosphorylation site [posttranslational modification] 930944011833 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 930944011834 ATP binding site [chemical binding]; other site 930944011835 Mg2+ binding site [ion binding]; other site 930944011836 G-X-G motif; other site 930944011837 Uncharacterized domain of BarA-like signal transduction histidine kinases [Signal transduction mechanisms]; Region: COG4999 930944011838 Response regulator receiver domain; Region: Response_reg; pfam00072 930944011839 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 930944011840 active site 930944011841 phosphorylation site [posttranslational modification] 930944011842 intermolecular recognition site; other site 930944011843 dimerization interface [polypeptide binding]; other site 930944011844 23S rRNA m(5)U1939 methyltransferase; Reviewed; Region: rumA; PRK13168 930944011845 TRAM domain; Region: TRAM; pfam01938 930944011846 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl17173 930944011847 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 930944011848 S-adenosylmethionine binding site [chemical binding]; other site 930944011849 (p)ppGpp synthetase I/GTP pyrophosphokinase; Provisional; Region: relA; PRK10872 930944011850 HD domain; Region: HD_4; pfam13328 930944011851 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 930944011852 synthetase active site [active] 930944011853 NTP binding site [chemical binding]; other site 930944011854 metal binding site [ion binding]; metal-binding site 930944011855 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 930944011856 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 930944011857 nucleoside triphosphate pyrophosphohydrolase; Reviewed; Region: mazG; PRK09562 930944011858 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 930944011859 homodimer interface [polypeptide binding]; other site 930944011860 metal binding site [ion binding]; metal-binding site 930944011861 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 930944011862 homodimer interface [polypeptide binding]; other site 930944011863 active site 930944011864 putative chemical substrate binding site [chemical binding]; other site 930944011865 metal binding site [ion binding]; metal-binding site 930944011866 CTP synthetase; Validated; Region: pyrG; PRK05380 930944011867 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 930944011868 Catalytic site [active] 930944011869 active site 930944011870 UTP binding site [chemical binding]; other site 930944011871 Type 1 glutamine amidotransferase (GATase1) domain found in Cytidine Triphosphate Synthetase; Region: GATase1_CTP_Synthase; cd01746 930944011872 active site 930944011873 putative oxyanion hole; other site 930944011874 catalytic triad [active] 930944011875 enolase; Provisional; Region: eno; PRK00077 930944011876 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 930944011877 dimer interface [polypeptide binding]; other site 930944011878 metal binding site [ion binding]; metal-binding site 930944011879 substrate binding pocket [chemical binding]; other site 930944011880 5-formyltetrahydrofolate cyclo-ligase family; Region: 5-FTHF_cyc-lig; pfam01812 930944011881 5-formyltetrahydrofolate cyclo-ligase [Coenzyme metabolism]; Region: COG0212; cl00360 930944011882 Z-ring-associated protein; Provisional; Region: PRK10972 930944011883 hypothetical protein; Reviewed; Region: PRK01736 930944011884 proline aminopeptidase P II; Provisional; Region: PRK10879 930944011885 Aminopeptidase P, N-terminal domain; Region: AMP_N; pfam05195 930944011886 Prolidase. E.C. 3.4.13.9. Also known as Xaa-Pro dipeptidase, X-Pro dipeptidase, proline dipeptidase., imidodipeptidase, peptidase D, gamma-peptidase. Catalyses hydrolysis of Xaa-Pro dipeptides; also acts on aminoacyl-hydroxyproline analogs. No action on...; Region: Prolidase; cd01087 930944011887 active site 930944011888 2-octaprenyl-6-methoxyphenyl hydroxylase; Validated; Region: PRK05732 930944011889 2-polyprenyl-6-methoxyphenol 4-hydroxylase; Region: UbiH; TIGR01984 930944011890 oxidoreductase; Provisional; Region: PRK08013 930944011891 Ubiquinone biosynthesis hydroxylase, UbiH/UbiF/VisC/COQ6 family; Region: Ubi-OHases; TIGR01988 930944011892 glycine cleavage system aminomethyltransferase T; Reviewed; Region: gcvT; PRK00389 930944011893 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 930944011894 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 930944011895 lipoyl attachment site [posttranslational modification]; other site 930944011896 glycine dehydrogenase; Provisional; Region: PRK05367 930944011897 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 930944011898 tetramer interface [polypeptide binding]; other site 930944011899 pyridoxal 5'-phosphate binding site [chemical binding]; other site 930944011900 catalytic residue [active] 930944011901 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 930944011902 tetramer interface [polypeptide binding]; other site 930944011903 pyridoxal 5'-phosphate binding site [chemical binding]; other site 930944011904 catalytic residue [active] 930944011905 Lipocalin-like domain; Region: Lipocalin_5; pfam13924 930944011906 putative NAD(P)-binding oxidoreductase; Provisional; Region: PRK09730 930944011907 classical (c) SDRs; Region: SDR_c; cd05233 930944011908 NAD(P) binding site [chemical binding]; other site 930944011909 active site 930944011910 HD domain; Region: HD_3; pfam13023 930944011911 hemolysin; Provisional; Region: PRK15087 930944011912 channel protein, hemolysin III family; Region: hlyIII; TIGR01065 930944011913 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 930944011914 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 930944011915 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 930944011916 Transposase; Region: DEDD_Tnp_IS110; pfam01548 930944011917 putative global regulator; Reviewed; Region: PRK09559 930944011918 folate-binding protein YgfZ; Region: ygfZ_signature; TIGR03317 930944011919 hypothetical protein; Provisional; Region: PRK10878 930944011920 Protein of unknown function (DUF1434); Region: DUF1434; pfam07254 930944011921 DNA-binding response regulator CreB; Provisional; Region: PRK11083 930944011922 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 930944011923 active site 930944011924 phosphorylation site [posttranslational modification] 930944011925 intermolecular recognition site; other site 930944011926 dimerization interface [polypeptide binding]; other site 930944011927 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 930944011928 DNA binding site [nucleotide binding] 930944011929 potential frameshift: common BLAST hit: gi|332160503|ref|YP_004297080.1| sensory histidine kinase CreC 930944011930 sensory histidine kinase CreC; Provisional; Region: PRK11100 930944011931 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 930944011932 dimer interface [polypeptide binding]; other site 930944011933 phosphorylation site [posttranslational modification] 930944011934 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 930944011935 ATP binding site [chemical binding]; other site 930944011936 Mg2+ binding site [ion binding]; other site 930944011937 G-X-G motif; other site 930944011938 Inner membrane protein CreD; Region: CreD; cl01844 930944011939 flavodoxin FldB; Provisional; Region: PRK12359 930944011940 site-specific tyrosine recombinase XerD; Reviewed; Region: xerD; PRK00283 930944011941 XerD and XerC integrases, DNA breaking-rejoining enzymes, N- and C-terminal domains. XerD-like integrases are involved in the site-specific integration and excision of lysogenic bacteriophage genomes, transposition of conjugative transposons, termination...; Region: INT_XerDC; cd00798 930944011942 active site 930944011943 Int/Topo IB signature motif; other site 930944011944 protein disulfide isomerase II DsbC; Provisional; Region: PRK10877 930944011945 DsbA family, DsbC and DsbG subfamily; V-shaped homodimeric proteins containing a redox active CXXC motif imbedded in a TRX fold. They function as protein disulfide isomerases and chaperones in the bacterial periplasm to correct non-native disulfide bonds...; Region: DsbA_DsbC_DsbG; cd03020 930944011946 dimerization domain [polypeptide binding]; other site 930944011947 dimer interface [polypeptide binding]; other site 930944011948 catalytic residues [active] 930944011949 ssDNA exonuclease RecJ; Provisional; Region: PRK11070 930944011950 DHH family; Region: DHH; pfam01368 930944011951 DHHA1 domain; Region: DHHA1; pfam02272 930944011952 This domain is found in peptide chain release factors; Region: PCRF; smart00937 930944011953 Protein chain release factor B [Translation, ribosomal structure and biogenesis]; Region: PrfB; COG1186 930944011954 RF-1 domain; Region: RF-1; pfam00472 930944011955 lysyl-tRNA synthetase; Reviewed; Region: lysS; PRK00484 930944011956 LysRS_N: N-terminal, anticodon recognition domain of lysyl-tRNA synthetases (LysRS). These enzymes are homodimeric class 2b aminoacyl-tRNA synthetases (aaRSs). This domain is a beta-barrel domain (OB fold) involved in binding the tRNA anticodon stem-loop; Region: LysRS_N; cd04322 930944011957 dimer interface [polypeptide binding]; other site 930944011958 putative anticodon binding site; other site 930944011959 Lys_tRNA synthetase (LysRS) class II core domain. Class II LysRS is a dimer which attaches a lysine to the 3' OH group of ribose of the appropriate tRNA. Its assignment to class II aaRS is based upon its structure and the presence of three...; Region: LysRS_core; cd00775 930944011960 motif 1; other site 930944011961 active site 930944011962 motif 2; other site 930944011963 motif 3; other site 930944011964 Cytotoxic translational repressor of toxin-antitoxin stability system [Translation, ribosomal structure and biogenesis / Cell division and chromosome partitioning]; Region: RelE; COG2026 930944011965 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 930944011966 non-specific DNA binding site [nucleotide binding]; other site 930944011967 salt bridge; other site 930944011968 sequence-specific DNA binding site [nucleotide binding]; other site 930944011969 Motility quorum-sensing regulator (MqsR); Region: MqsR; cd12869 930944011970 peptide binding site [polypeptide binding]; other site 930944011971 antitoxin MqsA for MqsR toxin; Region: MqsA; cd12870 930944011972 toxin interface [polypeptide binding]; other site 930944011973 putative zinc finger/helix-turn-helix protein, YgiT family; Region: CxxCG_CxxCG_HTH; TIGR03830 930944011974 Zn binding site [ion binding]; other site 930944011975 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 930944011976 non-specific DNA binding site [nucleotide binding]; other site 930944011977 salt bridge; other site 930944011978 sequence-specific DNA binding site [nucleotide binding]; other site 930944011979 Transposase, Mutator family; Region: Transposase_mut; pfam00872 930944011980 MULE transposase domain; Region: MULE; pfam10551 930944011981 Predicted transcriptional regulator [Transcription]; Region: AlpA; COG3311 930944011982 Fic family protein [Function unknown]; Region: COG3177 930944011983 Fic family protein [Function unknown]; Region: COG3177 930944011984 Ketosteroid isomerase homolog [Function unknown]; Region: COG4319 930944011985 PAS domain S-box; Region: sensory_box; TIGR00229 930944011986 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 930944011987 putative active site [active] 930944011988 heme pocket [chemical binding]; other site 930944011989 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 930944011990 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 930944011991 metal binding site [ion binding]; metal-binding site 930944011992 active site 930944011993 I-site; other site 930944011994 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 930944011995 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 930944011996 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 930944011997 Transposase; Region: DEDD_Tnp_IS110; pfam01548 930944011998 curved DNA-binding protein CbpA; Provisional; Region: PRK10266 930944011999 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 930944012000 HSP70 interaction site [polypeptide binding]; other site 930944012001 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 930944012002 substrate binding site [polypeptide binding]; other site 930944012003 dimer interface [polypeptide binding]; other site 930944012004 chaperone-modulator protein CbpM; Provisional; Region: PRK10265 930944012005 MerR HTH family regulatory protein; Region: MerR_2; pfam13591 930944012006 short chain dehydrogenase; Provisional; Region: PRK06500 930944012007 classical (c) SDRs; Region: SDR_c; cd05233 930944012008 NAD(P) binding site [chemical binding]; other site 930944012009 active site 930944012010 Predicted transcriptional regulators [Transcription]; Region: COG1733 930944012011 HxlR-like helix-turn-helix; Region: HxlR; pfam01638 930944012012 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_cladeC; cd03378 930944012013 active site clefts [active] 930944012014 zinc binding site [ion binding]; other site 930944012015 dimer interface [polypeptide binding]; other site 930944012016 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 930944012017 Type IV pilus biogenesis; Region: Pilus_PilP; pfam11356 930944012018 potential frameshift: common BLAST hit: gi|332160534|ref|YP_004297111.1| general secretion pathway protein D 930944012019 type II secretion system protein D; Region: type_II_gspD; TIGR02517 930944012020 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 930944012021 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 930944012022 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 930944012023 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 930944012024 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 930944012025 type II secretion system protein E; Region: type_II_gspE; TIGR02533 930944012026 PulE/GspE The type II secretory pathway is the main terminal branch of the general secretory pathway (GSP). It is responsible for the export the majority of Gram-negative bacterial exoenzymes and toxins. PulE is a cytoplasmic protein of the GSP, which...; Region: PulE-GspE; cd01129 930944012027 Walker A motif; other site 930944012028 ATP binding site [chemical binding]; other site 930944012029 Walker B motif; other site 930944012030 potential frameshift: common BLAST hit: gi|332160536|ref|YP_004297113.1| general secretion pathway protein F 930944012031 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 930944012032 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 930944012033 Type II secretion system (T2SS), protein G; Region: T2SG; pfam08334 930944012034 Type II secretion system (T2SS), protein I; Region: T2SI; pfam02501 930944012035 Type II secretion system (T2SS), protein J; Region: T2SJ; pfam11612 930944012036 potential frameshift: common BLAST hit: gi|332160540|ref|YP_004297117.1| general secretion pathway protein K 930944012037 Type II secretory pathway, component PulK [Intracellular trafficking and secretion]; Region: PulK; COG3156 930944012038 potential frameshift: common BLAST hit: gi|123443541|ref|YP_001007514.1| general secretion pathway protein L 930944012039 Type II secretion system (T2SS), protein L; Region: T2SL; pfam05134 930944012040 Type II secretory pathway, prepilin signal peptidase PulO and related peptidases [Cell motility and secretion / Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: PulO; COG1989 930944012041 Type IV leader peptidase family; Region: Peptidase_A24; pfam01478 930944012042 Bacterial chaperone lipoprotein (PulS_OutS); Region: PulS_OutS; cl09898 930944012043 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 930944012044 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 930944012045 DNA binding site [nucleotide binding] 930944012046 ligand binding domain of Tar- and Tsr-related chemoreceptors; Region: Tar_Tsr_LBD; cd00181 930944012047 dimer interface [polypeptide binding]; other site 930944012048 ligand binding site [chemical binding]; other site 930944012049 HAMP domain; Region: HAMP; pfam00672 930944012050 dimerization interface [polypeptide binding]; other site 930944012051 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 930944012052 Methyl-accepting chemotaxis protein (MCP) signalling domain; Region: MCPsignal; pfam00015 930944012053 dimer interface [polypeptide binding]; other site 930944012054 putative CheW interface [polypeptide binding]; other site 930944012055 Predicted protein-disulfide isomerase [Posttranslational modification, protein turnover, chaperones]; Region: COG3531 930944012056 DsbA family, FrnE-like subfamily; composed of uncharacterized proteins containing a CXXC motif with similarity to DsbA and FrnE. FrnE is presumed to be a thiol oxidoreductase involved in polyketide biosynthesis, specifically in the production of the...; Region: DsbA_FrnE_like; cd03025 930944012057 catalytic residues [active] 930944012058 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 930944012059 transcriptional activator TtdR; Provisional; Region: PRK09801 930944012060 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 930944012061 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 930944012062 putative effector binding pocket; other site 930944012063 dimerization interface [polypeptide binding]; other site 930944012064 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 930944012065 putative substrate translocation pore; other site 930944012066 Major Facilitator Superfamily; Region: MFS_1; pfam07690 930944012067 DNA-binding transcriptional regulator LysR; Provisional; Region: PRK11013 930944012068 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 930944012069 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 930944012070 dimerization interface [polypeptide binding]; other site 930944012071 diaminopimelate decarboxylase; Provisional; Region: PRK11165 930944012072 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Diaminopimelate Decarboxylase; Region: PLPDE_III_DapDC; cd06828 930944012073 active site 930944012074 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 930944012075 substrate binding site [chemical binding]; other site 930944012076 catalytic residues [active] 930944012077 dimer interface [polypeptide binding]; other site 930944012078 DNA-binding transcriptional regulator GalR; Provisional; Region: PRK10727 930944012079 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 930944012080 DNA binding site [nucleotide binding] 930944012081 domain linker motif; other site 930944012082 Ligand binding domain of DNA transcription iso-repressor GalS, which is one of two regulatory proteins involved in galactose transport and metabolism; Region: PBP1_GalS_like; cd06270 930944012083 dimerization interface (closed form) [polypeptide binding]; other site 930944012084 ligand binding site [chemical binding]; other site 930944012085 The MopB_DMSOR-BSOR-TMAOR CD contains dimethylsulfoxide reductase (DMSOR), biotin sulfoxide reductase (BSOR), trimethylamine N-oxide reductase (TMAOR) and other related proteins. DMSOR always catalyzes the reduction of DMSO to dimethylsulfide, but its...; Region: MopB_DMSOR-BSOR-TMAOR; cd02769 930944012086 molybdopterin guanine dinucleotide-containing S/N-oxide reductases; Region: bisC_fam; TIGR00509 930944012087 molybdopterin cofactor binding site [chemical binding]; other site 930944012088 substrate binding site [chemical binding]; other site 930944012089 The MopB_DMSOR-BSOR-TMAOR CD contains dimethylsulfoxide reductase (DMSOR), biotin sulfoxide reductase (BSOR), trimethylamine N-oxide reductase (TMAOR) and other related proteins. DMSOR always catalyzes the reduction of DMSO to dimethylsulfide, but its...; Region: MopB_CT_DMSOR-BSOR-TMAOR; cd02793 930944012090 molybdopterin cofactor binding site; other site 930944012091 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 930944012092 Transposase; Region: DEDD_Tnp_IS110; pfam01548 930944012093 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 930944012094 bifunctional acyl-[acyl carrier protein] synthetase/2-acylglycerophosphoethanolamine acyltransferase; Validated; Region: PRK08043 930944012095 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 930944012096 putative acyl-acceptor binding pocket; other site 930944012097 C-terminal domain of the acyl-acyl carrier protein synthetase (also called 2-acylglycerophosphoethanolamine acyltransferase, Aas); Region: AAS_C; cd05909 930944012098 acyl-activating enzyme (AAE) consensus motif; other site 930944012099 putative AMP binding site [chemical binding]; other site 930944012100 lysophospholipid transporter LplT; Provisional; Region: PRK11195 930944012101 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 930944012102 putative substrate translocation pore; other site 930944012103 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 930944012104 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 930944012105 active site 930944012106 catalytic tetrad [active] 930944012107 Membrane protein TerC, possibly involved in tellurium resistance [Inorganic ion transport and metabolism]; Region: TerC; COG0861 930944012108 MutH is a 28kD endonuclease involved in methyl-directed DNA mismatch repair in gram negative bacteria. MutH is both sequence-specific and methylation-specific, introducing a nick in the unmethylated strand of a hemi-methylated d(GATC) DNA duplex. MutH...; Region: MutH_Sau3AI; cd00583 930944012109 putative DNA-binding cleft [nucleotide binding]; other site 930944012110 putative DNA clevage site; other site 930944012111 molecular lever; other site 930944012112 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 930944012113 putative active site [active] 930944012114 Ap4A binding site [chemical binding]; other site 930944012115 nudix motif; other site 930944012116 putative metal binding site [ion binding]; other site 930944012117 fused phosphoenolpyruvate-protein phosphotransferase PtsP/GAF domain; Provisional; Region: PRK11061 930944012118 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 930944012119 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 930944012120 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 930944012121 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 930944012122 prolipoprotein diacylglyceryl transferase; Reviewed; Region: PRK00052 930944012123 thymidylate synthase; Reviewed; Region: thyA; PRK01827 930944012124 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 930944012125 dimerization interface [polypeptide binding]; other site 930944012126 active site 930944012127 hypothetical protein; Provisional; Region: PRK10506 930944012128 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; cl06830 930944012129 hypothetical protein; Provisional; Region: PRK10557 930944012130 prepilin-type N-terminal cleavage/methylation domain; Region: IV_pilin_GFxxxE; TIGR02532 930944012131 Protein of unknown function (DUF2509); Region: DUF2509; pfam10713 930944012132 Prepilin peptidase dependent protein C term (DUF3728); Region: DUF3728; pfam12528 930944012133 Exonuclease V gamma subunit [DNA replication, recombination, and repair]; Region: RecC; COG1330 930944012134 exonuclease V subunit gamma; Provisional; Region: recC; PRK11069 930944012135 protease3; Provisional; Region: PRK15101 930944012136 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 930944012137 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 930944012138 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 930944012139 exonuclease V subunit beta; Provisional; Region: recB; PRK10876 930944012140 CRISPR/Cas system-associated protein Cas4; Region: Cas4_I-A_I-B_I-C_I-D_II-B; cl00641 930944012141 exonuclease V subunit alpha; Provisional; Region: recD; PRK10875 930944012142 AAA domain; Region: AAA_30; pfam13604 930944012143 Family description; Region: UvrD_C_2; pfam13538 930944012144 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 930944012145 Transposase; Region: DEDD_Tnp_IS110; pfam01548 930944012146 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 930944012147 N-acetylglutamate synthase; Validated; Region: PRK05279 930944012148 AAK_NAGS-ABP: N-acetylglutamate (NAG) kinase-like domain of the NAG Synthase (NAGS) of the arginine-biosynthesis pathway (ABP) found in gamma- and beta-proteobacteria and higher plant chloroplasts. Domain architecture of these NAGS consisted of an...; Region: AAK_NAGS-ABP; cd04237 930944012149 putative feedback inhibition sensing region; other site 930944012150 putative nucleotide binding site [chemical binding]; other site 930944012151 putative substrate binding site [chemical binding]; other site 930944012152 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 930944012153 Coenzyme A binding pocket [chemical binding]; other site 930944012154 AMIN domain; Region: AMIN; pfam11741 930944012155 N-acetylmuramoyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: AmiC; COG0860 930944012156 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 930944012157 active site 930944012158 metal binding site [ion binding]; metal-binding site 930944012159 murein transglycosylase A; Provisional; Region: mltA; PRK11162 930944012160 MltA specific insert domain; Region: MltA; pfam03562 930944012161 3D domain; Region: 3D; pfam06725 930944012162 sulfur acceptor protein CsdL; Provisional; Region: PRK15116 930944012163 Family of activating enzymes (E1) of ubiquitin-like proteins related to the E.coli hypothetical protein ygdL. The common reaction mechanism catalyzed by E1-like enzymes begins with a nucleophilic attack of the C-terminal carboxylate of the ubiquitin-like...; Region: YgdL_like; cd00755 930944012164 putative ATP binding site [chemical binding]; other site 930944012165 putative substrate interface [chemical binding]; other site 930944012166 cysteine desulfurase, sulfur acceptor subunit CsdE; Region: FeS_syn_CsdE; TIGR03391 930944012167 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 930944012168 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 930944012169 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 930944012170 catalytic residue [active] 930944012171 Bacterial protein of unknown function (DUF903); Region: DUF903; pfam06004 930944012172 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 930944012173 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 930944012174 The C-terminal substrate domain of LysR-type GcdR, TrPI, HvR and beta-lactamase regulators, and that of other closely related homologs; contains the type 2 periplasmic binding fold; Region: PBP2_GcdR_TrpI_HvrB_AmpR_like; cd08432 930944012175 dimerization interface [polypeptide binding]; other site 930944012176 substrate binding pocket [chemical binding]; other site 930944012177 hypothetical protein; Provisional; Region: PRK10873 930944012178 putative 23S rRNA C2498 ribose 2'-O-ribose methyltransferase; Provisional; Region: PRK11760 930944012179 FtsJ-like methyltransferase; Region: FtsJ; cl17430 930944012180 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 930944012181 Transposase; Region: DEDD_Tnp_IS110; pfam01548 930944012182 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 930944012183 Transposase, Mutator family; Region: Transposase_mut; pfam00872 930944012184 MULE transposase domain; Region: MULE; pfam10551 930944012185 flap endonuclease-like protein; Provisional; Region: PRK09482 930944012186 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 930944012187 active site 930944012188 metal binding site 1 [ion binding]; metal-binding site 930944012189 putative 5' ssDNA interaction site; other site 930944012190 metal binding site 3; metal-binding site 930944012191 metal binding site 2 [ion binding]; metal-binding site 930944012192 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 930944012193 putative DNA binding site [nucleotide binding]; other site 930944012194 putative metal binding site [ion binding]; other site 930944012195 Predicted Rossmann fold nucleotide-binding protein [General function prediction only]; Region: COG1611 930944012196 Domain of unknown function (DUF3412); Region: DUF3412; pfam11892 930944012197 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2904 930944012198 7-cyano-7-deazaguanine reductase; Provisional; Region: queF; PRK11792 930944012199 Enzyme related to GTP cyclohydrolase I [General function prediction only]; Region: COG0780 930944012200 SecY interacting protein Syd; Provisional; Region: PRK04968 930944012201 tRNA pseudouridine synthase C; Region: DUF446; pfam04287 930944012202 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 930944012203 tRNA pseudouridine isomerase C; Region: PseudoU_synth_TruC; cd02563 930944012204 probable active site [active] 930944012205 flavodoxin; Provisional; Region: PRK08105 930944012206 hypothetical protein; Provisional; Region: PRK13677 930944012207 2,3,4,5-tetrahydropyridine-2,6-carboxylate N-succinyltransferase; Provisional; Region: dapD; PRK11830 930944012208 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 930944012209 trimer interface [polypeptide binding]; other site 930944012210 active site 930944012211 substrate binding site [chemical binding]; other site 930944012212 CoA binding site [chemical binding]; other site 930944012213 PII uridylyl-transferase; Provisional; Region: PRK05007 930944012214 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 930944012215 metal binding triad; other site 930944012216 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 930944012217 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 930944012218 Zn2+ binding site [ion binding]; other site 930944012219 Mg2+ binding site [ion binding]; other site 930944012220 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 930944012221 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 930944012222 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 930944012223 active site 930944012224 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 930944012225 rRNA interaction site [nucleotide binding]; other site 930944012226 S8 interaction site; other site 930944012227 putative laminin-1 binding site; other site 930944012228 elongation factor Ts; Provisional; Region: tsf; PRK09377 930944012229 UBA/TS-N domain; Region: UBA; pfam00627 930944012230 Elongation factor TS; Region: EF_TS; pfam00889 930944012231 Elongation factor TS; Region: EF_TS; pfam00889 930944012232 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 930944012233 putative nucleotide binding site [chemical binding]; other site 930944012234 uridine monophosphate binding site [chemical binding]; other site 930944012235 homohexameric interface [polypeptide binding]; other site 930944012236 ribosome recycling factor; Reviewed; Region: frr; PRK00083 930944012237 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 930944012238 hinge region; other site 930944012239 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Provisional; Region: PRK05447 930944012240 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Region: DXP_reductoisom; pfam02670 930944012241 1-deoxy-D-xylulose 5-phosphate reductoisomerase C-terminal; Region: DXP_redisom_C; pfam08436 930944012242 DXP reductoisomerase C-terminal domain; Region: DXPR_C; pfam13288 930944012243 Undecaprenyl pyrophosphate synthase [Lipid metabolism]; Region: UppS; COG0020 930944012244 Cis (Z)-Isoprenyl Diphosphate Synthases (cis-IPPS); homodimers which catalyze the successive 1'-4 condensation of the isopentenyl diphosphate (IPP) molecule to trans,trans-farnesyl diphosphate (FPP) or to cis,trans-FPP to form long-chain polyprenyl...; Region: CIS_IPPS; cd00475 930944012245 catalytic residue [active] 930944012246 putative FPP diphosphate binding site; other site 930944012247 putative FPP binding hydrophobic cleft; other site 930944012248 dimer interface [polypeptide binding]; other site 930944012249 putative IPP diphosphate binding site; other site 930944012250 CDP-diglyceride synthase; Provisional; Region: cdsA; PRK11624 930944012251 CDP-diglyceride synthetase [Lipid metabolism]; Region: CdsA; COG0575 930944012252 zinc metallopeptidase RseP; Provisional; Region: PRK10779 930944012253 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 930944012254 active site 930944012255 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 930944012256 protein binding site [polypeptide binding]; other site 930944012257 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 930944012258 protein binding site [polypeptide binding]; other site 930944012259 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 930944012260 putative substrate binding region [chemical binding]; other site 930944012261 outer membrane protein assembly factor YaeT; Provisional; Region: PRK11067 930944012262 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 930944012263 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 930944012264 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 930944012265 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 930944012266 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 930944012267 Surface antigen; Region: Bac_surface_Ag; pfam01103 930944012268 periplasmic chaperone; Provisional; Region: PRK10780 930944012269 Outer membrane protein (OmpH-like); Region: OmpH; smart00935 930944012270 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase; Provisional; Region: lpxD; PRK00892 930944012271 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase, LpxD; Region: LpxD; pfam04613 930944012272 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 930944012273 trimer interface [polypeptide binding]; other site 930944012274 active site 930944012275 UDP-GlcNAc binding site [chemical binding]; other site 930944012276 lipid binding site [chemical binding]; lipid-binding site 930944012277 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 930944012278 UDP-N-acetylglucosamine acyltransferase; Provisional; Region: PRK05289 930944012279 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 930944012280 active site 930944012281 lipid-A-disaccharide synthase; Reviewed; Region: lpxB; PRK00025 930944012282 ipid-A-disaccharide synthase; Provisional; Region: PRK14089 930944012283 bacterial Ribonuclease HII-like; Region: RNase_HII_bacteria_HII_like; cd07182 930944012284 RNA/DNA hybrid binding site [nucleotide binding]; other site 930944012285 active site 930944012286 DNA polymerase III subunit alpha; Validated; Region: dnaE; PRK05673 930944012287 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III DnaE1; Region: PHP_PolIIIA_DnaE1; cd07433 930944012288 putative active site [active] 930944012289 putative PHP Thumb interface [polypeptide binding]; other site 930944012290 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 930944012291 generic binding surface I; other site 930944012292 generic binding surface II; other site 930944012293 acetyl-CoA carboxylase carboxyltransferase subunit alpha; Validated; Region: PRK05724 930944012294 acetyl-CoA carboxylase carboxyltransferase alpha subunit; Provisional; Region: accA; CHL00198 930944012295 lysine decarboxylase LdcC; Provisional; Region: PRK15399 930944012296 Orn/Lys/Arg decarboxylase, N-terminal domain; Region: OKR_DC_1_N; pfam03709 930944012297 Ornithine decarboxylase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD corresponds to ornithine decarboxylase (ODC), arginine decarboxylase (ADC) and lysine...; Region: Orn_deC_like; cd00615 930944012298 homodimer interface [polypeptide binding]; other site 930944012299 pyridoxal 5'-phosphate binding site [chemical binding]; other site 930944012300 catalytic residue [active] 930944012301 Orn/Lys/Arg decarboxylase, C-terminal domain; Region: OKR_DC_1_C; pfam03711 930944012302 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_1; cd08352 930944012303 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 930944012304 putative metal binding site [ion binding]; other site 930944012305 tRNA(Ile)-lysidine synthetase; Provisional; Region: tilS; PRK10660 930944012306 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 930944012307 Ligand Binding Site [chemical binding]; other site 930944012308 TilS substrate binding domain; Region: TilS; pfam09179 930944012309 TilS substrate C-terminal domain; Region: TilS_C; pfam11734 930944012310 Cytochrome c; Region: Cytochrom_C; cl11414 930944012311 Rho-binding antiterminator; Provisional; Region: PRK11625 930944012312 hypothetical protein; Provisional; Region: PRK04964 930944012313 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4681 930944012314 hypothetical protein; Provisional; Region: PRK09256 930944012315 Protein chain release factor B [Translation, ribosomal structure and biogenesis]; Region: PrfB; COG1186 930944012316 lipoprotein involved with copper homeostasis and adhesion; Provisional; Region: PRK10523 930944012317 NlpE N-terminal domain; Region: NlpE; pfam04170 930944012318 prolyl-tRNA synthetase; Provisional; Region: PRK09194 930944012319 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 930944012320 dimer interface [polypeptide binding]; other site 930944012321 motif 1; other site 930944012322 active site 930944012323 motif 2; other site 930944012324 INS is an amino acid-editing domain inserted (INS) into the bacterial class II prolyl-tRNA synthetase (ProRS) however, this CD is not exclusively bacterial. It is also found at the N-terminus of the eukaryotic/archaea-like ProRS's of yeasts and...; Region: ProRS-INS; cd04334 930944012325 putative deacylase active site [active] 930944012326 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 930944012327 active site 930944012328 motif 3; other site 930944012329 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 930944012330 anticodon binding site; other site 930944012331 Escherichia coli YaeB and related proteins; Region: UPF0066; cd09281 930944012332 homodimer interaction site [polypeptide binding]; other site 930944012333 cofactor binding site; other site 930944012334 outer membrane lipoprotein; Reviewed; Region: rcsF; PRK10781 930944012335 DL-methionine transporter substrate-binding subunit; Provisional; Region: metQ; PRK11063 930944012336 lipoprotein, YaeC family; Region: TIGR00363 930944012337 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 930944012338 dimer interface [polypeptide binding]; other site 930944012339 conserved gate region; other site 930944012340 ABC-ATPase subunit interface; other site 930944012341 DL-methionine transporter ATP-binding subunit; Provisional; Region: metN; PRK11153 930944012342 ATP-binding cassette domain of methionine transporter; Region: ABC_MetN_methionine_transporter; cd03258 930944012343 Walker A/P-loop; other site 930944012344 ATP binding site [chemical binding]; other site 930944012345 Q-loop/lid; other site 930944012346 ABC transporter signature motif; other site 930944012347 Walker B; other site 930944012348 D-loop; other site 930944012349 H-loop/switch region; other site 930944012350 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 930944012351 D,D-heptose 1,7-bisphosphate phosphatase; Validated; Region: PRK08942 930944012352 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 930944012353 active site 930944012354 motif I; other site 930944012355 motif II; other site 930944012356 Transposase, Mutator family; Region: Transposase_mut; pfam00872 930944012357 MULE transposase domain; Region: MULE; pfam10551 930944012358 3-oxoacyl-(acyl carrier protein) synthase II; Reviewed; Region: PRK09116 930944012359 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 930944012360 dimer interface [polypeptide binding]; other site 930944012361 active site 930944012362 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 930944012363 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 930944012364 active site 930944012365 catalytic tetrad [active] 930944012366 Transcriptional regulator [Transcription]; Region: LysR; COG0583 930944012367 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 930944012368 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 930944012369 dimerization interface [polypeptide binding]; other site 930944012370 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 930944012371 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 930944012372 putative substrate translocation pore; other site 930944012373 hypothetical protein; Provisional; Region: PRK05421 930944012374 putative catalytic site [active] 930944012375 putative phosphate binding site [ion binding]; other site 930944012376 putative metal binding site [ion binding]; other site 930944012377 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 930944012378 Transposase; Region: DEDD_Tnp_IS110; pfam01548 930944012379 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 930944012380 Transposase; Region: DEDD_Tnp_IS110; pfam01548 930944012381 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 930944012382 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 930944012383 N-acetyl-D-glucosamine binding site [chemical binding]; other site 930944012384 catalytic residue [active] 930944012385 FOG: LysM repeat [Cell envelope biogenesis, outer membrane]; Region: LytE; COG1388 930944012386 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 930944012387 FOG: LysM repeat [Cell envelope biogenesis, outer membrane]; Region: LytE; COG1388 930944012388 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 930944012389 hydroxyacylglutathione hydrolase; Region: GSH_gloB; TIGR03413 930944012390 Methyltransferase domain; Region: Methyltransf_11; pfam08241 930944012391 RNase HI family found mainly in prokaryotes; Region: RNase_HI_prokaryote_like; cd09278 930944012392 RNA/DNA hybrid binding site [nucleotide binding]; other site 930944012393 active site 930944012394 DNA polymerase III, epsilon subunit, Proteobacterial; Region: dnaQ_proteo; TIGR01406 930944012395 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 930944012396 active site 930944012397 catalytic site [active] 930944012398 substrate binding site [chemical binding]; other site 930944012399 glycine betaine transporter periplasmic subunit; Provisional; Region: proX; PRK11119 930944012400 Substrate binding domain of ABC-type glycine betaine transport system; Region: OpuAC; pfam04069 930944012401 glycine betaine transporter membrane protein; Provisional; Region: PRK10952 930944012402 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 930944012403 dimer interface [polypeptide binding]; other site 930944012404 conserved gate region; other site 930944012405 putative PBP binding loops; other site 930944012406 ABC-ATPase subunit interface; other site 930944012407 glycine betaine transporter ATP-binding subunit; Provisional; Region: PRK10070 930944012408 ATP-binding cassette domain of the osmoprotectant proline/glycine betaine uptake system; Region: ABC_Pro_Gly_Betaine; cd03294 930944012409 Walker A/P-loop; other site 930944012410 ATP binding site [chemical binding]; other site 930944012411 Q-loop/lid; other site 930944012412 ABC transporter signature motif; other site 930944012413 Walker B; other site 930944012414 D-loop; other site 930944012415 H-loop/switch region; other site 930944012416 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains in association with the ABC transporter OpuCA. OpuCA is the ATP binding component of a bacterial solute transporter that serves a protective role to cells growing...; Region: CBS_pair_ABC_OpuCA_assoc2; cd04583 930944012417 ribonucleotide-diphosphate reductase subunit beta; Provisional; Region: nrdF2; PRK13966 930944012418 Ribonucleotide Reductase, R2/beta subunit, ferritin-like diiron-binding domain; Region: RNRR2; cd01049 930944012419 dimer interface [polypeptide binding]; other site 930944012420 putative radical transfer pathway; other site 930944012421 diiron center [ion binding]; other site 930944012422 tyrosyl radical; other site 930944012423 ribonucleotide-diphosphate reductase subunit alpha; Validated; Region: PRK08188 930944012424 Ribonucleotide reductase N-terminal; Region: RNR_N; pfam08343 930944012425 Class I ribonucleotide reductase; Region: RNR_I; cd01679 930944012426 active site 930944012427 dimer interface [polypeptide binding]; other site 930944012428 catalytic residues [active] 930944012429 effector binding site; other site 930944012430 Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL; cl09939 930944012431 ribonucleotide reductase stimulatory protein; Reviewed; Region: nrdI; PRK03600 930944012432 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 930944012433 catalytic residues [active] 930944012434 Carboxymuconolactone decarboxylase family; Region: CMD; pfam02627 930944012435 Uncharacterized conserved protein [Function unknown]; Region: COG2128 930944012436 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 930944012437 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 930944012438 DNA-binding site [nucleotide binding]; DNA binding site 930944012439 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 930944012440 pyridoxal 5'-phosphate binding site [chemical binding]; other site 930944012441 homodimer interface [polypeptide binding]; other site 930944012442 catalytic residue [active] 930944012443 Bacterial protein of unknown function (DUF883); Region: DUF883; pfam05957 930944012444 Predicted dienelactone hydrolase [General function prediction only]; Region: COG4188 930944012445 Helix-turn-helix domain; Region: HTH_18; pfam12833 930944012446 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 930944012447 major facilitator superfamily transporter; Provisional; Region: PRK05122 930944012448 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 930944012449 putative substrate translocation pore; other site 930944012450 hypothetical protein; Provisional; Region: PRK10556 930944012451 Protein of unknown function (DUF1198); Region: DUF1198; pfam06711 930944012452 MbeD/MobD like; Region: MbeD_MobD; pfam04899 930944012453 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 930944012454 DNA-binding site [nucleotide binding]; DNA binding site 930944012455 RNA-binding motif; other site 930944012456 potential frameshift: common BLAST hit: gi|123441291|ref|YP_001005278.1| transcriptional activator FtrA 930944012457 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 930944012458 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 930944012459 Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GAT_1; cl00020 930944012460 Member of the Rhodanese Homology Domain superfamily. This CD includes the putative rhodanese-like protein, Psp2, of Yersinia pestis biovar Medievalis and other similar uncharacterized proteins; Region: RHOD_PspE2; cd01521 930944012461 active site residue [active] 930944012462 The substrate-binding component of an uncharacterized ABC-type nickel/dipeptide/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like_19; cd08518 930944012463 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 930944012464 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 930944012465 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 930944012466 dimer interface [polypeptide binding]; other site 930944012467 conserved gate region; other site 930944012468 putative PBP binding loops; other site 930944012469 ABC-ATPase subunit interface; other site 930944012470 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 930944012471 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 930944012472 nickel import ATP-binding protein NikD; Region: nickel_nikD; TIGR02770 930944012473 Walker A/P-loop; other site 930944012474 ATP binding site [chemical binding]; other site 930944012475 Q-loop/lid; other site 930944012476 ABC transporter signature motif; other site 930944012477 Walker B; other site 930944012478 D-loop; other site 930944012479 H-loop/switch region; other site 930944012480 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppF; COG1124 930944012481 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 930944012482 Walker A/P-loop; other site 930944012483 ATP binding site [chemical binding]; other site 930944012484 Q-loop/lid; other site 930944012485 ABC transporter signature motif; other site 930944012486 Walker B; other site 930944012487 D-loop; other site 930944012488 H-loop/switch region; other site 930944012489 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 930944012490 alpha-gamma subunit interface [polypeptide binding]; other site 930944012491 beta-gamma subunit interface [polypeptide binding]; other site 930944012492 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 930944012493 alpha-beta subunit interface [polypeptide binding]; other site 930944012494 urease subunit alpha; Reviewed; Region: ureC; PRK13309 930944012495 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 930944012496 subunit interactions [polypeptide binding]; other site 930944012497 active site 930944012498 flap region; other site 930944012499 urease accessory protein UreE; Provisional; Region: ureE; PRK14711 930944012500 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 930944012501 dimer interface [polypeptide binding]; other site 930944012502 catalytic residues [active] 930944012503 Urease accessory protein UreF [Posttranslational modification, protein turnover, chaperones]; Region: UreF; COG0830 930944012504 UreF; Region: UreF; pfam01730 930944012505 Ni2+-binding GTPase involved in regulation of expression and maturation of urease and hydrogenase [Posttranslational modification, protein turnover, chaperones / Transcription]; Region: HypB; COG0378 930944012506 UreD urease accessory protein; Region: UreD; pfam01774 930944012507 Urea transporter [Amino acid transport and metabolism]; Region: Utp; COG4413 930944012508 High-affinity nickel permease [Inorganic ion transport and metabolism]; Region: HoxN; COG3376 930944012509 acid-resistance protein; Provisional; Region: hdeB; PRK11566 930944012510 voltage-gated potassium channel; Provisional; Region: PRK10537 930944012511 Ion channel; Region: Ion_trans_2; pfam07885 930944012512 TrkA-N domain; Region: TrkA_N; pfam02254 930944012513 camphor resistance protein CrcB; Provisional; Region: ccrB; PRK01636 930944012514 Integral membrane protein possibly involved in chromosome condensation [Cell division and chromosome partitioning]; Region: CrcB; COG0239 930944012515 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 930944012516 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 930944012517 active site 930944012518 catalytic tetrad [active] 930944012519 potential frameshift: common BLAST hit: gi|332163183|ref|YP_004299760.1| putative transposase for IS1667 930944012520 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 930944012521 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 930944012522 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 930944012523 Transposase; Region: DEDD_Tnp_IS110; pfam01548 930944012524 dehydrogenase, PQQ-dependent, s-GDH family; Region: non_repeat_PQQ; TIGR03606 930944012525 Glucose / Sorbosone dehydrogenase; Region: GSDH; pfam07995 930944012526 PTS_IIB_chitobiose_lichenan: subunit IIB of enzyme II (EII) of the N,N-diacetylchitobiose-specific and lichenan-specific phosphoenolpyruvate:carbohydrate phosphotransferase system (PTS). In these systems, EII is either a lichenan- or an N; Region: PTS_IIB_chitobiose_lichenan; cd05564 930944012527 active site 930944012528 PTS system N,N'-diacetylchitobiose-specific transporter subunit IIC; Provisional; Region: PRK10297 930944012529 Phosphotransferase system, EIIC; Region: PTS_EIIC; pfam02378 930944012530 Beta-glucosidase/6-phospho-beta-glucosidase/beta- galactosidase [Carbohydrate transport and metabolism]; Region: BglB; COG2723 930944012531 beta-galactosidase; Region: BGL; TIGR03356 930944012532 PTS_IIA, PTS system, lactose/cellobiose 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_lac; cd00215 930944012533 methionine cluster; other site 930944012534 active site 930944012535 phosphorylation site [posttranslational modification] 930944012536 metal binding site [ion binding]; metal-binding site 930944012537 DNA-binding transcriptional regulator ChbR; Provisional; Region: PRK10296 930944012538 Cupin domain; Region: Cupin_2; pfam07883 930944012539 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 930944012540 Enterococcus faecalis EF3048 and similar proteins; Region: YdjC_EF3048_like; cd10803 930944012541 putative active site [active] 930944012542 YdjC motif; other site 930944012543 Mg binding site [ion binding]; other site 930944012544 putative homodimer interface [polypeptide binding]; other site 930944012545 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 930944012546 Sulfate transporter N-terminal domain with GLY motif; Region: Sulfate_tra_GLY; pfam13792 930944012547 Sulfate transporter family; Region: Sulfate_transp; pfam00916 930944012548 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 930944012549 Transposase, Mutator family; Region: Transposase_mut; pfam00872 930944012550 MULE transposase domain; Region: MULE; pfam10551 930944012551 integrase; Provisional; Region: PRK09692 930944012552 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 930944012553 active site 930944012554 Int/Topo IB signature motif; other site 930944012555 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 930944012556 SmpB-tmRNA interface; other site 930944012557 Coenzyme Q-binding protein COQ10p and similar proteins; Region: COQ10p_like; cd07813 930944012558 putative coenzyme Q binding site [chemical binding]; other site 930944012559 hypothetical protein; Validated; Region: PRK01777 930944012560 outer membrane biogenesis protein BamE; Provisional; Region: PRK11548 930944012561 SmpA / OmlA family; Region: SmpA_OmlA; pfam04355 930944012562 recombination and repair protein; Provisional; Region: PRK10869 930944012563 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 930944012564 Walker A/P-loop; other site 930944012565 ATP binding site [chemical binding]; other site 930944012566 Q-loop/lid; other site 930944012567 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 930944012568 Q-loop/lid; other site 930944012569 ABC transporter signature motif; other site 930944012570 Walker B; other site 930944012571 D-loop; other site 930944012572 H-loop/switch region; other site 930944012573 inorganic polyphosphate/ATP-NAD kinase; Provisional; Region: ppnK; PRK03378 930944012574 inorganic polyphosphate/ATP-NAD kinase; Provisional; Region: ppnK; PRK02231 930944012575 Molecular chaperone GrpE (heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: GrpE; COG0576 930944012576 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 930944012577 dimer interface [polypeptide binding]; other site 930944012578 hsp70 (ATPase domain) interactions [polypeptide binding]; other site 930944012579 Family 1 of Uracil-DNA glycosylase (UDG) enzymes; Region: UDG_F1; cd10027 930944012580 ligand binding site [chemical binding]; other site 930944012581 active site 930944012582 UGI interface [polypeptide binding]; other site 930944012583 catalytic site [active] 930944012584 autonomous glycyl radical cofactor GrcA; Provisional; Region: PRK11127 930944012585 potential frameshift: common BLAST hit: gi|123441351|ref|YP_001005338.1| phospholipase A 930944012586 Lipase. Lipases are esterases that can hydrolyze long-chain acyl-triglycerides into di- and monoglycerides, glycerol, and free fatty acids at a water/lipid interface. A typical feature of lipases is "interfacial activation", the process of...; Region: Lipase; cl14883 930944012587 nucleophilic elbow; other site 930944012588 catalytic triad; other site 930944012589 FOG: Ankyrin repeat [General function prediction only]; Region: Arp; COG0666 930944012590 ankyrin repeats; ankyrin repeats mediate protein-protein interactions in very diverse families of proteins. The number of ANK repeats in a protein can range from 2 to over 20 (ankyrins, for example). ANK repeats may occur in combinations with other...; Region: ANK; cd00204 930944012591 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 930944012592 Transposase; Region: DEDD_Tnp_IS110; pfam01548 930944012593 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 930944012594 Transposase; Region: DEDD_Tnp_IS110; pfam01548 930944012595 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 930944012596 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 930944012597 ATP-dependent RNA helicase SrmB; Provisional; Region: PRK11192 930944012598 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 930944012599 ATP binding site [chemical binding]; other site 930944012600 Mg++ binding site [ion binding]; other site 930944012601 motif III; other site 930944012602 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 930944012603 nucleotide binding region [chemical binding]; other site 930944012604 ATP-binding site [chemical binding]; other site 930944012605 Predicted O-methyltransferase [General function prediction only]; Region: COG4123 930944012606 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 930944012607 S-adenosylmethionine binding site [chemical binding]; other site 930944012608 L-aspartate oxidase; Provisional; Region: PRK09077 930944012609 L-aspartate oxidase; Provisional; Region: PRK06175 930944012610 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 930944012611 RNA polymerase sigma factor RpoE; Region: RpoE_Sigma70; TIGR02939 930944012612 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 930944012613 DNA binding residues [nucleotide binding] 930944012614 anti-RNA polymerase sigma factor SigE; Provisional; Region: PRK10863 930944012615 Anti sigma-E protein RseA, N-terminal domain; Region: RseA_N; pfam03872 930944012616 Anti sigma-E protein RseA, C-terminal domain; Region: RseA_C; pfam03873 930944012617 Negative regulator of sigma E activity [Signal transduction mechanisms]; Region: RseB; COG3026 930944012618 anti-sigma E factor; Provisional; Region: rseB; PRK09455 930944012619 Positive regulator of sigma(E), RseC/MucC; Region: RseC_MucC; cl01178 930944012620 GTP-binding protein LepA; Provisional; Region: PRK05433 930944012621 LepA also known as Elongation Factor 4 (EF4); Region: LepA; cd01890 930944012622 G1 box; other site 930944012623 putative GEF interaction site [polypeptide binding]; other site 930944012624 GTP/Mg2+ binding site [chemical binding]; other site 930944012625 Switch I region; other site 930944012626 G2 box; other site 930944012627 G3 box; other site 930944012628 Switch II region; other site 930944012629 G4 box; other site 930944012630 G5 box; other site 930944012631 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 930944012632 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 930944012633 GTP-binding protein LepA C-terminus; Region: LepA_C; pfam06421 930944012634 signal peptidase I; Provisional; Region: PRK10861 930944012635 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 930944012636 Catalytic site [active] 930944012637 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 930944012638 ribonuclease III; Reviewed; Region: rnc; PRK00102 930944012639 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 930944012640 dimerization interface [polypeptide binding]; other site 930944012641 active site 930944012642 metal binding site [ion binding]; metal-binding site 930944012643 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 930944012644 dsRNA binding site [nucleotide binding]; other site 930944012645 GTPase Era; Reviewed; Region: era; PRK00089 930944012646 E. coli Ras-like protein (Era) is a multifunctional GTPase; Region: Era; cd04163 930944012647 G1 box; other site 930944012648 GTP/Mg2+ binding site [chemical binding]; other site 930944012649 Switch I region; other site 930944012650 G2 box; other site 930944012651 Switch II region; other site 930944012652 G3 box; other site 930944012653 G4 box; other site 930944012654 G5 box; other site 930944012655 KH domain; Region: KH_2; pfam07650 930944012656 DNA repair protein RecO; Reviewed; Region: recO; PRK00085 930944012657 Recombination protein O N terminal; Region: RecO_N; pfam11967 930944012658 Recombination protein O C terminal; Region: RecO_C; pfam02565 930944012659 Pyridoxine 5'-phosphate (PNP) synthase domain; pyridoxal 5'-phosphate is the active form of vitamin B6 that acts as an essential, ubiquitous coenzyme in amino acid metabolism. In bacteria, formation of pyridoxine 5'-phosphate is a step in...; Region: PNPsynthase; cd00003 930944012660 active site 930944012661 hydrophilic channel; other site 930944012662 dimerization interface [polypeptide binding]; other site 930944012663 catalytic residues [active] 930944012664 active site lid [active] 930944012665 4'-phosphopantetheinyl transferase; Provisional; Region: acpS; PRK00070 930944012666 fructuronate transporter; Provisional; Region: PRK10034 930944012667 gluconate transporter; Region: gntP; TIGR00791 930944012668 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 930944012669 putative DNA-binding transcriptional regulator; Provisional; Region: PRK11557 930944012670 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 930944012671 putative active site [active] 930944012672 N-acetylmuramic acid-6-phosphate etherase; Reviewed; Region: murQ; PRK05441 930944012673 N-acetylmuramic acid 6-phosphate etherase. Members of this family contain the SIS (Sugar ISomerase) domain. The SIS domain is found in many phosphosugar isomerases and phosphosugar binding proteins. The bacterial cell wall sugar N-acetylmuramic acid...; Region: SIS_Etherase; cd05007 930944012674 putative active site [active] 930944012675 hypothetical protein; Provisional; Region: PRK11590 930944012676 Phosphoserine phosphatase [Amino acid transport and metabolism]; Region: SerB; COG0560 930944012677 voltage-gated potassium channel; Provisional; Region: PRK10537 930944012678 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 930944012679 nucleoside/Zn binding site; other site 930944012680 dimer interface [polypeptide binding]; other site 930944012681 catalytic motif [active] 930944012682 membrane-bound lytic transglycosylase F; Provisional; Region: PRK10859 930944012683 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 930944012684 substrate binding pocket [chemical binding]; other site 930944012685 membrane-bound complex binding site; other site 930944012686 hinge residues; other site 930944012687 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 930944012688 N-acetyl-D-glucosamine binding site [chemical binding]; other site 930944012689 catalytic residue [active] 930944012690 phosphoribosylformylglycinamidine synthase; Provisional; Region: PRK05297 930944012691 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 930944012692 dimerization interface [polypeptide binding]; other site 930944012693 ATP binding site [chemical binding]; other site 930944012694 AIR (aminoimidazole ribonucleotide) synthase related protein. This family includes Hydrogen expression/formation protein HypE, AIR synthases, FGAM (formylglycinamidine ribonucleotide) synthase and Selenophosphate synthetase (SelD). The N-terminal domain...; Region: PurM-like; cl10019 930944012695 dimerization interface [polypeptide binding]; other site 930944012696 ATP binding site [chemical binding]; other site 930944012697 Type 1 glutamine amidotransferase (GATase1)-like domain found in Formylglycinamide ribonucleotide amidotransferase; Region: GATase1_FGAR_AT; cd01740 930944012698 putative active site [active] 930944012699 catalytic triad [active] 930944012700 N-acetylglucosamine-binding protein A; Reviewed; Region: PRK13211 930944012701 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 930944012702 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 930944012703 dimer interface [polypeptide binding]; other site 930944012704 phosphorylation site [posttranslational modification] 930944012705 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 930944012706 ATP binding site [chemical binding]; other site 930944012707 Mg2+ binding site [ion binding]; other site 930944012708 G-X-G motif; other site 930944012709 hypothetical protein; Provisional; Region: PRK10722 930944012710 response regulator GlrR; Provisional; Region: PRK15115 930944012711 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 930944012712 active site 930944012713 phosphorylation site [posttranslational modification] 930944012714 intermolecular recognition site; other site 930944012715 dimerization interface [polypeptide binding]; other site 930944012716 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 930944012717 Walker A motif; other site 930944012718 ATP binding site [chemical binding]; other site 930944012719 Walker B motif; other site 930944012720 arginine finger; other site 930944012721 NAD synthetase; Provisional; Region: PRK13981 930944012722 Glutamine aminotransferase (GAT, glutaminase) domain of glutamine-dependent NAD synthetases (class 7 and 8 nitrilases); Region: GAT_Gln-NAD-synth; cd07570 930944012723 multimer interface [polypeptide binding]; other site 930944012724 active site 930944012725 catalytic triad [active] 930944012726 protein interface 1 [polypeptide binding]; other site 930944012727 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 930944012728 homodimer interface [polypeptide binding]; other site 930944012729 NAD binding pocket [chemical binding]; other site 930944012730 ATP binding pocket [chemical binding]; other site 930944012731 Mg binding site [ion binding]; other site 930944012732 active-site loop [active] 930944012733 nitrogen regulatory protein P-II 1; Provisional; Region: PRK10858 930944012734 Nitrogen regulatory protein P-II; Region: P-II; smart00938 930944012735 Protein of unknown function; Region: YhfT; pfam10797 930944012736 Protein of unknown function DUF2620; Region: DUF2620; pfam10941 930944012737 Phosphotriesterase (PTE) catalyzes the hydrolysis of organophosphate nerve agents, including the chemical warfare agents VX, soman, and sarin as well as the insecticide paraoxon. PTE exists as a homodimer with one active site per monomer. The active site...; Region: PTE; cd00530 930944012738 active site 930944012739 substrate binding pocket [chemical binding]; other site 930944012740 homodimer interaction site [polypeptide binding]; other site 930944012741 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme yhfX; Region: PLPDE_III_yhfX_like; cd06811 930944012742 dimer interface [polypeptide binding]; other site 930944012743 Predicted amino acid racemase [Amino acid transport and metabolism]; Region: COG3457 930944012744 active site 930944012745 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 930944012746 substrate binding site [chemical binding]; other site 930944012747 catalytic residue [active] 930944012748 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 930944012749 DNA-binding site [nucleotide binding]; DNA binding site 930944012750 bifunctional nitric oxide dioxygenase/dihydropteridine reductase 2; Provisional; Region: PRK13289 930944012751 Globins are heme proteins, which bind and transport oxygen. This family summarizes a diverse set of homologous protein domains, including: (1) tetrameric vertebrate hemoglobins, which are the major protein component of erythrocytes and transport oxygen...; Region: globin; cd01040 930944012752 heme-binding site [chemical binding]; other site 930944012753 FAD_NAD(P)H binding domain of flavohemoglobin. Flavohemoglobins have a globin domain containing a B-type heme fused with a ferredoxin reductase-like FAD/NAD-binding domain. Flavohemoglobins detoxify nitric oxide (NO) via an NO dioxygenase reaction. The...; Region: flavohem_like_fad_nad_binding; cd06184 930944012754 FAD binding pocket [chemical binding]; other site 930944012755 FAD binding motif [chemical binding]; other site 930944012756 phosphate binding motif [ion binding]; other site 930944012757 beta-alpha-beta structure motif; other site 930944012758 NAD binding pocket [chemical binding]; other site 930944012759 Heme binding pocket [chemical binding]; other site 930944012760 serine hydroxymethyltransferase; Reviewed; Region: glyA; PRK00011 930944012761 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 930944012762 dimer interface [polypeptide binding]; other site 930944012763 active site 930944012764 glycine-pyridoxal phosphate binding site [chemical binding]; other site 930944012765 folate binding site [chemical binding]; other site 930944012766 putative 3-phenylpropionic acid transporter; Provisional; Region: PRK11128 930944012767 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 930944012768 putative substrate translocation pore; other site 930944012769 stationary phase inducible protein CsiE; Provisional; Region: PRK11564 930944012770 PRD domain; Region: PRD; pfam00874 930944012771 ABC-type uncharacterized transport system, periplasmic component [General function prediction only]; Region: COG3683 930944012772 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG2215 930944012773 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 930944012774 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 930944012775 active site 930944012776 dimerization interface [polypeptide binding]; other site 930944012777 tRNA (cytidine/uridine-2'-O-)-methyltransferase TrmJ; Provisional; Region: PRK15114 930944012778 SpoU rRNA Methylase family; Region: SpoU_methylase; cl17307 930944012779 DNA-binding transcriptional regulator IscR; Provisional; Region: PRK10857 930944012780 Rrf2 family protein; Region: rrf2_super; TIGR00738 930944012781 cysteine desulfurase; Provisional; Region: PRK14012 930944012782 cysteine desulfurase NifS; Region: FeS_nifS; TIGR03402 930944012783 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 930944012784 catalytic residue [active] 930944012785 NifU homolog involved in Fe-S cluster formation [Energy production and conversion]; Region: IscU; COG0822 930944012786 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cd06664 930944012787 trimerization site [polypeptide binding]; other site 930944012788 active site 930944012789 iron-sulfur cluster assembly protein; Provisional; Region: iscA; PRK09502 930944012790 co-chaperone HscB; Provisional; Region: hscB; PRK05014 930944012791 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 930944012792 HSP70 interaction site [polypeptide binding]; other site 930944012793 HSCB C-terminal oligomerisation domain; Region: HSCB_C; pfam07743 930944012794 chaperone protein HscA; Provisional; Region: hscA; PRK05183 930944012795 Nucleotide-binding domain of HscA and similar proteins; Region: HscA_like_NBD; cd10236 930944012796 nucleotide binding site [chemical binding]; other site 930944012797 putative NEF/HSP70 interaction site [polypeptide binding]; other site 930944012798 SBD interface [polypeptide binding]; other site 930944012799 Ferredoxin [Energy production and conversion]; Region: Fdx; COG0633 930944012800 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 930944012801 catalytic loop [active] 930944012802 iron binding site [ion binding]; other site 930944012803 hypothetical protein; Provisional; Region: PRK10721 930944012804 aminopeptidase B; Provisional; Region: PRK05015 930944012805 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 930944012806 interface (dimer of trimers) [polypeptide binding]; other site 930944012807 Substrate-binding/catalytic site; other site 930944012808 Zn-binding sites [ion binding]; other site 930944012809 SseB protein; Region: SseB; pfam07179 930944012810 Pertactin-like passenger domains (virulence factors) of autotransporter proteins of the type V secretion system. Autotransporters are proteins used by Gram-negative bacteria to transport proteins across their outer membranes. The C-terminal (beta) domain...; Region: PL_Passenger_AT; cl00185 930944012811 outer membrane autotransporter barrel domain; Region: autotrans_barl; TIGR01414 930944012812 Autotransporter beta-domain; Region: Autotransporter; pfam03797 930944012813 Large extracellular alpha-helical protein [General function prediction only]; Region: COG2373 930944012814 MG2 domain; Region: A2M_N; pfam01835 930944012815 Alpha-2-macroglobulin family; Region: A2M; pfam00207 930944012816 Proteins similar to alpha2-macroglobulin (alpha (2)-M). Alpha (2)-M is a major carrier protein in serum. It is a broadly specific proteinase inhibitor. The structural thioester of alpha (2)-M, is involved in the immobilization and entrapment of...; Region: A2M_like; cd02891 930944012817 surface patch; other site 930944012818 thioester region; other site 930944012819 specificity defining residues; other site 930944012820 penicillin-binding protein 1C; Provisional; Region: PRK11240 930944012821 Transglycosylase; Region: Transgly; pfam00912 930944012822 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 930944012823 Penicillin-Binding Protein C-terminus Family; Region: BiPBP_C; pfam06832 930944012824 Beta/Gamma crystallin; Region: Crystall; cl02528 930944012825 Exotoxin A binding; Region: Exotox-A_bind; pfam09101 930944012826 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 930944012827 active site 930944012828 multimer interface [polypeptide binding]; other site 930944012829 ribosomal RNA large subunit methyltransferase N; Provisional; Region: PRK11194 930944012830 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 930944012831 FeS/SAM binding site; other site 930944012832 Tfp pilus assembly protein PilF [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilF; COG3063 930944012833 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 930944012834 binding surface 930944012835 TPR motif; other site 930944012836 cytoskeletal protein RodZ; Provisional; Region: PRK10856 930944012837 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 930944012838 non-specific DNA binding site [nucleotide binding]; other site 930944012839 salt bridge; other site 930944012840 sequence-specific DNA binding site [nucleotide binding]; other site 930944012841 Domain of unknown function (DUF4115); Region: DUF4115; pfam13464 930944012842 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Reviewed; Region: ispG; PRK00366 930944012843 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 930944012844 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 930944012845 histidyl-tRNA synthetase; Reviewed; Region: hisS; PRK00037 930944012846 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 930944012847 dimer interface [polypeptide binding]; other site 930944012848 motif 1; other site 930944012849 active site 930944012850 motif 2; other site 930944012851 motif 3; other site 930944012852 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 930944012853 anticodon binding site; other site 930944012854 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2976 930944012855 outer membrane biogenesis protein BamB; Provisional; Region: PRK11138 930944012856 Beta-barrel assembly machinery (Bam) complex component B and related proteins; Region: BamB_YfgL; cd10276 930944012857 Trp docking motif [polypeptide binding]; other site 930944012858 GTP-binding protein Der; Reviewed; Region: PRK00093 930944012859 EngA1 GTPase contains the first domain of EngA; Region: EngA1; cd01894 930944012860 G1 box; other site 930944012861 GTP/Mg2+ binding site [chemical binding]; other site 930944012862 Switch I region; other site 930944012863 G2 box; other site 930944012864 Switch II region; other site 930944012865 G3 box; other site 930944012866 G4 box; other site 930944012867 G5 box; other site 930944012868 EngA2 GTPase contains the second domain of EngA; Region: EngA2; cd01895 930944012869 G1 box; other site 930944012870 GTP/Mg2+ binding site [chemical binding]; other site 930944012871 Switch I region; other site 930944012872 G2 box; other site 930944012873 G3 box; other site 930944012874 Switch II region; other site 930944012875 G4 box; other site 930944012876 G5 box; other site 930944012877 potential frameshift: common BLAST hit: gi|384415504|ref|YP_005624866.1| putative AEC family malate permease 930944012878 Predicted permeases [General function prediction only]; Region: COG0679 930944012879 Membrane transport protein; Region: Mem_trans; cl09117 930944012880 Protein of unknown function (DUF1407); Region: DUF1407; pfam07191 930944012881 exodeoxyribonuclease VII large subunit; Reviewed; Region: xseA; PRK00286 930944012882 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 930944012883 generic binding surface II; other site 930944012884 generic binding surface I; other site 930944012885 inosine 5'-monophosphate dehydrogenase; Reviewed; Region: PRK05567 930944012886 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 930944012887 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 930944012888 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 930944012889 active site 930944012890 GMP synthase; Reviewed; Region: guaA; PRK00074 930944012891 Type 1 glutamine amidotransferase (GATase1) domain found in GMP synthetase; Region: GATase1_GMP_Synthase; cd01742 930944012892 AMP/PPi binding site [chemical binding]; other site 930944012893 candidate oxyanion hole; other site 930944012894 catalytic triad [active] 930944012895 potential glutamine specificity residues [chemical binding]; other site 930944012896 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 930944012897 ATP Binding subdomain [chemical binding]; other site 930944012898 Ligand Binding sites [chemical binding]; other site 930944012899 Dimerization subdomain; other site 930944012900 Membrane bound FAD containing D-sorbitol dehydrogenase; Region: FAD-SLDH; pfam12318 930944012901 Choline dehydrogenase and related flavoproteins [Amino acid transport and metabolism]; Region: BetA; COG2303 930944012902 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 930944012903 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 930944012904 Cytochrome c; Region: Cytochrom_C; pfam00034 930944012905 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 930944012906 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 930944012907 Cytochrome c; Region: Cytochrom_C; pfam00034 930944012908 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 930944012909 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 930944012910 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl17173 930944012911 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 930944012912 Transposase; Region: DEDD_Tnp_IS110; pfam01548 930944012913 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 930944012914 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 930944012915 dimer interface [polypeptide binding]; other site 930944012916 substrate binding site [chemical binding]; other site 930944012917 ATP binding site [chemical binding]; other site 930944012918 Inhibitor of vertebrate lysozyme (Ivy); Region: Ivy; pfam08816 930944012919 D-arabinose 5-phosphate isomerase; Provisional; Region: gutQ; PRK11543 930944012920 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 930944012921 putative active site [active] 930944012922 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 930944012923 DNA-bindng transcriptional repressor SrlR; Provisional; Region: srlR; PRK10434 930944012924 DeoR-like helix-turn-helix domain; Region: HTH_DeoR; pfam08220 930944012925 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 930944012926 DNA-binding transcriptional activator GutM; Provisional; Region: PRK10234 930944012927 sorbitol-6-phosphate dehydrogenase; Provisional; Region: PRK12384 930944012928 Sorbitol 6-phosphate dehydrogenase (SDH), classical (c) SDRs; Region: SDH_SDR_c_like; cd05322 930944012929 putative NAD(P) binding site [chemical binding]; other site 930944012930 active site 930944012931 PTS system glucitol/sorbitol-specific transporter subunit IIA; Provisional; Region: PRK10377 930944012932 PTS system, glucitol/sorbitol-specific, IIBC component; Region: EIIBC-GUT; TIGR00825 930944012933 Sorbitol phosphotransferase enzyme II N-terminus; Region: EIIBC-GUT_N; pfam03612 930944012934 Sorbitol phosphotransferase enzyme II C-terminus; Region: EIIBC-GUT_C; pfam07663 930944012935 PTS system enzyme II sorbitol-specific factor; Region: EII-GUT; cl01515 930944012936 lipid kinase; Reviewed; Region: PRK13054 930944012937 Diacylglycerol kinase catalytic domain; Region: DAGK_cat; pfam00781 930944012938 putative protease; Provisional; Region: PRK15452 930944012939 Peptidase family U32; Region: Peptidase_U32; pfam01136 930944012940 Uncharacterized conserved protein [Function unknown]; Region: COG3422 930944012941 Domain of unknown function (DUF1508); Region: DUF1508; pfam07411 930944012942 DNA-binding transcriptional regulator BaeR; Provisional; Region: PRK10710 930944012943 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 930944012944 active site 930944012945 phosphorylation site [posttranslational modification] 930944012946 intermolecular recognition site; other site 930944012947 dimerization interface [polypeptide binding]; other site 930944012948 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 930944012949 DNA binding site [nucleotide binding] 930944012950 signal transduction histidine-protein kinase BaeS; Provisional; Region: PRK10549 930944012951 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 930944012952 dimerization interface [polypeptide binding]; other site 930944012953 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 930944012954 dimer interface [polypeptide binding]; other site 930944012955 phosphorylation site [posttranslational modification] 930944012956 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 930944012957 ATP binding site [chemical binding]; other site 930944012958 Mg2+ binding site [ion binding]; other site 930944012959 G-X-G motif; other site 930944012960 putative transporter; Provisional; Region: PRK10504 930944012961 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 930944012962 putative substrate translocation pore; other site 930944012963 multidrug efflux system subunit MdtC; Provisional; Region: PRK10614 930944012964 multidrug efflux system subunit MdtB; Provisional; Region: PRK10503 930944012965 Protein export membrane protein; Region: SecD_SecF; cl14618 930944012966 multidrug efflux system subunit MdtA; Provisional; Region: PRK11556 930944012967 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 930944012968 HlyD family secretion protein; Region: HlyD_3; pfam13437 930944012969 putative chaperone; Provisional; Region: PRK11678 930944012970 Escherichia coli YegD, a putative chaperone protein, and related proteins; Region: YegD_like; cd10231 930944012971 nucleotide binding site [chemical binding]; other site 930944012972 putative NEF/HSP70 interaction site [polypeptide binding]; other site 930944012973 SBD interface [polypeptide binding]; other site 930944012974 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 930944012975 phosphate transporter ATP-binding protein; Provisional; Region: PRK14236 930944012976 ATP-binding cassette domain of the phosphate transport system; Region: ABC_PstB_phosphate_transporter; cd03260 930944012977 Walker A/P-loop; other site 930944012978 ATP binding site [chemical binding]; other site 930944012979 Q-loop/lid; other site 930944012980 ABC transporter signature motif; other site 930944012981 Walker B; other site 930944012982 D-loop; other site 930944012983 H-loop/switch region; other site 930944012984 ABC-type phosphate transport system, auxiliary component [Inorganic ion transport and metabolism]; Region: COG4985 930944012985 ABC-type phosphate transport system, permease component [Inorganic ion transport and metabolism]; Region: PstA; COG0581 930944012986 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 930944012987 ABC-ATPase subunit interface; other site 930944012988 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4590 930944012989 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 930944012990 dimer interface [polypeptide binding]; other site 930944012991 conserved gate region; other site 930944012992 putative PBP binding loops; other site 930944012993 ABC-ATPase subunit interface; other site 930944012994 Polyphosphate kinase [Inorganic ion transport and metabolism]; Region: Ppk; COG0855 930944012995 Polyphosphate kinase N-terminal domain; Region: PP_kinase_N; pfam13089 930944012996 Polyphosphate kinase middle domain; Region: PP_kinase; pfam02503 930944012997 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cl15239 930944012998 putative active site [active] 930944012999 catalytic site [active] 930944013000 Catalytic C-terminal domain, second repeat, of Escherichia coli polyphosphate kinase 1 and similar proteins; Region: PLDc_EcPPK1_C2_like; cd09167 930944013001 domain interface [polypeptide binding]; other site 930944013002 active site 930944013003 catalytic site [active] 930944013004 exopolyphosphatase; Provisional; Region: PRK10854 930944013005 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 930944013006 nucleotide binding site [chemical binding]; other site 930944013007 Protein of unknown function (DUF2633); Region: DUF2633; pfam11119 930944013008 Mg2+ transporter (mgtE); Region: mgtE; TIGR00400 930944013009 MgtE intracellular N domain; Region: MgtE_N; smart00924 930944013010 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 930944013011 Divalent cation transporter; Region: MgtE; cl00786 930944013012 Predicted integral membrane sensor domain [Signal transduction mechanisms]; Region: COG3447 930944013013 PAS domain S-box; Region: sensory_box; TIGR00229 930944013014 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 930944013015 putative active site [active] 930944013016 heme pocket [chemical binding]; other site 930944013017 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 930944013018 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 930944013019 putative active site [active] 930944013020 heme pocket [chemical binding]; other site 930944013021 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 930944013022 putative active site [active] 930944013023 heme pocket [chemical binding]; other site 930944013024 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 930944013025 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 930944013026 metal binding site [ion binding]; metal-binding site 930944013027 active site 930944013028 I-site; other site 930944013029 spermidine N1-acetyltransferase; Provisional; Region: PRK15130 930944013030 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 930944013031 Coenzyme A binding pocket [chemical binding]; other site 930944013032 phosphoribosylglycinamide formyltransferase; Reviewed; Region: purN; PRK05647 930944013033 Phosphoribosylglycinamide formyltransferase (GAR transformylase, GART); Region: FMT_core_GART; cd08645 930944013034 active site 930944013035 substrate binding site [chemical binding]; other site 930944013036 cosubstrate binding site; other site 930944013037 catalytic site [active] 930944013038 phosphoribosylaminoimidazole synthetase; Provisional; Region: PRK05385 930944013039 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 930944013040 dimerization interface [polypeptide binding]; other site 930944013041 putative ATP binding site [chemical binding]; other site 930944013042 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 930944013043 active site 930944013044 uracil transporter; Provisional; Region: PRK10720 930944013045 DNA replication protein [DNA replication, recombination, and repair]; Region: DnaC; COG1484 930944013046 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 930944013047 Walker A motif; other site 930944013048 ATP binding site [chemical binding]; other site 930944013049 Walker B motif; other site 930944013050 arginine finger; other site 930944013051 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 930944013052 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 930944013053 DNA-binding interface [nucleotide binding]; DNA binding site 930944013054 Integrase core domain; Region: rve; pfam00665 930944013055 Protein kinase domain; Region: Pkinase; pfam00069 930944013056 Catalytic domain of Protein Kinases; Region: PKc; cd00180 930944013057 active site 930944013058 ATP binding site [chemical binding]; other site 930944013059 substrate binding site [chemical binding]; other site 930944013060 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 930944013061 substrate binding site [chemical binding]; other site 930944013062 activation loop (A-loop); other site 930944013063 activation loop (A-loop); other site 930944013064 Rac1-binding domain; Region: Rac1; pfam09632 930944013065 effector protein YopJ; Provisional; Region: PRK15371 930944013066 conjugal transfer surface exclusion protein TraT; Provisional; Region: PRK13731 930944013067 Enterobacterial TraT complement resistance protein; Region: TraT; pfam05818 930944013068 Yersinia/Haemophilus virulence surface antigen; Region: Peptidase_C58; pfam03543 930944013069 Tir chaperone protein (CesT) family; Region: CesT; pfam05932 930944013070 potential frameshift: common BLAST hit: gi|332161384|ref|YP_004297961.1| putative transposase 930944013071 Transposase; Region: HTH_Tnp_1; pfam01527 930944013072 potential frameshift: common BLAST hit: gi|192358908|ref|YP_001981078.1| transposase 930944013073 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 930944013074 Integrase core domain; Region: rve; pfam00665 930944013075 Integrase core domain; Region: rve_3; cl15866 930944013076 YopH, N-terminal; Region: YopH_N; pfam09013 930944013077 potential frameshift: common BLAST hit: gi|209901039|ref|YP_002286821.1| transposase 930944013078 Tn3 transposase DDE domain; Region: DDE_Tnp_Tn3; cl14901 930944013079 Tn3 transposase DDE domain; Region: DDE_Tnp_Tn3; cl14901 930944013080 potential frameshift: common BLAST hit: gi|110642154|ref|YP_669884.1| IS1400 transposase B 930944013081 Integrase core domain; Region: rve_3; pfam13683 930944013082 Integrase core domain; Region: rve; pfam00665 930944013083 YadA-like, left-handed beta-roll; Region: LbR_YadA-like; cd12820 930944013084 trimer interface [polypeptide binding]; other site 930944013085 YadA-like C-terminal region; Region: YadA; pfam03895 930944013086 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 930944013087 EamA-like transporter family; Region: EamA; pfam00892 930944013088 EamA-like transporter family; Region: EamA; pfam00892 930944013089 Domain of unknown function (DUF4158); Region: DUF4158; pfam13700 930944013090 Tn3 transposase DDE domain; Region: DDE_Tnp_Tn3; cl14901 930944013091 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 930944013092 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 930944013093 Presynaptic Site I dimer interface [polypeptide binding]; other site 930944013094 catalytic residues [active] 930944013095 Synaptic Antiparallel dimer interface [polypeptide binding]; other site 930944013096 Synaptic Flat tetramer interface [polypeptide binding]; other site 930944013097 Synaptic Site I dimer interface [polypeptide binding]; other site 930944013098 DNA binding site [nucleotide binding] 930944013099 Helix-turn-helix domain of Hin and related proteins, a family of DNA-binding domains unique to bacteria and represented by the Hin protein of Salmonella. The basic HTH domain is a simple fold comprised of three core helices that form a right-handed...; Region: HTH_Hin_like; cd00569 930944013100 DNA-binding interface [nucleotide binding]; DNA binding site 930944013101 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 930944013102 ArsC family; Region: ArsC; pfam03960 930944013103 catalytic residues [active] 930944013104 arsenical pump membrane protein; Provisional; Region: PRK15445 930944013105 Anion permease ArsB. These permeases have been shown to export arsenate and antimonite in eubacteria and archaea. A typical ArsB permease contains 8-13 transmembrane helices and can function either independently as a chemiosmotic transporter or as a...; Region: ArsB_permease; cd01118 930944013106 transmembrane helices; other site 930944013107 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cl17220 930944013108 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 930944013109 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 930944013110 conjugal transfer nickase/helicase TraI; Provisional; Region: PRK13709 930944013111 potential frameshift: common BLAST hit: gi|192359546|ref|YP_001981330.1| transposase 930944013112 Integrase core domain; Region: rve_3; cl15866 930944013113 HTH-like domain; Region: HTH_21; pfam13276 930944013114 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 930944013115 Integrase core domain; Region: rve; pfam00665 930944013116 Transposase; Region: HTH_Tnp_1; pfam01527 930944013117 plasmid-partitioning protein SopA; Provisional; Region: PRK13705 930944013118 MerR family regulatory protein; Region: MerR; pfam00376 930944013119 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 930944013120 P-loop; other site 930944013121 Magnesium ion binding site [ion binding]; other site 930944013122 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 930944013123 Magnesium ion binding site [ion binding]; other site 930944013124 plasmid-partitioning protein; Provisional; Region: PRK13698 930944013125 ParB-like nuclease domain; Region: ParB; smart00470 930944013126 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3316 930944013127 putative addiction module antidote protein, CC2985 family; Region: antidote_CC2985; TIGR02606 930944013128 Plasmid stabilization system protein [General function prediction only]; Region: ParE; COG3668 930944013129 YopE, N terminal; Region: YopE_N; pfam09020 930944013130 GTPase-activating protein (GAP) domain found in bacterial cytotoxins, ExoS, SptP, and YopE. Part of protein secretion system; stimulates Rac1- dependent cytoskeletal changes that promote bacterial internalization; Region: ToxGAP; cl11615 930944013131 switch II binding region; other site 930944013132 Rac1 P-loop interaction site [polypeptide binding]; other site 930944013133 GTP binding residues [chemical binding]; other site 930944013134 switch I binding region; other site 930944013135 Tir chaperone protein (CesT) family; Region: CesT; pfam05932 930944013136 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 930944013137 Transposase; Region: HTH_Tnp_1; cl17663 930944013138 putative transposase OrfB; Reviewed; Region: PHA02517 930944013139 Integrase core domain; Region: rve; pfam00665 930944013140 Tir chaperone protein (CesT) family; Region: CesT; pfam05932 930944013141 YopH, N-terminal; Region: YopH_N; pfam09013 930944013142 Protein tyrosine phosphatases (PTP) catalyze the dephosphorylation of phosphotyrosine peptides; they regulate phosphotyrosine levels in signal transduction pathways. The depth of the active site cleft renders the enzyme specific for phosphorylated Tyr; Region: PTPc; cd00047 930944013143 Protein-tyrosine phosphatase; Region: Y_phosphatase; pfam00102 930944013144 active site 930944013145 YopH, N-terminal; Region: YopH_N; pfam09013 930944013146 type III secretion system protein; Reviewed; Region: PRK06937 930944013147 Flagellar assembly protein FliH; Region: FliH; pfam02108 930944013148 YOP proteins translocation protein K (YscK); Region: YscK; pfam06578 930944013149 Type III secretory pathway, lipoprotein EscJ [Intracellular trafficking and secretion]; Region: EscJ; COG4669 930944013150 type III secretion apparatus protein, YscI/HrpB, C-terminal domain; Region: yscI_hrpB_dom; TIGR02497 930944013151 YopR Core; Region: YopR_core; pfam09025 930944013152 type III secretion protein, YscG family; Region: type_III_yscG; TIGR02508 930944013153 type III secretion apparatus needle protein; Region: III_needle; TIGR02105 930944013154 type III secretion system protein, YseE family; Region: type_III_yscE; TIGR02501 930944013155 type III secretion apparatus protein, YscD/HrpQ family; Region: type_III_yscD; TIGR02500 930944013156 type III secretion system protein SsaD; Provisional; Region: PRK15367 930944013157 type III secretion outer membrane pore, YscC/HrcC family; Region: type_III_yscC; TIGR02516 930944013158 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 930944013159 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 930944013160 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 930944013161 type III secretion system chaperone, YscB family; Region: type_III_yscB; TIGR02513 930944013162 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 930944013163 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 930944013164 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 930944013165 type III secretion system chaperone YscW; Region: YscW; TIGR02567 930944013166 Type III secretory pathway, component EscU [Intracellular trafficking and secretion]; Region: EscU; COG4792 930944013167 Type III secretory pathway, component EscT [Intracellular trafficking and secretion]; Region: EscT; COG4791 930944013168 Type III secretory pathway, component EscS [Intracellular trafficking and secretion]; Region: EscS; COG4794 930944013169 Type III secretory pathway, component EscR [Intracellular trafficking and secretion]; Region: EscR; COG4790 930944013170 type III secretion system protein; Validated; Region: PRK06933 930944013171 Flagellar motor switch/type III secretory pathway protein [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FliN; COG1886 930944013172 type III secretion system needle length determinant; Region: type_III_yscP; TIGR02514 930944013173 Type III secretion protein YscO; Region: YscO; pfam07321 930944013174 type III secretion system ATPase; Provisional; Region: PRK06936 930944013175 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 930944013176 Flagellum-specific ATPase/type III secretory pathway virulence-related protein. This group of ATPases are responsible for the export of flagellum and virulence-related proteins. The bacterial flagellar motor is similar to the F0F1-ATPase, in that they...; Region: ATPase_flagellum-secretory_path_III; cd01136 930944013177 Walker A motif/ATP binding site; other site 930944013178 Walker B motif; other site 930944013179 HrpJ-like domain; Region: HrpJ; cl15454 930944013180 TyeA; Region: TyeA; pfam09059 930944013181 type III secretion chaperone SycN; Region: type_III_SycN; TIGR02503 930944013182 type III secretion protein, YscX family; Region: type_III_YscX; TIGR02502 930944013183 putative PEP-CTERM system TPR-repeat lipoprotein; Region: PEP_TPR_lipo; TIGR02917 930944013184 Type III secretory pathway, component EscV [Intracellular trafficking and secretion]; Region: EscV; COG4789 930944013185 FHIPEP family; Region: FHIPEP; pfam00771 930944013186 Type III secretion system regulator (LcrR); Region: LcrR; cl09838 930944013187 type III secretion protein LcrG; Region: LcrG_PcrG; TIGR02573 930944013188 V antigen (LcrV) protein; Region: LcrV; pfam04792 930944013189 type III secretion low calcium response chaperone LcrH/SycD; Region: LcrH_SycD; TIGR02552 930944013190 Secretion system effector C (SseC) like family; Region: SseC; pfam04888 930944013191 YopD protein; Region: YopD; pfam05844 930944013192 Transposase, Mutator family; Region: Transposase_mut; pfam00872 930944013193 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3328 930944013194 Type III secretion system leucine rich repeat protein; Region: TTSSLRR; pfam12468 930944013195 HTH-like domain; Region: HTH_21; pfam13276 930944013196 Integrase core domain; Region: rve; pfam00665 930944013197 Transposase; Region: HTH_Tnp_1; pfam01527 930944013198 Protein of unknown function (DUF2726); Region: DUF2726; pfam10881 930944013199 TraX protein; Region: TraX; cl05434 930944013200 Integrase core domain; Region: rve; pfam00665 930944013201 Integrase core domain; Region: rve; pfam00665 930944013202 Catalytic domain of EDTA-resistant nuclease Nuc from Salmonella typhimurium and similar proteins; Region: PLDc_Nuc; cd09170 930944013203 PLD-like domain; Region: PLDc_2; pfam13091 930944013204 putative active site [active] 930944013205 catalytic site [active] 930944013206 replication protein; Provisional; Region: PRK13702 930944013207 replication protein; Provisional; Region: PRK13750