-- dump date 20140619_135256 -- class Genbank::misc_feature -- table misc_feature_note -- id note 1316932000001 chromosomal replication initiation protein; Reviewed; Region: dnaA; PRK00149 1316932000002 DnaA N-terminal domain; Region: DnaA_N; pfam11638 1316932000003 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 1316932000004 Walker A motif; other site 1316932000005 ATP binding site [chemical binding]; other site 1316932000006 Walker B motif; other site 1316932000007 arginine finger; other site 1316932000008 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 1316932000009 DnaA box-binding interface [nucleotide binding]; other site 1316932000010 DNA polymerase III subunit beta; Validated; Region: PRK05643 1316932000011 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 1316932000012 putative DNA binding surface [nucleotide binding]; other site 1316932000013 dimer interface [polypeptide binding]; other site 1316932000014 beta-clamp/clamp loader binding surface; other site 1316932000015 beta-clamp/translesion DNA polymerase binding surface; other site 1316932000016 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2976 1316932000017 Uncharacterized protein conserved in bacteria (DUF2133); Region: DUF2133; pfam09976 1316932000018 histidyl-tRNA synthetase; Reviewed; Region: hisS; PRK00037 1316932000019 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 1316932000020 dimer interface [polypeptide binding]; other site 1316932000021 motif 1; other site 1316932000022 active site 1316932000023 motif 2; other site 1316932000024 motif 3; other site 1316932000025 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 1316932000026 anticodon binding site; other site 1316932000027 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Reviewed; Region: ispG; PRK00366 1316932000028 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 1316932000029 cytoskeletal protein RodZ; Provisional; Region: PRK10856 1316932000030 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 1316932000031 non-specific DNA binding site [nucleotide binding]; other site 1316932000032 salt bridge; other site 1316932000033 sequence-specific DNA binding site [nucleotide binding]; other site 1316932000034 Domain of unknown function (DUF4115); Region: DUF4115; pfam13464 1316932000035 argininosuccinate lyase; Provisional; Region: PRK04833 1316932000036 Argininosuccinate lyase (argininosuccinase, ASAL); Region: Argininosuccinate_lyase; cd01359 1316932000037 active sites [active] 1316932000038 tetramer interface [polypeptide binding]; other site 1316932000039 Predicted tRNA(5-methylaminomethyl-2-thiouridylate) methyltransferase, contains the PP-loop ATPase domain [Translation, ribosomal structure and biogenesis]; Region: TrmU; COG0482 1316932000040 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 1316932000041 Ligand Binding Site [chemical binding]; other site 1316932000042 Nucleotidyltransferase (NT) domain of Staphylococcus aureus kanamycin nucleotidyltransferase, and similar proteins; Region: NT_KNTase_like; cd05403 1316932000043 active site 1316932000044 NTP binding site [chemical binding]; other site 1316932000045 metal binding triad [ion binding]; metal-binding site 1316932000046 antibiotic binding site [chemical binding]; other site 1316932000047 Nucleotidyltransferase substrate binding protein like; Region: NTase_sub_bind; pfam08780 1316932000048 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2991 1316932000049 Membrane-associated lipoprotein involved in thiamine biosynthesis [Coenzyme metabolism]; Region: ApbE; COG1477 1316932000050 ApbE family; Region: ApbE; pfam02424 1316932000051 Nucleotidyltransferase (NT) domain of Staphylococcus aureus kanamycin nucleotidyltransferase, and similar proteins; Region: NT_KNTase_like; cd05403 1316932000052 active site 1316932000053 NTP binding site [chemical binding]; other site 1316932000054 metal binding triad [ion binding]; metal-binding site 1316932000055 antibiotic binding site [chemical binding]; other site 1316932000056 Nucleotidyltransferase substrate binding protein like; Region: NTase_sub_bind; pfam08780 1316932000057 Na(+)-translocating NADH-quinone reductase subunit F; Provisional; Region: PRK05464 1316932000058 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 1316932000059 FAD binding pocket [chemical binding]; other site 1316932000060 FAD binding motif [chemical binding]; other site 1316932000061 phosphate binding motif [ion binding]; other site 1316932000062 beta-alpha-beta structure motif; other site 1316932000063 NAD binding pocket [chemical binding]; other site 1316932000064 Na(+)-translocating NADH-quinone reductase subunit E; Provisional; Region: PRK02830 1316932000065 Na(+)-translocating NADH-quinone reductase subunit D; Validated; Region: PRK09292 1316932000066 Na(+)-translocating NADH-quinone reductase subunit C; Provisional; Region: PRK05346 1316932000067 NADH:ubiquinone oxidoreductase, Na(+)-translocating, C subunit; Region: nqrC; TIGR01938 1316932000068 Na(+)-translocating NADH-quinone reductase subunit B; Provisional; Region: PRK05349 1316932000069 Na(+)-translocating NADH-quinone reductase subunit A; Provisional; Region: PRK05352 1316932000070 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 1316932000071 E3 interaction surface; other site 1316932000072 lipoyl attachment site [posttranslational modification]; other site 1316932000073 NQRA C-terminal domain; Region: NQRA_SLBB; pfam11973 1316932000074 Fe/S biogenesis protein NfuA; Provisional; Region: PRK11190 1316932000075 Fe-S cluster assembly scaffold protein [Posttranslational modification, protein turnover, chaperones]; Region: sufA; COG0316 1316932000076 Thioredoxin-like proteins and domains [Posttranslational modification, protein turnover, chaperones]; Region: COG0694 1316932000077 CTP synthetase; Validated; Region: pyrG; PRK05380 1316932000078 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 1316932000079 Catalytic site [active] 1316932000080 active site 1316932000081 UTP binding site [chemical binding]; other site 1316932000082 Type 1 glutamine amidotransferase (GATase1) domain found in Cytidine Triphosphate Synthetase; Region: GATase1_CTP_Synthase; cd01746 1316932000083 active site 1316932000084 putative oxyanion hole; other site 1316932000085 catalytic triad [active] 1316932000086 Type II (periplasmic) bacterial L-asparaginase; Region: L-asparaginase_II; cd08964 1316932000087 active site 1316932000088 homotetramer interface [polypeptide binding]; other site 1316932000089 homodimer interface [polypeptide binding]; other site 1316932000090 transcriptional regulator CysB; Reviewed; Region: cysB; PRK12681 1316932000091 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1316932000092 The C-terminal substrate domain of LysR-type transcriptional regulators CysB-like contains type 2 periplasmic binding fold; Region: PBP2_CysB_like; cd08413 1316932000093 substrate binding site [chemical binding]; other site 1316932000094 dimerization interface [polypeptide binding]; other site 1316932000095 dUMP phosphatase; Provisional; Region: PRK09449 1316932000096 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 1316932000097 motif II; other site 1316932000098 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 1316932000099 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1316932000100 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 1316932000101 dimerization interface [polypeptide binding]; other site 1316932000102 substrate binding pocket [chemical binding]; other site 1316932000103 GTPase RsgA; Reviewed; Region: PRK12288 1316932000104 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 1316932000105 RNA binding site [nucleotide binding]; other site 1316932000106 Ribosomal interacting GTPase YjeQ/EngC, a circularly permuted subfamily of the Ras GTPases; Region: YjeQ_EngC; cd01854 1316932000107 GTPase/Zn-binding domain interface [polypeptide binding]; other site 1316932000108 GTP/Mg2+ binding site [chemical binding]; other site 1316932000109 G4 box; other site 1316932000110 G5 box; other site 1316932000111 G1 box; other site 1316932000112 Switch I region; other site 1316932000113 G2 box; other site 1316932000114 G3 box; other site 1316932000115 Switch II region; other site 1316932000116 bacterial Ribonuclease HII-like; Region: RNase_HII_bacteria_HII_like; cd07182 1316932000117 RNA/DNA hybrid binding site [nucleotide binding]; other site 1316932000118 active site 1316932000119 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 1316932000120 nucleotide binding site/active site [active] 1316932000121 HIT family signature motif; other site 1316932000122 catalytic residue [active] 1316932000123 Putative periplasmic lipoprotein; Region: DUF1425; cd09030 1316932000124 putative dimer interface [polypeptide binding]; other site 1316932000125 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 1316932000126 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3108 1316932000127 Peptidase M15; Region: Peptidase_M15_3; cl01194 1316932000128 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 1316932000129 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 1316932000130 carboxy-terminal protease; Provisional; Region: PRK11186 1316932000131 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 1316932000132 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 1316932000133 protein binding site [polypeptide binding]; other site 1316932000134 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 1316932000135 Catalytic dyad [active] 1316932000136 C-terminal domain of tail specific protease (DUF3340); Region: DUF3340; pfam11818 1316932000137 ProQ/FINO family; Region: ProQ; pfam04352 1316932000138 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 1316932000139 DNA-binding site [nucleotide binding]; DNA binding site 1316932000140 RNA-binding motif; other site 1316932000141 putative 3-phenylpropionic acid transporter; Provisional; Region: PRK11128 1316932000142 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 1316932000143 putative substrate translocation pore; other site 1316932000144 NADP oxidoreductase coenzyme F420-dependent; Region: F420_oxidored; cl17232 1316932000145 pyrroline-5-carboxylate reductase; Reviewed; Region: PRK11880 1316932000146 Putative exonuclease, RdgC; Region: RdgC; pfam04381 1316932000147 fructose-1-P/6-phosphogluconate phosphatase; Provisional; Region: PRK10725 1316932000148 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 1316932000149 motif I; other site 1316932000150 active site 1316932000151 Protein of unknown function (DUF998); Region: DUF998; pfam06197 1316932000152 acetylornithine deacetylase; Provisional; Region: PRK05111 1316932000153 M20 Peptidase acetylornithine deacetylase; Region: M20_ArgE; cd03894 1316932000154 metal binding site [ion binding]; metal-binding site 1316932000155 putative dimer interface [polypeptide binding]; other site 1316932000156 Plasmid stabilisation system protein; Region: Plasmid_stabil; pfam05016 1316932000157 outer membrane lipoprotein; Provisional; Region: PRK11023 1316932000158 BON domain; Region: BON; pfam04972 1316932000159 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 1316932000160 dimer interface [polypeptide binding]; other site 1316932000161 active site 1316932000162 hypothetical protein; Reviewed; Region: PRK12497 1316932000163 LppC putative lipoprotein; Region: LppC; pfam04348 1316932000164 Periplasmic binding component of lipoprotein LppC, an immunodominant antigen; Region: PBP1_YraM_LppC_lipoprotein_like; cd06339 1316932000165 putative ligand binding site [chemical binding]; other site 1316932000166 SAM-dependent 16S ribosomal RNA C1402 ribose 2'-O-methyltransferase; Provisional; Region: PRK14994 1316932000167 Ribosomal RNA small subunit methyltransferase I, also known as rRNA (cytidine-2'-O-)-methyltransferase RsmI; Region: RsmI; cd11648 1316932000168 putative SAM binding site [chemical binding]; other site 1316932000169 putative homodimer interface [polypeptide binding]; other site 1316932000170 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 1316932000171 putative substrate translocation pore; other site 1316932000172 Predicted symporter [General function prediction only]; Region: DhlC; COG4147 1316932000173 Na(+)/proline cotransporter PutP and related proteins; solute binding domain; Region: SLC5sbd_PutP; cd11475 1316932000174 Na binding site [ion binding]; other site 1316932000175 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 1316932000176 Transcriptional regulator [Transcription]; Region: IclR; COG1414 1316932000177 Bacterial transcriptional regulator; Region: IclR; pfam01614 1316932000178 5-formyltetrahydrofolate cyclo-ligase family; Region: 5-FTHF_cyc-lig; pfam01812 1316932000179 5,10-methenyltetrahydrofolate synthetase; Region: MTHFS_bact; TIGR02727 1316932000180 Cell division protein ZapA; Region: ZapA; pfam05164 1316932000181 hypothetical protein; Reviewed; Region: PRK01736 1316932000182 methylcobalamin:coenzyme M methyltransferase; Validated; Region: PRK06252 1316932000183 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 1316932000184 substrate binding site [chemical binding]; other site 1316932000185 active site 1316932000186 Protein of unknown function (DUF416); Region: DUF416; cl01166 1316932000187 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 1316932000188 IHF dimer interface [polypeptide binding]; other site 1316932000189 IHF - DNA interface [nucleotide binding]; other site 1316932000190 Ribonucleases G and E [Translation, ribosomal structure and biogenesis]; Region: CafA; COG1530 1316932000191 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 1316932000192 homodimer interface [polypeptide binding]; other site 1316932000193 oligonucleotide binding site [chemical binding]; other site 1316932000194 Polyribonucleotide phosphorylase C terminal; Region: PNPase_C; pfam12111 1316932000195 Isochorismatase family; Region: Isochorismatase; pfam00857 1316932000196 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 1316932000197 catalytic triad [active] 1316932000198 conserved cis-peptide bond; other site 1316932000199 Cupin; Region: Cupin_6; pfam12852 1316932000200 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1316932000201 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 1316932000202 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1316932000203 3-octaprenyl-4-hydroxybenzoate carboxy-lyase; Region: UbiD; cl00311 1316932000204 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 1316932000205 intersubunit interface [polypeptide binding]; other site 1316932000206 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 1316932000207 metal binding site [ion binding]; metal-binding site 1316932000208 PhnA Zinc-Ribbon; Region: PhnA_Zn_Ribbon; pfam08274 1316932000209 alkylphosphonate utilization operon protein PhnA; Region: phnA; TIGR00686 1316932000210 PhnA protein; Region: PhnA; pfam03831 1316932000211 ribonuclease R; Region: RNase_R; TIGR02063 1316932000212 Ribonuclease R winged-helix domain; Region: HTH_12; pfam08461 1316932000213 Ribonuclease B OB domain; Region: OB_RNB; pfam08206 1316932000214 RNB domain; Region: RNB; pfam00773 1316932000215 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 1316932000216 RNA binding site [nucleotide binding]; other site 1316932000217 cell division protein MraZ; Reviewed; Region: PRK00326 1316932000218 MraZ protein; Region: MraZ; pfam02381 1316932000219 MraZ protein; Region: MraZ; pfam02381 1316932000220 16S rRNA m(4)C1402 methyltranserfase; Provisional; Region: PRK00050 1316932000221 MraW methylase family; Region: Methyltransf_5; pfam01795 1316932000222 Cell division protein [Cell division and chromosome partitioning]; Region: FtsL; COG3116 1316932000223 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 1316932000224 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 1316932000225 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 1316932000226 UDP-N-acetylmuramoylalanyl-D-glutamate--2, 6-diaminopimelate ligase; Provisional; Region: murE; PRK00139 1316932000227 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 1316932000228 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 1316932000229 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 1316932000230 UDP-N-acetylmuramoyl-tripeptide--D-alanyl-D-alanine ligase; Reviewed; Region: murF; PRK10773 1316932000231 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 1316932000232 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 1316932000233 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 1316932000234 phospho-N-acetylmuramoyl-pentapeptide-transferase; Provisional; Region: mraY; PRK00108 1316932000235 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 1316932000236 Mg++ binding site [ion binding]; other site 1316932000237 putative catalytic motif [active] 1316932000238 putative substrate binding site [chemical binding]; other site 1316932000239 UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase; Provisional; Region: murD; PRK03806 1316932000240 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 1316932000241 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 1316932000242 Cell cycle protein; Region: FTSW_RODA_SPOVE; cl00511 1316932000243 undecaprenyldiphospho-muramoylpentapeptide beta-N- acetylglucosaminyltransferase; Provisional; Region: murG; PRK00726 1316932000244 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 1316932000245 active site 1316932000246 homodimer interface [polypeptide binding]; other site 1316932000247 UDP-N-acetylmuramate--L-alanine ligase; Provisional; Region: murC; PRK00421 1316932000248 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 1316932000249 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 1316932000250 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 1316932000251 D-alanine--D-alanine ligase; Reviewed; Region: ddl; PRK01372 1316932000252 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 1316932000253 D-ala D-ala ligase C-terminus; Region: Dala_Dala_lig_C; pfam07478 1316932000254 POTRA domain, FtsQ-type; Region: POTRA_1; pfam08478 1316932000255 Cell division protein FtsQ; Region: FtsQ; pfam03799 1316932000256 cell division protein FtsA; Reviewed; Region: ftsA; PRK09472 1316932000257 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 1316932000258 nucleotide binding site [chemical binding]; other site 1316932000259 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 1316932000260 Cell division protein FtsA; Region: FtsA; pfam14450 1316932000261 cell division protein FtsZ; Validated; Region: PRK09330 1316932000262 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 1316932000263 nucleotide binding site [chemical binding]; other site 1316932000264 SulA interaction site; other site 1316932000265 UDP-3-O-[3-hydroxymyristoyl] N-acetylglucosamine deacetylase; Reviewed; Region: lpxC; PRK13186 1316932000266 UDP-3-O-acyl N-acetylglycosamine deacetylase; Region: LpxC; pfam03331 1316932000267 recombination and repair protein; Provisional; Region: PRK10869 1316932000268 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 1316932000269 Walker A/P-loop; other site 1316932000270 ATP binding site [chemical binding]; other site 1316932000271 Q-loop/lid; other site 1316932000272 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 1316932000273 ABC transporter signature motif; other site 1316932000274 Walker B; other site 1316932000275 D-loop; other site 1316932000276 H-loop/switch region; other site 1316932000277 glutamyl-tRNA synthetase; Reviewed; Region: gltX; PRK01406 1316932000278 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 1316932000279 HIGH motif; other site 1316932000280 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 1316932000281 active site 1316932000282 KMSKS motif; other site 1316932000283 membrane-bound lytic transglycosylase F; Provisional; Region: PRK10859 1316932000284 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 1316932000285 substrate binding pocket [chemical binding]; other site 1316932000286 membrane-bound complex binding site; other site 1316932000287 hinge residues; other site 1316932000288 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 1316932000289 N-acetyl-D-glucosamine binding site [chemical binding]; other site 1316932000290 catalytic residue [active] 1316932000291 thymidylate synthase; Reviewed; Region: thyA; PRK01827 1316932000292 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 1316932000293 dimerization interface [polypeptide binding]; other site 1316932000294 active site 1316932000295 LysM domain/BON superfamily protein; Provisional; Region: PRK11198 1316932000296 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 1316932000297 DNA polymerase III subunit chi; Validated; Region: PRK05728 1316932000298 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 1316932000299 Coenzyme A binding pocket [chemical binding]; other site 1316932000300 Fic family protein [Function unknown]; Region: COG3177 1316932000301 Fic/DOC family; Region: Fic; pfam02661 1316932000302 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4185 1316932000303 valyl-tRNA synthetase; Reviewed; Region: valS; PRK05729 1316932000304 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 1316932000305 HIGH motif; other site 1316932000306 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 1316932000307 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 1316932000308 active site 1316932000309 KMSKS motif; other site 1316932000310 Anticodon-binding domain of valyl tRNA synthetases; Region: Anticodon_Ia_Val; cd07962 1316932000311 tRNA binding surface [nucleotide binding]; other site 1316932000312 anticodon binding site; other site 1316932000313 Valyl tRNA synthetase tRNA binding arm; Region: Val_tRNA-synt_C; pfam10458 1316932000314 NnaC (CMP-NeuNAc synthetase) _like subfamily of SGNH_hydrolases, a diverse family of lipases and esterases. The tertiary fold of the enzyme is substantially different from that of the alpha/beta hydrolase family and unique among all known hydrolases; its...; Region: NnaC_like; cd01841 1316932000315 active site 1316932000316 catalytic triad [active] 1316932000317 oxyanion hole [active] 1316932000318 6-phosphogluconate dehydrogenase [Carbohydrate transport and metabolism]; Region: Gnd; COG0362 1316932000319 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 1316932000320 6-phosphogluconate dehydrogenase, C-terminal domain; Region: 6PGD; pfam00393 1316932000321 Aspartate racemase [Cell envelope biogenesis, outer membrane]; Region: RacX; COG1794 1316932000322 aspartate racemase; Region: asp_race; TIGR00035 1316932000323 ORF6N domain; Region: ORF6N; pfam10543 1316932000324 6-phosphogluconolactonase/Glucosamine-6-phosphate isomerase/deaminase [Carbohydrate transport and metabolism]; Region: NagB; COG0363 1316932000325 6PGL: 6-Phosphogluconolactonase (6PGL) subfamily; 6PGL catalyzes the second step of the oxidative phase of the pentose phosphate pathway, the hydrolyzation of 6-phosphoglucono-1,5-lactone (delta form) to 6-phosphogluconate. 6PGL is thought to guard...; Region: 6PGL; cd01400 1316932000326 putative active site [active] 1316932000327 glucose-6-phosphate 1-dehydrogenase; Validated; Region: PRK05722 1316932000328 Glucose-6-phosphate dehydrogenase, NAD binding domain; Region: G6PD_N; pfam00479 1316932000329 Glucose-6-phosphate dehydrogenase, C-terminal domain; Region: G6PD_C; pfam02781 1316932000330 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 1316932000331 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 1316932000332 active site 1316932000333 adenosine nucleotide hydrolase NudE; Provisional; Region: nudE; PRK11762 1316932000334 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 1316932000335 dimer interface [polypeptide binding]; other site 1316932000336 ADP-ribose binding site [chemical binding]; other site 1316932000337 active site 1316932000338 nudix motif; other site 1316932000339 metal binding site [ion binding]; metal-binding site 1316932000340 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 1316932000341 RNA binding surface [nucleotide binding]; other site 1316932000342 Hsp33-like chaperonin; Reviewed; Region: hslO; PRK00114 1316932000343 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 1316932000344 dimerization interface [polypeptide binding]; other site 1316932000345 domain crossover interface; other site 1316932000346 redox-dependent activation switch; other site 1316932000347 bifunctional phosphoribosyl-AMP cyclohydrolase/phosphoribosyl-ATP pyrophosphatase protein; Reviewed; Region: PRK02759 1316932000348 Phosphoribosyl-AMP cyclohydrolase [Amino acid transport and metabolism]; Region: HisI; COG0139 1316932000349 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 1316932000350 metal binding site [ion binding]; metal-binding site 1316932000351 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases; Region: Glo_EDI_BRP_like_2; cd07253 1316932000352 dimer interface [polypeptide binding]; other site 1316932000353 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 1316932000354 metal binding site [ion binding]; metal-binding site 1316932000355 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 1316932000356 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 1316932000357 substrate binding site [chemical binding]; other site 1316932000358 glutamase interaction surface [polypeptide binding]; other site 1316932000359 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 1316932000360 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 1316932000361 catalytic residues [active] 1316932000362 BRO family, N-terminal domain; Region: Bro-N; smart01040 1316932000363 imidazole glycerol phosphate synthase subunit HisH; Provisional; Region: hisH; PRK13170 1316932000364 Type 1 glutamine amidotransferase (GATase1) domain found in imidazole glycerol phosphate synthase (IGPS); Region: GATase1_IGP_Synthase; cd01748 1316932000365 putative active site [active] 1316932000366 oxyanion strand; other site 1316932000367 catalytic triad [active] 1316932000368 imidazole glycerol-phosphate dehydratase/histidinol phosphatase; Provisional; Region: PRK05446 1316932000369 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 1316932000370 active site 1316932000371 motif I; other site 1316932000372 motif II; other site 1316932000373 Imidazoleglycerol-phosphate dehydratase; Region: IGPD; cd07914 1316932000374 putative active site pocket [active] 1316932000375 4-fold oligomerization interface [polypeptide binding]; other site 1316932000376 metal binding residues [ion binding]; metal-binding site 1316932000377 3-fold/trimer interface [polypeptide binding]; other site 1316932000378 histidinol-phosphate aminotransferase; Provisional; Region: PRK01688 1316932000379 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 1316932000380 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1316932000381 homodimer interface [polypeptide binding]; other site 1316932000382 catalytic residue [active] 1316932000383 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 1316932000384 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1316932000385 Coenzyme A binding pocket [chemical binding]; other site 1316932000386 Virulence protein RhuM family; Region: Virulence_RhuM; pfam13310 1316932000387 16S ribosomal RNA m2G1207 methyltransferase; Provisional; Region: rsmC; PRK09489 1316932000388 Methyltransferase small domain N-terminal; Region: MTS_N; pfam08468 1316932000389 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 1316932000390 S-adenosylmethionine binding site [chemical binding]; other site 1316932000391 DNA polymerase III subunit psi; Validated; Region: PRK06856 1316932000392 ribosomal-protein-alanine N-acetyltransferase; Provisional; Region: rimI; PRK09491 1316932000393 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1316932000394 Coenzyme A binding pocket [chemical binding]; other site 1316932000395 Predicted membrane GTPase involved in stress response [Signal transduction mechanisms]; Region: TypA; COG1217 1316932000396 Tyrosine phosphorylated protein A (TypA)/BipA family belongs to ribosome-binding GTPases; Region: TypA_BipA; cd01891 1316932000397 G1 box; other site 1316932000398 putative GEF interaction site [polypeptide binding]; other site 1316932000399 GTP/Mg2+ binding site [chemical binding]; other site 1316932000400 Switch I region; other site 1316932000401 G2 box; other site 1316932000402 G3 box; other site 1316932000403 Switch II region; other site 1316932000404 G4 box; other site 1316932000405 G5 box; other site 1316932000406 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 1316932000407 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 1316932000408 Pyridoxal 5-phosphate (PLP)-binding TIM barrel domain of Type III PLP-Dependent Enzymes, Yggs-like proteins; Region: PLPDE_III_Yggs_like; cd06824 1316932000409 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 1316932000410 catalytic residue [active] 1316932000411 HAD-superfamily hydrolase, subfamily IIIA; Region: HAD-SF-IIIA; TIGR01662 1316932000412 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 1316932000413 active site 1316932000414 motif I; other site 1316932000415 motif II; other site 1316932000416 Protein of unknown function (DUF497); Region: DUF497; pfam04365 1316932000417 Domain of unknown function (DUF4415); Region: DUF4415; pfam14384 1316932000418 Protein of unknown function (DUF3144); Region: DUF3144; pfam11342 1316932000419 RNA polymerase factor sigma-32; Reviewed; Region: PRK06596 1316932000420 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1316932000421 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 1316932000422 DNA binding residues [nucleotide binding] 1316932000423 integrase; Provisional; Region: PRK09692 1316932000424 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 1316932000425 active site 1316932000426 Int/Topo IB signature motif; other site 1316932000427 putative addiction module killer protein; Region: upstrm_HI1419; TIGR02683 1316932000428 Phage derived protein Gp49-like (DUF891); Region: Gp49; cl01470 1316932000429 probable addiction module antidote protein; Region: dnstrm_HI1420; TIGR02684 1316932000430 Terminase small subunit; Region: Terminase_2; pfam03592 1316932000431 Autotransporter beta-domain; Region: Autotransporter; cl17461 1316932000432 serine acetyltransferase; Provisional; Region: cysE; PRK11132 1316932000433 Serine acetyltransferase, N-terminal; Region: SATase_N; pfam06426 1316932000434 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 1316932000435 trimer interface [polypeptide binding]; other site 1316932000436 active site 1316932000437 substrate binding site [chemical binding]; other site 1316932000438 CoA binding site [chemical binding]; other site 1316932000439 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 1316932000440 NAD(P)H-dependent glycerol-3-phosphate dehydrogenase; Validated; Region: gpsA; PRK00094 1316932000441 NAD-dependent glycerol-3-phosphate dehydrogenase C-terminus; Region: NAD_Gly3P_dh_C; pfam07479 1316932000442 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 1316932000443 SecA binding site; other site 1316932000444 Preprotein binding site; other site 1316932000445 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 1316932000446 active site residue [active] 1316932000447 trigger factor; Provisional; Region: tig; PRK01490 1316932000448 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 1316932000449 Bacterial trigger factor protein (TF) C-terminus; Region: Trigger_C; pfam05698 1316932000450 elongation factor Tu; Reviewed; Region: PRK00049 1316932000451 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 1316932000452 G1 box; other site 1316932000453 GEF interaction site [polypeptide binding]; other site 1316932000454 GTP/Mg2+ binding site [chemical binding]; other site 1316932000455 Switch I region; other site 1316932000456 G2 box; other site 1316932000457 G3 box; other site 1316932000458 Switch II region; other site 1316932000459 G4 box; other site 1316932000460 G5 box; other site 1316932000461 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 1316932000462 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 1316932000463 Antibiotic Binding Site [chemical binding]; other site 1316932000464 elongation factor G; Reviewed; Region: PRK00007 1316932000465 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 1316932000466 G1 box; other site 1316932000467 putative GEF interaction site [polypeptide binding]; other site 1316932000468 GTP/Mg2+ binding site [chemical binding]; other site 1316932000469 Switch I region; other site 1316932000470 G2 box; other site 1316932000471 G3 box; other site 1316932000472 Switch II region; other site 1316932000473 G4 box; other site 1316932000474 G5 box; other site 1316932000475 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 1316932000476 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 1316932000477 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 1316932000478 30S ribosomal protein S7; Validated; Region: PRK05302 1316932000479 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 1316932000480 S17 interaction site [polypeptide binding]; other site 1316932000481 S8 interaction site; other site 1316932000482 16S rRNA interaction site [nucleotide binding]; other site 1316932000483 streptomycin interaction site [chemical binding]; other site 1316932000484 23S rRNA interaction site [nucleotide binding]; other site 1316932000485 aminoacyl-tRNA interaction site (A-site) [nucleotide binding]; other site 1316932000486 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 1316932000487 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 1316932000488 putative active site [active] 1316932000489 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 1316932000490 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 1316932000491 putative active site [active] 1316932000492 Membrane-bound lysozyme-inhibitor of c-type lysozyme; Region: MliC; cl01604 1316932000493 Opacity-associated protein A LysM-like domain; Region: OapA; pfam04225 1316932000494 competence protein ComEA helix-hairpin-helix repeat region; Region: TIGR00426 1316932000495 phosphatidylserine decarboxylase; Reviewed; Region: psd; PRK00044 1316932000496 Type I site-specific restriction-modification system, R (restriction) subunit and related helicases [Defense mechanisms]; Region: HsdR; COG4096 1316932000497 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; cl14958 1316932000498 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 1316932000499 ATP binding site [chemical binding]; other site 1316932000500 putative Mg++ binding site [ion binding]; other site 1316932000501 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; cl17351 1316932000502 nucleotide binding region [chemical binding]; other site 1316932000503 ATP-binding site [chemical binding]; other site 1316932000504 Type I restriction-modification system methyltransferase subunit [Defense mechanisms]; Region: HsdM; COG0286 1316932000505 HsdM N-terminal domain; Region: HsdM_N; pfam12161 1316932000506 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 1316932000507 S-adenosylmethionine binding site [chemical binding]; other site 1316932000508 Eco57I restriction-modification methylase; Region: Eco57I; pfam07669 1316932000509 Predicted transcriptional regulator containing an HTH domain and an uncharacterized domain shared with the mammalian protein Schlafen [Transcription]; Region: COG2865 1316932000510 Divergent AAA domain; Region: AAA_4; pfam04326 1316932000511 ATP-dependent DNA helicase recG C-terminal; Region: HATPase_c_4; pfam13749 1316932000512 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 1316932000513 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 1316932000514 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 1316932000515 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 1316932000516 tyrosine recombinase XerC; Region: recomb_XerC; TIGR02224 1316932000517 active site 1316932000518 DNA binding site [nucleotide binding] 1316932000519 Int/Topo IB signature motif; other site 1316932000520 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 1316932000521 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 1316932000522 bifunctional glutamate--cysteine ligase/glutathione synthetase; Provisional; Region: PRK02471 1316932000523 Glutamate-cysteine ligase; Region: Glu_cys_ligase; cl17352 1316932000524 ATP-grasp domain; Region: ATP-grasp_4; cl17255 1316932000525 PTS system mannose-specific transporter subunits IIAB; Provisional; Region: PRK15088 1316932000526 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 1316932000527 active pocket/dimerization site; other site 1316932000528 active site 1316932000529 phosphorylation site [posttranslational modification] 1316932000530 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 1316932000531 active site 1316932000532 phosphorylation site [posttranslational modification] 1316932000533 PTS system mannose-specific transporter subunit IIC; Provisional; Region: PRK15065 1316932000534 PTS system mannose/fructose/sorbose family IID component; Region: EIID-AGA; cl01507 1316932000535 hypothetical protein; Provisional; Region: PRK02913 1316932000536 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 1316932000537 triosephosphate isomerase; Provisional; Region: PRK14567 1316932000538 substrate binding site [chemical binding]; other site 1316932000539 dimer interface [polypeptide binding]; other site 1316932000540 catalytic triad [active] 1316932000541 tRNA pseudouridine synthase D; Reviewed; Region: truD; PRK00984 1316932000542 Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi); Region: PseudoU_synth; cl00130 1316932000543 active site 1316932000544 Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi); Region: PseudoU_synth; cl00130 1316932000545 5'(3')-nucleotidase/polyphosphatase; Provisional; Region: surE; PRK00346 1316932000546 Predicted membrane protein [Function unknown]; Region: COG1238 1316932000547 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 1316932000548 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 1316932000549 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 1316932000550 Peptidase family M23; Region: Peptidase_M23; pfam01551 1316932000551 Methyladenine glycosylase; Region: Adenine_glyco; pfam03352 1316932000552 acyl carrier protein; Provisional; Region: acpP; PRK00982 1316932000553 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 1316932000554 ribulose-phosphate 3-epimerase; Region: rpe; TIGR01163 1316932000555 substrate binding site [chemical binding]; other site 1316932000556 hexamer interface [polypeptide binding]; other site 1316932000557 metal binding site [ion binding]; metal-binding site 1316932000558 50S ribosomal protein L31 type B; Reviewed; Region: rpmE2; PRK01678 1316932000559 50S ribosomal protein L36; Validated; Region: rpmJ; PRK00831 1316932000560 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 1316932000561 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 1316932000562 substrate binding pocket [chemical binding]; other site 1316932000563 membrane-bound complex binding site; other site 1316932000564 hinge residues; other site 1316932000565 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 1316932000566 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 1316932000567 dimer interface [polypeptide binding]; other site 1316932000568 conserved gate region; other site 1316932000569 putative PBP binding loops; other site 1316932000570 ABC-ATPase subunit interface; other site 1316932000571 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 1316932000572 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 1316932000573 Walker A/P-loop; other site 1316932000574 ATP binding site [chemical binding]; other site 1316932000575 Q-loop/lid; other site 1316932000576 ABC transporter signature motif; other site 1316932000577 Walker B; other site 1316932000578 D-loop; other site 1316932000579 H-loop/switch region; other site 1316932000580 YGGT family; Region: YGGT; pfam02325 1316932000581 YGGT family; Region: YGGT; pfam02325 1316932000582 hypothetical protein; Provisional; Region: PRK11702 1316932000583 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 1316932000584 S-adenosylmethionine binding site [chemical binding]; other site 1316932000585 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK09352 1316932000586 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 1316932000587 dimer interface [polypeptide binding]; other site 1316932000588 active site 1316932000589 CoA binding pocket [chemical binding]; other site 1316932000590 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 1316932000591 dimer interface [polypeptide binding]; other site 1316932000592 allosteric magnesium binding site [ion binding]; other site 1316932000593 active site 1316932000594 aspartate-rich active site metal binding site; other site 1316932000595 Schiff base residues; other site 1316932000596 Sec-independent protein translocase protein (TatC); Region: TatC; cl00521 1316932000597 mttA/Hcf106 family; Region: MttA_Hcf106; cl00788 1316932000598 mttA/Hcf106 family; Region: MttA_Hcf106; cl00788 1316932000599 putative ubiquinone biosynthesis protein UbiB; Reviewed; Region: ubiB; PRK04750 1316932000600 2-polyprenylphenol 6-hydroxylase; Region: UbiB; TIGR01982 1316932000601 Protein of unknown function (DUF1016); Region: DUF1016; pfam06250 1316932000602 Predicted nuclease of restriction endonuclease-like fold [General function prediction only]; Region: COG4804 1316932000603 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3165 1316932000604 SCP-2 sterol transfer family; Region: SCP2; pfam02036 1316932000605 Methylase involved in ubiquinone/menaquinone biosynthesis [Coenzyme metabolism]; Region: UbiE; COG2226 1316932000606 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 1316932000607 S-adenosylmethionine binding site [chemical binding]; other site 1316932000608 Mg2+ and Co2+ transporters [Inorganic ion transport and metabolism]; Region: CorA; COG0598 1316932000609 Escherichia coli Mg2+ transporter CorA_like subgroup; Region: EcCorA-like_1; cd12835 1316932000610 Cl binding site [ion binding]; other site 1316932000611 oligomer interface [polypeptide binding]; other site 1316932000612 Domain of unknown function (DUF4153); Region: DUF4153; pfam13687 1316932000613 cryptic beta-D-galactosidase subunit alpha; Reviewed; Region: ebgA; PRK10340 1316932000614 Glycosyl hydrolases family 2, sugar binding domain; Region: Glyco_hydro_2_N; pfam02837 1316932000615 Glycosyl hydrolases family 2; Region: Glyco_hydro_2; pfam00703 1316932000616 Glycosyl hydrolases family 2, TIM barrel domain; Region: Glyco_hydro_2_C; pfam02836 1316932000617 Beta galactosidase small chain; Region: Bgal_small_N; smart01038 1316932000618 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 1316932000619 Enoyl-CoA hydratase/isomerase family; Region: ECH; pfam00378 1316932000620 substrate binding site [chemical binding]; other site 1316932000621 oxyanion hole (OAH) forming residues; other site 1316932000622 trimer interface [polypeptide binding]; other site 1316932000623 penicillin-binding protein 1B; Region: PBP_1b; TIGR02071 1316932000624 Transglycosylase; Region: Transgly; pfam00912 1316932000625 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 1316932000626 DNA-binding ferritin-like protein (oxidative damage protectant) [Inorganic ion transport and metabolism]; Region: Dps; COG0783 1316932000627 DPS protein, ferritin-like diiron-binding domain; Region: DPS; cd01043 1316932000628 dimerization interface [polypeptide binding]; other site 1316932000629 DPS ferroxidase diiron center [ion binding]; other site 1316932000630 ion pore; other site 1316932000631 Predicted O-methyltransferase [General function prediction only]; Region: COG4123 1316932000632 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 1316932000633 S-adenosylmethionine binding site [chemical binding]; other site 1316932000634 ornithine carbamoyltransferase; Provisional; Region: PRK01713 1316932000635 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 1316932000636 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 1316932000637 Predicted epimerase, PhzC/PhzF homolog [General function prediction only]; Region: COG0384 1316932000638 Anaerobic C4-dicarboxylate transporter [General function prediction only]; Region: DcuB; COG2704 1316932000639 anaerobic C4-dicarboxylate transporter; Reviewed; Region: PRK12489 1316932000640 Predicted membrane protein [Function unknown]; Region: COG2259 1316932000641 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1316932000642 active site 1316932000643 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 1316932000644 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 1316932000645 active site 1316932000646 motif I; other site 1316932000647 motif II; other site 1316932000648 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 1316932000649 EamA-like transporter family; Region: EamA; cl17759 1316932000650 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 1316932000651 EamA-like transporter family; Region: EamA; pfam00892 1316932000652 50S ribosomal protein L27; Validated; Region: rpmA; PRK05435 1316932000653 50S ribosomal protein L21/unknown domain fusion protein; Provisional; Region: PRK12278 1316932000654 50S ribosomal protein L21; Validated; Region: rplU; PRK05573 1316932000655 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 1316932000656 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 1316932000657 substrate binding pocket [chemical binding]; other site 1316932000658 chain length determination region; other site 1316932000659 substrate-Mg2+ binding site; other site 1316932000660 catalytic residues [active] 1316932000661 aspartate-rich region 1; other site 1316932000662 active site lid residues [active] 1316932000663 aspartate-rich region 2; other site 1316932000664 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1636 1316932000665 (acyl-carrier-protein) S-malonyltransferase [Lipid metabolism]; Region: FabD; COG0331 1316932000666 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 1316932000667 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 1316932000668 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 1316932000669 NAD(P) binding site [chemical binding]; other site 1316932000670 homotetramer interface [polypeptide binding]; other site 1316932000671 homodimer interface [polypeptide binding]; other site 1316932000672 active site 1316932000673 Branched-chain amino acid permeases [Amino acid transport and metabolism]; Region: BrnQ; COG1114 1316932000674 formamidopyrimidine/5-formyluracil/ 5-hydroxymethyluracil DNA glycosylase; Validated; Region: PRK01103 1316932000675 N-terminal domain of Escherichia coli Fpg1/MutM and related bacterial DNA glycosylases; Region: EcFpg-like_N; cd08966 1316932000676 DNA binding site [nucleotide binding] 1316932000677 catalytic residue [active] 1316932000678 H2TH interface [polypeptide binding]; other site 1316932000679 putative catalytic residues [active] 1316932000680 turnover-facilitating residue; other site 1316932000681 intercalation triad [nucleotide binding]; other site 1316932000682 8OG recognition residue [nucleotide binding]; other site 1316932000683 putative reading head residues; other site 1316932000684 Formamidopyrimidine-DNA glycosylase H2TH domain; Region: H2TH; pfam06831 1316932000685 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 1316932000686 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 1316932000687 putative active site [active] 1316932000688 dimerization interface [polypeptide binding]; other site 1316932000689 putative tRNAtyr binding site [nucleotide binding]; other site 1316932000690 hypothetical protein; Reviewed; Region: PRK01637 1316932000691 Gamma-glutamyl phosphate reductase (GPR), aldehyde dehydrogenase families 18 and 19; Region: ALDH_F18-19_ProA-GPR; cd07079 1316932000692 gamma-glutamyl phosphate reductase; Region: proA; TIGR00407 1316932000693 putative catalytic cysteine [active] 1316932000694 DNA mismatch repair protein MutL; Region: mutl; TIGR00585 1316932000695 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 1316932000696 ATP binding site [chemical binding]; other site 1316932000697 Mg2+ binding site [ion binding]; other site 1316932000698 G-X-G motif; other site 1316932000699 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 1316932000700 ATP binding site [chemical binding]; other site 1316932000701 MutL C terminal dimerisation domain; Region: MutL_C; pfam08676 1316932000702 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3041 1316932000703 RelB antitoxin; Region: RelB; cl01171 1316932000704 tRNA delta(2)-isopentenylpyrophosphate transferase; Reviewed; Region: miaA; PRK00091 1316932000705 tRNA delta(2)-isopentenylpyrophosphate transferase [Translation, ribosomal structure and biogenesis]; Region: MiaA; COG0324 1316932000706 bacterial Hfq-like; Region: Hfq; cd01716 1316932000707 hexamer interface [polypeptide binding]; other site 1316932000708 Sm1 motif; other site 1316932000709 RNA binding site [nucleotide binding]; other site 1316932000710 Sm2 motif; other site 1316932000711 GTPase HflX; Provisional; Region: PRK11058 1316932000712 GTP-binding GTPase N-terminal; Region: GTP-bdg_N; pfam13167 1316932000713 HflX GTPase family; Region: HflX; cd01878 1316932000714 G1 box; other site 1316932000715 GTP/Mg2+ binding site [chemical binding]; other site 1316932000716 Switch I region; other site 1316932000717 G2 box; other site 1316932000718 G3 box; other site 1316932000719 Switch II region; other site 1316932000720 G4 box; other site 1316932000721 G5 box; other site 1316932000722 Extended Signal Peptide of Type V secretion system; Region: ESPR; pfam13018 1316932000723 YadA-like, left-handed beta-roll; Region: LbR_YadA-like; cd12820 1316932000724 trimer interface [polypeptide binding]; other site 1316932000725 YadA-like, left-handed beta-roll; Region: LbR_YadA-like; cd12820 1316932000726 trimer interface [polypeptide binding]; other site 1316932000727 YadA-like, left-handed beta-roll; Region: LbR_YadA-like; cd12820 1316932000728 trimer interface [polypeptide binding]; other site 1316932000729 Collagen triple helix repeat (20 copies); Region: Collagen; pfam01391 1316932000730 Collagen triple helix repeat (20 copies); Region: Collagen; pfam01391 1316932000731 Autotransporter adhesin [Intracellular trafficking and secretion / Extracellular structures]; Region: Hia; COG5295 1316932000732 YadA-like C-terminal region; Region: YadA; pfam03895 1316932000733 Nitrogen regulatory protein PII [Amino acid transport and metabolism]; Region: GlnK; COG0347 1316932000734 Nitrogen regulatory protein P-II; Region: P-II; smart00938 1316932000735 molecular chaperone DnaK; Provisional; Region: dnaK; PRK00290 1316932000736 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 1316932000737 nucleotide binding site [chemical binding]; other site 1316932000738 chaperone protein DnaJ; Provisional; Region: PRK10767 1316932000739 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 1316932000740 HSP70 interaction site [polypeptide binding]; other site 1316932000741 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cl03262 1316932000742 substrate binding site [polypeptide binding]; other site 1316932000743 Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cd10719 1316932000744 Zn binding sites [ion binding]; other site 1316932000745 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 1316932000746 dimer interface [polypeptide binding]; other site 1316932000747 Catalase [Inorganic ion transport and metabolism]; Region: KatE; COG0753 1316932000748 Clade 3 of the heme-binding enzyme catalase; Region: catalase_clade_3; cd08156 1316932000749 tetramer interface [polypeptide binding]; other site 1316932000750 heme binding pocket [chemical binding]; other site 1316932000751 NADPH binding site [chemical binding]; other site 1316932000752 SirA, YedF, and YeeD. Two-layered alpha/beta sandwich domain. SirA (also known as UvrY, and YhhP) belongs to a family of bacterial two-component response regulators that controls secondary metabolism and virulence. The other member of this...; Region: SirA_YedF_YeeD; cd00291 1316932000753 CPxP motif; other site 1316932000754 putative selenium metabolism protein, YedE family; Region: seleno_YedE; TIGR04112 1316932000755 NhaP-type Na+/H+ and K+/H+ antiporters [Inorganic ion transport and metabolism]; Region: NhaP; COG0025 1316932000756 succinyl-diaminopimelate desuccinylase; Reviewed; Region: PRK13009 1316932000757 M20 Peptidase proteobacterial DapE encoded N-succinyl-L,L-diaminopimelic acid desuccinylase; Region: M20_DapE_proteobac; cd03891 1316932000758 metal binding site [ion binding]; metal-binding site 1316932000759 dimer interface [polypeptide binding]; other site 1316932000760 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 1316932000761 ArsC family; Region: ArsC; pfam03960 1316932000762 putative catalytic residues [active] 1316932000763 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 1316932000764 dihydropteroate synthase; Region: DHPS; TIGR01496 1316932000765 substrate binding pocket [chemical binding]; other site 1316932000766 dimer interface [polypeptide binding]; other site 1316932000767 inhibitor binding site; inhibition site 1316932000768 23S rRNA pseudouridylate synthase C; Provisional; Region: PRK11025 1316932000769 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 1316932000770 RNA binding surface [nucleotide binding]; other site 1316932000771 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 1316932000772 active site 1316932000773 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 1316932000774 Conserved TM helix; Region: TM_helix; pfam05552 1316932000775 Mechanosensitive ion channel; Region: MS_channel; pfam00924 1316932000776 ribonuclease activity regulator protein RraA; Provisional; Region: PRK09372 1316932000777 Patatin-like phospholipase; Region: Patatin; pfam01734 1316932000778 active site 1316932000779 nucleophile elbow; other site 1316932000780 Predicted flavoprotein [General function prediction only]; Region: COG0431 1316932000781 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 1316932000782 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1316932000783 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1316932000784 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 1316932000785 dimerization interface [polypeptide binding]; other site 1316932000786 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 1316932000787 Old yellow enzyme (OYE) YqjM-like FMN binding domain. YqjM is involved in the oxidative stress response of Bacillus subtilis. Like the other OYE members, each monomer of YqjM contains FMN as a non-covalently bound cofactor and uses NADPH as a reducing...; Region: OYE_YqiM_FMN; cd02932 1316932000788 active site 1316932000789 FMN binding site [chemical binding]; other site 1316932000790 substrate binding site [chemical binding]; other site 1316932000791 homotetramer interface [polypeptide binding]; other site 1316932000792 catalytic residue [active] 1316932000793 NAD(P)H:FMN oxidoreductase family. This domain catalyzes the reduction of flavin, nitrocompound, quinones and azo compounds using NADH or NADPH as an electron donor. The enzyme is a homodimer, and each monomer binds a FMN as co-factor. This family...; Region: NfsB_like_nitroreductase; cd02149 1316932000794 dimer interface [polypeptide binding]; other site 1316932000795 FMN binding site [chemical binding]; other site 1316932000796 Protein of unknown function, DUF606; Region: DUF606; pfam04657 1316932000797 Protein of unknown function, DUF606; Region: DUF606; pfam04657 1316932000798 Medium chain dehydrogenases/reductase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR2; cd08268 1316932000799 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 1316932000800 putative NAD(P) binding site [chemical binding]; other site 1316932000801 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1316932000802 Metallo-beta-lactamase superfamily; Region: Lactamase_B; pfam00753 1316932000803 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 1316932000804 luciferase-type oxidoreductase, BA3436 family; Region: lucif_BA3436; TIGR03571 1316932000805 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 1316932000806 Zn-dependent alcohol dehydrogenases [General function prediction only]; Region: AdhP; COG1064 1316932000807 Cinnamyl alcohol dehydrogenases (CAD); Region: CAD1; cd05283 1316932000808 putative NAD(P) binding site [chemical binding]; other site 1316932000809 putative substrate binding site [chemical binding]; other site 1316932000810 catalytic Zn binding site [ion binding]; other site 1316932000811 structural Zn binding site [ion binding]; other site 1316932000812 dimer interface [polypeptide binding]; other site 1316932000813 S-formylglutathione hydrolase; Region: fghA_ester_D; TIGR02821 1316932000814 S-formylglutathione hydrolase; Region: PLN02442 1316932000815 L-lactate dehydrogenase; Provisional; Region: lldD; PRK11197 1316932000816 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 1316932000817 phosphate binding site [ion binding]; other site 1316932000818 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 1316932000819 putative active site [active] 1316932000820 Ap4A binding site [chemical binding]; other site 1316932000821 nudix motif; other site 1316932000822 putative metal binding site [ion binding]; other site 1316932000823 ATP synthase B/B' CF(0); Region: ATP-synt_B; cl17192 1316932000824 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 1316932000825 prolipoprotein diacylglyceryl transferase; Reviewed; Region: PRK00052 1316932000826 phosphoglycolate phosphatase; Provisional; Region: PRK13222 1316932000827 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 1316932000828 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 1316932000829 motif II; other site 1316932000830 Antidote-toxin recognition MazE; Region: Antitoxin-MazE; cl00877 1316932000831 PemK-like protein; Region: PemK; pfam02452 1316932000832 tryptophanyl-tRNA synthetase II; Reviewed; Region: PRK12282 1316932000833 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 1316932000834 active site 1316932000835 HIGH motif; other site 1316932000836 dimer interface [polypeptide binding]; other site 1316932000837 KMSKS motif; other site 1316932000838 Peptidase family M48; Region: Peptidase_M48; pfam01435 1316932000839 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 1316932000840 dimer interface [polypeptide binding]; other site 1316932000841 substrate binding site [chemical binding]; other site 1316932000842 metal binding sites [ion binding]; metal-binding site 1316932000843 Aminodeoxychorismate lyase [Coenzyme transport and metabolism]; Region: COG1559 1316932000844 proteins similar to Escherichia coli yceG; Region: yceG_like; cd08010 1316932000845 dimerization interface [polypeptide binding]; other site 1316932000846 thymidylate kinase; Validated; Region: tmk; PRK00698 1316932000847 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 1316932000848 TMP-binding site; other site 1316932000849 ATP-binding site [chemical binding]; other site 1316932000850 DNA polymerase III subunit delta'; Validated; Region: PRK06871 1316932000851 DNA polymerase III subunit delta'; Validated; Region: PRK08485 1316932000852 DNA polymerase III, delta subunit, C terminal; Region: DNApol3-delta_C; pfam09115 1316932000853 putative addiction module antidote protein, CC2985 family; Region: antidote_CC2985; TIGR02606 1316932000854 Plasmid stabilization system protein [General function prediction only]; Region: ParE; COG3668 1316932000855 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 1316932000856 Predicted metal-dependent hydrolases with the TIM-barrel fold [General function prediction only]; Region: COG1099 1316932000857 active site 1316932000858 Protein of unknown function (DUF1523); Region: DUF1523; pfam07509 1316932000859 Escherichia coli YbbF/LpxH and related proteins, metallophosphatase domain; Region: MPP_YbbF-LpxH; cd07398 1316932000860 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 1316932000861 putative active site [active] 1316932000862 putative metal binding site [ion binding]; other site 1316932000863 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 1316932000864 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 1316932000865 active site 1316932000866 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 1316932000867 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1316932000868 DNA-binding site [nucleotide binding]; DNA binding site 1316932000869 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 1316932000870 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1316932000871 homodimer interface [polypeptide binding]; other site 1316932000872 catalytic residue [active] 1316932000873 pyridoxal 5'-phosphate synthase, synthase subunit Pdx1; Region: TIGR00343 1316932000874 PdxS is a subunit of the pyridoxal 5'-phosphate (PLP) synthase, an important enzyme in deoxyxylulose 5-phosphate (DXP)-independent pathway for de novo biosynthesis of PLP, present in some eubacteria, in archaea, fungi, plants, plasmodia, and some...; Region: pdxS; cd04727 1316932000875 active site 1316932000876 multimer interface [polypeptide binding]; other site 1316932000877 Glutamine Amidotransferase (GATase_I) involved in pyridoxine biosynthesis; Region: GATase1_PB; cd01749 1316932000878 predicted active site [active] 1316932000879 catalytic triad [active] 1316932000880 transaldolase-like protein; Provisional; Region: PTZ00411 1316932000881 Transaldolases including both TalA and TalB; Region: Transaldolase_TalAB; cd00957 1316932000882 active site 1316932000883 dimer interface [polypeptide binding]; other site 1316932000884 catalytic residue [active] 1316932000885 Glycine zipper 2TM domain; Region: Rick_17kDa_Anti; cl10470 1316932000886 Outer membrane lipoprotein [Cell envelope biogenesis, outer membrane]; Region: SlyB; COG3133 1316932000887 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 1316932000888 putative metal binding site [ion binding]; other site 1316932000889 Arginyl-tRNA synthetase [Translation, ribosomal structure and biogenesis]; Region: ArgS; COG0018 1316932000890 Arginyl tRNA synthetase N terminal dom; Region: Arg_tRNA_synt_N; smart01016 1316932000891 catalytic core domain of arginyl-tRNA synthetases; Region: ArgRS_core; cd00671 1316932000892 active site 1316932000893 HIGH motif; other site 1316932000894 KMSK motif region; other site 1316932000895 Anticodon-binding domain of arginyl tRNA synthetases; Region: Anticodon_Ia_Arg; cd07956 1316932000896 tRNA binding surface [nucleotide binding]; other site 1316932000897 anticodon binding site; other site 1316932000898 GTPase CgtA; Reviewed; Region: obgE; PRK12298 1316932000899 GTP1/OBG; Region: GTP1_OBG; pfam01018 1316932000900 Obg GTPase; Region: Obg; cd01898 1316932000901 G1 box; other site 1316932000902 GTP/Mg2+ binding site [chemical binding]; other site 1316932000903 Switch I region; other site 1316932000904 G2 box; other site 1316932000905 G3 box; other site 1316932000906 Switch II region; other site 1316932000907 G4 box; other site 1316932000908 G5 box; other site 1316932000909 Glucose-6-phosphate 1-dehydrogenase (EC 1.1.1.49); Region: G6PD_bact; pfam10786 1316932000910 c-type cytochrome biogenesis protein CcmF; Region: nrfE; TIGR00353 1316932000911 cytochrome c-type biogenesis protein CcmE; Reviewed; Region: PRK13165 1316932000912 Heme exporter protein D [Intracellular trafficking and secretion]; Region: CcmD; COG3114 1316932000913 heme exporter protein CcmC; Region: ccmC; TIGR01191 1316932000914 heme exporter protein CcmB; Region: ccmB; TIGR01190 1316932000915 cytochrome c biogenesis protein CcmA; Provisional; Region: PRK13538 1316932000916 Cytochrome c biogenesis ATP-binding export protein; Region: ABC_CcmA_heme_exporter; cd03231 1316932000917 Walker A/P-loop; other site 1316932000918 ATP binding site [chemical binding]; other site 1316932000919 Q-loop/lid; other site 1316932000920 ABC transporter signature motif; other site 1316932000921 Walker B; other site 1316932000922 D-loop; other site 1316932000923 H-loop/switch region; other site 1316932000924 DNA replication initiation factor; Validated; Region: PRK06893 1316932000925 ATPase involved in DNA replication initiation [DNA replication, recombination, and repair]; Region: DnaA; COG0593 1316932000926 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 1316932000927 The substrate-binding component of an ABC-type dipeptide import system contains the type 2 periplasmic binding fold; Region: PBP2_DppA_like; cd08493 1316932000928 peptide binding site [polypeptide binding]; other site 1316932000929 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 1316932000930 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 1316932000931 dimer interface [polypeptide binding]; other site 1316932000932 conserved gate region; other site 1316932000933 putative PBP binding loops; other site 1316932000934 ABC-ATPase subunit interface; other site 1316932000935 dipeptide transporter; Provisional; Region: PRK10913 1316932000936 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 1316932000937 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 1316932000938 dimer interface [polypeptide binding]; other site 1316932000939 conserved gate region; other site 1316932000940 putative PBP binding loops; other site 1316932000941 ABC-ATPase subunit interface; other site 1316932000942 dipeptide transporter ATP-binding subunit; Provisional; Region: dppD; PRK11022 1316932000943 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1316932000944 Walker A/P-loop; other site 1316932000945 ATP binding site [chemical binding]; other site 1316932000946 Q-loop/lid; other site 1316932000947 ABC transporter signature motif; other site 1316932000948 Walker B; other site 1316932000949 D-loop; other site 1316932000950 H-loop/switch region; other site 1316932000951 oligopeptide/dipeptide ABC transporter, ATP-binding protein, C-terminal domain; Region: oligo_HPY; TIGR01727 1316932000952 dipeptide transporter ATP-binding subunit; Provisional; Region: dppF; PRK11308 1316932000953 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1316932000954 Walker A/P-loop; other site 1316932000955 ATP binding site [chemical binding]; other site 1316932000956 Q-loop/lid; other site 1316932000957 ABC transporter signature motif; other site 1316932000958 Walker B; other site 1316932000959 D-loop; other site 1316932000960 H-loop/switch region; other site 1316932000961 oligopeptide/dipeptide ABC transporter, ATP-binding protein, C-terminal domain; Region: oligo_HPY; TIGR01727 1316932000962 RNA polymerase sigma factor; Provisional; Region: PRK12530 1316932000963 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1316932000964 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 1316932000965 DNA binding residues [nucleotide binding] 1316932000966 Peptide methionine sulfoxide reductase [Posttranslational modification, protein turnover, chaperones]; Region: MsrA; COG0225 1316932000967 Conserved domain frequently associated with peptide methionine sulfoxide reductase [Posttranslational modification, protein turnover, chaperones]; Region: COG0229; cl15841 1316932000968 Winged helix-turn helix; Region: HTH_29; pfam13551 1316932000969 Helix-turn-helix domain; Region: HTH_28; pfam13518 1316932000970 Homeodomain-like domain; Region: HTH_32; pfam13565 1316932000971 Integrase core domain; Region: rve; pfam00665 1316932000972 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 1316932000973 Integrase core domain; Region: rve_3; pfam13683 1316932000974 Peptidase family S49 N-terminal; Region: Peptidase_S49_N; pfam08496 1316932000975 putative inner membrane peptidase; Provisional; Region: PRK11778 1316932000976 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 1316932000977 tandem repeat interface [polypeptide binding]; other site 1316932000978 oligomer interface [polypeptide binding]; other site 1316932000979 active site residues [active] 1316932000980 lipid-A-disaccharide synthase; Reviewed; Region: lpxB; PRK00025 1316932000981 ipid-A-disaccharide synthase; Provisional; Region: PRK14089 1316932000982 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 1316932000983 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 1316932000984 eyelet of channel; other site 1316932000985 trimer interface [polypeptide binding]; other site 1316932000986 Winged helix-turn helix; Region: HTH_29; pfam13551 1316932000987 Helix-turn-helix domain; Region: HTH_28; pfam13518 1316932000988 Homeodomain-like domain; Region: HTH_32; pfam13565 1316932000989 Integrase core domain; Region: rve; pfam00665 1316932000990 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 1316932000991 Integrase core domain; Region: rve_3; pfam13683 1316932000992 Teichoic acid biosynthesis proteins [Cell envelope biogenesis, outer membrane]; Region: WecG; COG1922 1316932000993 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 1316932000994 WzyE protein; Region: WzyE; cl11643 1316932000995 4-alpha-L-fucosyltransferase glycosyl transferase group 56; Region: Glyco_transf_56; pfam07429 1316932000996 glutamine synthetase; Provisional; Region: glnA; PRK09469 1316932000997 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 1316932000998 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 1316932000999 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 1316932001000 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 1316932001001 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 1316932001002 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 1316932001003 inhibitor-cofactor binding pocket; inhibition site 1316932001004 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1316932001005 catalytic residue [active] 1316932001006 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 1316932001007 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1316932001008 Coenzyme A binding pocket [chemical binding]; other site 1316932001009 UDP-N-acetyl-D-mannosamine dehydrogenase; Provisional; Region: wecC; PRK11064 1316932001010 Ketopantoate reductase PanE/ApbA; Region: ApbA; pfam02558 1316932001011 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 1316932001012 UDP binding domain; Region: UDPG_MGDP_dh_C; smart00984 1316932001013 Chain length determinant protein [Cell envelope biogenesis, outer membrane]; Region: WzzB; COG3765 1316932001014 undecaprenyl-phosphate alpha-N-acetylglucosaminyl 1-phosphatetransferase; Region: ECA_wecA; TIGR02380 1316932001015 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 1316932001016 Mg++ binding site [ion binding]; other site 1316932001017 putative catalytic motif [active] 1316932001018 substrate binding site [chemical binding]; other site 1316932001019 glutamate-1-semialdehyde aminotransferase; Provisional; Region: PRK00062 1316932001020 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 1316932001021 inhibitor-cofactor binding pocket; inhibition site 1316932001022 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1316932001023 catalytic residue [active] 1316932001024 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 1316932001025 RT_G2_intron: Reverse transcriptases (RTs) with group II intron origin. RT transcribes DNA using RNA as template. Proteins in this subfamily are found in bacterial and mitochondrial group II introns. Their most probable ancestor was a retrotransposable...; Region: RT_G2_intron; cd01651 1316932001026 putative active site [active] 1316932001027 putative NTP binding site [chemical binding]; other site 1316932001028 putative nucleic acid binding site [nucleotide binding]; other site 1316932001029 DNA-directed RNA polymerase, beta' subunit/160 kD subunit [Transcription]; Region: RpoC; COG0086 1316932001030 RNA polymerase Rpb1, domain 1; Region: RNA_pol_Rpb1_1; pfam04997 1316932001031 RNA polymerase I subunit A N-terminus; Region: RPOLA_N; smart00663 1316932001032 RNA polymerase Rpb1, domain 3; Region: RNA_pol_Rpb1_3; pfam04983 1316932001033 RNA polymerase Rpb1, domain 4; Region: RNA_pol_Rpb1_4; pfam05000 1316932001034 RNA polymerase Rpb1, domain 5; Region: RNA_pol_Rpb1_5; pfam04998 1316932001035 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 1316932001036 Rpb1 - Rpb6 interaction site [polypeptide binding]; other site 1316932001037 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 1316932001038 Rpb1 - Rpb6 interaction site [polypeptide binding]; other site 1316932001039 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 1316932001040 DNA binding site [nucleotide binding] 1316932001041 Rpb1 (beta') - Rpb2 (beta) interaction site [polypeptide binding]; other site 1316932001042 DNA-directed RNA polymerase subunit beta; Reviewed; Region: rpoB; PRK00405 1316932001043 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 1316932001044 RNA polymerase Rpb2, domain 2; Region: RNA_pol_Rpb2_2; pfam04561 1316932001045 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 1316932001046 RNA polymerase Rpb2, domain 6; Region: RNA_pol_Rpb2_6; pfam00562 1316932001047 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 1316932001048 RPB1 interaction site [polypeptide binding]; other site 1316932001049 RPB11 interaction site [polypeptide binding]; other site 1316932001050 RPB10 interaction site [polypeptide binding]; other site 1316932001051 RPB3 interaction site [polypeptide binding]; other site 1316932001052 DsrH like protein; Region: DsrH; cl17347 1316932001053 sulfur relay protein TusC/DsrF; Region: sulf_tusC_dsrF; TIGR03010 1316932001054 sulfur transfer complex subunit TusD; Validated; Region: PRK00207 1316932001055 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2964 1316932001056 YheO-like PAS domain; Region: PAS_6; pfam08348 1316932001057 HTH domain; Region: HTH_22; pfam13309 1316932001058 FKBP-type peptidyl-prolyl cis-trans isomerase; Provisional; Region: PRK10902 1316932001059 Domain amino terminal to FKBP-type peptidyl-prolyl isomerase; Region: FKBP_N; pfam01346 1316932001060 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 1316932001061 SlyX; Region: SlyX; cl01090 1316932001062 5'-methylthioadenosine/S-adenosylhomocysteine nucleosidase; Validated; Region: PRK05584 1316932001063 5'-methylthioadenosine/S-adenosylhomocysteine nucleosidase; Region: MTA/SAH-Nsdase; TIGR01704 1316932001064 ribosomal protein S12 methylthiotransferase; Provisional; Region: rimO; PRK14862 1316932001065 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 1316932001066 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 1316932001067 FeS/SAM binding site; other site 1316932001068 Glycosyl transferases group 1; Region: Glyco_trans_1_4; pfam13692 1316932001069 Na+ dependent nucleoside transporter C-terminus; Region: Nucleos_tra2_C; pfam07662 1316932001070 Na+ dependent nucleoside transporter N-terminus; Region: Nucleos_tra2_N; pfam01773 1316932001071 Nucleoside recognition; Region: Gate; pfam07670 1316932001072 glycine radical enzyme activase, YjjW family; Region: activase_YjjW; TIGR04041 1316932001073 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 1316932001074 FeS/SAM binding site; other site 1316932001075 glycine radical enzyme, YjjI family; Region: glycyl_YjjI; TIGR04040 1316932001076 Pyruvate formate lyase; Region: PFL; pfam02901 1316932001077 Pleckstrin homology-like domain; Region: PH-like; cl17171 1316932001078 Predicted hydrolase of the alpha/beta superfamily [General function prediction only]; Region: COG2819 1316932001079 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 1316932001080 core dimer interface [polypeptide binding]; other site 1316932001081 peripheral dimer interface [polypeptide binding]; other site 1316932001082 L10 interface [polypeptide binding]; other site 1316932001083 L11 interface [polypeptide binding]; other site 1316932001084 putative EF-Tu interaction site [polypeptide binding]; other site 1316932001085 putative EF-G interaction site [polypeptide binding]; other site 1316932001086 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 1316932001087 23S rRNA interface [nucleotide binding]; other site 1316932001088 Interface with L7/L12 ribosomal proteins [polypeptide binding]; other site 1316932001089 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK06816 1316932001090 "initiating" condensing enzymes are a subclass of decarboxylating condensing enzymes, including beta-ketoacyl [ACP] synthase, type III and polyketide synthases, type III, which include chalcone synthase and related enzymes. They are...; Region: init_cond_enzymes; cd00827 1316932001091 dimer interface [polypeptide binding]; other site 1316932001092 active site 1316932001093 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 1316932001094 3-oxoacyl-(acyl carrier protein) synthase II; Reviewed; Region: PRK09116 1316932001095 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 1316932001096 dimer interface [polypeptide binding]; other site 1316932001097 active site 1316932001098 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1316932001099 3-oxoacyl-(acyl-carrier-protein) reductase, putative; Region: fabG_rel; TIGR01831 1316932001100 NAD(P) binding site [chemical binding]; other site 1316932001101 active site 1316932001102 Predicted transcriptional regulator containing an HTH domain and an uncharacterized domain shared with the mammalian protein Schlafen [Transcription]; Region: COG2865 1316932001103 Divergent AAA domain; Region: AAA_4; pfam04326 1316932001104 ATP-dependent DNA helicase recG C-terminal; Region: HATPase_c_4; pfam13749 1316932001105 Domain of unknown function, appears to be related to a diverse group of beta-hydroxydecanoyl ACP dehydratases (FabA) and beta-hydroxyacyl ACP dehydratases (FabZ). This group appears to lack the conserved active site histidine of FabA and FabZ; Region: FabA_like; cd01289 1316932001106 putative active site 1 [active] 1316932001107 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 1316932001108 dimer interface [polypeptide binding]; other site 1316932001109 active site 1316932001110 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 1316932001111 mRNA/rRNA interface [nucleotide binding]; other site 1316932001112 50S ribosomal protein L11; Validated; Region: rplK; PRK00140 1316932001113 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 1316932001114 23S rRNA interface [nucleotide binding]; other site 1316932001115 L7/L12 interface [polypeptide binding]; other site 1316932001116 putative thiostrepton binding site; other site 1316932001117 L25 interface [polypeptide binding]; other site 1316932001118 transcription antitermination protein NusG; Validated; Region: nusG; PRK05609 1316932001119 Bacterial N-Utilization Substance G (NusG) N-terminal (NGN) domain, subgroup 1; Region: NGN_Bact_1; cd09891 1316932001120 putative homodimer interface [polypeptide binding]; other site 1316932001121 NusG contains an NGN domain at its N-terminus and KOW motif at its C-terminus; Region: KOW_NusG; cd06091 1316932001122 heterodimer interface [polypeptide binding]; other site 1316932001123 homodimer interface [polypeptide binding]; other site 1316932001124 preprotein translocase subunit SecE; Reviewed; Region: secE; PRK05740 1316932001125 Transcriptional regulators [Transcription]; Region: PurR; COG1609 1316932001126 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 1316932001127 DNA binding site [nucleotide binding] 1316932001128 domain linker motif; other site 1316932001129 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 1316932001130 putative ligand binding site [chemical binding]; other site 1316932001131 putative dimerization interface [polypeptide binding]; other site 1316932001132 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 1316932001133 active site 1316932001134 P-loop; other site 1316932001135 phosphorylation site [posttranslational modification] 1316932001136 PTS system sugar-specific permease component; Region: EIIC-GAT; cl04451 1316932001137 PTS system sugar-specific permease component; Region: EIIC-GAT; cl04451 1316932001138 Predicted Rossmann fold nucleotide-binding protein involved in DNA uptake [DNA replication, recombination, and repair / Intracellular trafficking and secretion]; Region: Smf; COG0758 1316932001139 DNA protecting protein DprA; Region: dprA; TIGR00732 1316932001140 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 1316932001141 active site 1316932001142 catalytic residues [active] 1316932001143 metal binding site [ion binding]; metal-binding site 1316932001144 ADP-L-glycero-D-mannoheptose 6-epimerase (GME), extended (e) SDRs; Region: ADP_GME_SDR_e; cd05248 1316932001145 ADP-L-glycero-D-mannoheptose-6-epimerase; Provisional; Region: rfaD; PRK11150 1316932001146 NADP binding site [chemical binding]; other site 1316932001147 homopentamer interface [polypeptide binding]; other site 1316932001148 substrate binding site [chemical binding]; other site 1316932001149 active site 1316932001150 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 1316932001151 active site 1 [active] 1316932001152 dimer interface [polypeptide binding]; other site 1316932001153 active site 2 [active] 1316932001154 Predicted ATP-dependent protease [Posttranslational modification, protein turnover, chaperones]; Region: LonB; COG1067 1316932001155 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 1316932001156 Organiser of macrodomain of Terminus of chromosome; Region: MatP; pfam06303 1316932001157 outer membrane protein A; Reviewed; Region: PRK10808 1316932001158 OmpA-like transmembrane domain; Region: OmpA_membrane; pfam01389 1316932001159 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 1316932001160 ligand binding site [chemical binding]; other site 1316932001161 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 1316932001162 FAD binding domain; Region: FAD_binding_4; pfam01565 1316932001163 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 1316932001164 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 1316932001165 CoenzymeA binding site [chemical binding]; other site 1316932001166 subunit interaction site [polypeptide binding]; other site 1316932001167 PHB binding site; other site 1316932001168 membrane protein insertase; Provisional; Region: PRK01318 1316932001169 membrane protein insertase, YidC/Oxa1 family, C-terminal domain; Region: yidC_oxa1_cterm; TIGR03592 1316932001170 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 1316932001171 dimer interface [polypeptide binding]; other site 1316932001172 catalytic triad [active] 1316932001173 peroxidatic and resolving cysteines [active] 1316932001174 1-acyl-sn-glycerol-3-phosphate acyltransferase; Provisional; Region: PRK15018 1316932001175 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 1316932001176 putative acyl-acceptor binding pocket; other site 1316932001177 FtsI repressor; Provisional; Region: PRK10883 1316932001178 Multicopper oxidase; Region: Cu-oxidase_3; pfam07732 1316932001179 Multicopper oxidase; Region: Cu-oxidase; pfam00394 1316932001180 acetyl-CoA carboxylase carboxyltransferase subunit alpha; Validated; Region: PRK05724 1316932001181 acetyl-CoA carboxylase carboxyltransferase alpha subunit; Provisional; Region: accA; CHL00198 1316932001182 pyridoxamine kinase; Validated; Region: PRK05756 1316932001183 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 1316932001184 dimer interface [polypeptide binding]; other site 1316932001185 pyridoxal binding site [chemical binding]; other site 1316932001186 ATP binding site [chemical binding]; other site 1316932001187 Autotransporter beta-domain; Region: Autotransporter; pfam03797 1316932001188 Peptidase S8 family domain in Autotransporter serine proteases; Region: Peptidases_S8_Autotransporter_serine_protease_like; cd04848 1316932001189 catalytic triad [active] 1316932001190 putative active site [active] 1316932001191 autotransporter-associated beta strand repeat; Region: autotrns_rpt; TIGR02601 1316932001192 L-ribulose-5-phosphate 4-epimerase; Reviewed; Region: araD; PRK08193 1316932001193 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 1316932001194 intersubunit interface [polypeptide binding]; other site 1316932001195 active site 1316932001196 Zn2+ binding site [ion binding]; other site 1316932001197 putative L-xylulose 5-phosphate 3-epimerase; Reviewed; Region: PRK13210 1316932001198 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 1316932001199 AP (apurinic/apyrimidinic) site pocket; other site 1316932001200 DNA interaction; other site 1316932001201 Metal-binding active site; metal-binding site 1316932001202 transcriptional repressor UlaR; Provisional; Region: PRK13509 1316932001203 DeoR-like helix-turn-helix domain; Region: HTH_DeoR; cl17531 1316932001204 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 1316932001205 putative L-ascorbate 6-phosphate lactonase; Provisional; Region: PRK11709 1316932001206 Predicted Zn-dependent hydrolases of the beta-lactamase fold [General function prediction only]; Region: COG2220 1316932001207 PTS system ascorbate-specific transporter subunits IICB; Provisional; Region: PRK09548 1316932001208 Uncharacterized protein conserved in bacteria [Function unknown]; Region: SgaT; COG3037 1316932001209 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 1316932001210 active site 1316932001211 P-loop; other site 1316932001212 phosphorylation site [posttranslational modification] 1316932001213 Escherichia coli CpdB and related proteins, N-terminal metallophosphatase domain; Region: MPP_CpdB_N; cd07410 1316932001214 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 1316932001215 active site 1316932001216 metal binding site [ion binding]; metal-binding site 1316932001217 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 1316932001218 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 1316932001219 active site 1316932001220 phosphorylation site [posttranslational modification] 1316932001221 3-Keto-L-gulonate 6-phosphate decarboxylase (KGPDC) and D-arabino-3-hexulose-6-phosphate synthase (HPS). KGPDC catalyzes the formation of L-xylulose 5-phosphate and carbon dioxide from 3-keto-L-gulonate 6-phosphate as part of the anaerobic pathway for...; Region: KGPDC_HPS; cd04726 1316932001222 active site 1316932001223 dimer interface [polypeptide binding]; other site 1316932001224 magnesium binding site [ion binding]; other site 1316932001225 Glycerate kinase [Carbohydrate transport and metabolism]; Region: COG1929 1316932001226 H+/gluconate symporter and related permeases [Carbohydrate transport and metabolism / Amino acid transport and metabolism]; Region: GntT; COG2610 1316932001227 fructuronate transporter; Provisional; Region: PRK10034; cl15264 1316932001228 Sugar diacid utilization regulator [Transcription / Signal transduction mechanisms]; Region: CdaR; COG3835 1316932001229 Putative sugar diacid recognition; Region: Diacid_rec; pfam05651 1316932001230 PucR C-terminal helix-turn-helix domain; Region: HTH_30; pfam13556 1316932001231 Domain of unknown function DUF302; Region: DUF302; cl01364 1316932001232 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4947 1316932001233 Putative esterase; Region: Esterase; pfam00756 1316932001234 ATP-grasp domain; Region: ATP-grasp_4; pfam13535 1316932001235 Motif C-terminal to PAS motifs (likely to contribute to PAS structural domain); Region: PAC; smart00086 1316932001236 Sulfite reductase, alpha subunit (flavoprotein) [Inorganic ion transport and metabolism]; Region: CysJ; COG0369 1316932001237 Flavodoxin; Region: Flavodoxin_1; pfam00258 1316932001238 Ferredoxin reductase (FNR), an FAD and NAD(P) binding protein, was intially identified as a chloroplast reductase activity, catalyzing the electron transfer from reduced iron-sulfur protein ferredoxin to NADP+ as the final step in the electron transport...; Region: FNR_like; cl06868 1316932001239 FAD binding pocket [chemical binding]; other site 1316932001240 conserved FAD binding motif [chemical binding]; other site 1316932001241 phosphate binding motif [ion binding]; other site 1316932001242 beta-alpha-beta structure motif; other site 1316932001243 NAD binding pocket [chemical binding]; other site 1316932001244 30S ribosomal protein S17; Reviewed; Region: rpsQ; PRK05610 1316932001245 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 1316932001246 23S rRNA interface [nucleotide binding]; other site 1316932001247 putative translocon interaction site; other site 1316932001248 signal recognition particle (SRP54) interaction site; other site 1316932001249 L23 interface [polypeptide binding]; other site 1316932001250 trigger factor interaction site; other site 1316932001251 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 1316932001252 23S rRNA interface [nucleotide binding]; other site 1316932001253 5S rRNA interface [nucleotide binding]; other site 1316932001254 putative antibiotic binding site [chemical binding]; other site 1316932001255 L25 interface [polypeptide binding]; other site 1316932001256 L27 interface [polypeptide binding]; other site 1316932001257 30S ribosomal protein S3; Reviewed; Region: rpsC; PRK00310 1316932001258 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 1316932001259 G-X-X-G motif; other site 1316932001260 Ribosomal protein S3, C-terminal domain; Region: Ribosomal_S3_C; pfam00189 1316932001261 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 1316932001262 protein-rRNA interface [nucleotide binding]; other site 1316932001263 putative translocon binding site; other site 1316932001264 30S ribosomal protein S19; Reviewed; Region: rpsS; PRK00357 1316932001265 50S ribosomal protein L2; Validated; Region: rplB; PRK09374 1316932001266 Ribosomal Proteins L2, RNA binding domain; Region: Ribosomal_L2; pfam00181 1316932001267 Ribosomal Proteins L2, C-terminal domain; Region: Ribosomal_L2_C; pfam03947 1316932001268 50S ribosomal protein L23; Reviewed; Region: rplW; PRK05738 1316932001269 50S ribosomal protein L4; Provisional; Region: rplD; PRK05319 1316932001270 50S ribosomal protein L3; Validated; Region: rplC; PRK00001 1316932001271 30S ribosomal protein S10; Reviewed; Region: rpsJ; PRK00596 1316932001272 TfoX N-terminal domain; Region: TfoX_N; cl17592 1316932001273 TfoX C-terminal domain; Region: TfoX_C; pfam04994 1316932001274 fumarate hydratase; Reviewed; Region: fumC; PRK00485 1316932001275 Class II fumarases; Region: Fumarase_classII; cd01362 1316932001276 active site 1316932001277 tetramer interface [polypeptide binding]; other site 1316932001278 diaminopimelate decarboxylase; Region: lysA; TIGR01048 1316932001279 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Diaminopimelate Decarboxylase; Region: PLPDE_III_DapDC; cd06828 1316932001280 active site 1316932001281 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 1316932001282 substrate binding site [chemical binding]; other site 1316932001283 catalytic residues [active] 1316932001284 dimer interface [polypeptide binding]; other site 1316932001285 glutathionine S-transferase; Provisional; Region: PRK10542 1316932001286 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 1316932001287 C-terminal domain interface [polypeptide binding]; other site 1316932001288 GSH binding site (G-site) [chemical binding]; other site 1316932001289 dimer interface [polypeptide binding]; other site 1316932001290 C-terminal, alpha helical domain of Class Beta Glutathione S-transferases; Region: GST_C_Beta; cd03188 1316932001291 dimer interface [polypeptide binding]; other site 1316932001292 N-terminal domain interface [polypeptide binding]; other site 1316932001293 substrate binding pocket (H-site) [chemical binding]; other site 1316932001294 protease TldD; Provisional; Region: tldD; PRK10735 1316932001295 Ribosomal protein L11 methyltransferase (PrmA); Region: PrmA; pfam06325 1316932001296 Methyltransferase domain; Region: Methyltransf_18; pfam12847 1316932001297 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 1316932001298 Iron-sulfur protein interface; other site 1316932001299 proximal quinone binding site [chemical binding]; other site 1316932001300 C-subunit interface; other site 1316932001301 distal quinone binding site; other site 1316932001302 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 1316932001303 D-subunit interface [polypeptide binding]; other site 1316932001304 Iron-sulfur protein interface; other site 1316932001305 proximal quinone binding site [chemical binding]; other site 1316932001306 distal quinone binding site [chemical binding]; other site 1316932001307 fumarate reductase iron-sulfur subunit; Provisional; Region: PRK12385 1316932001308 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 1316932001309 catalytic loop [active] 1316932001310 iron binding site [ion binding]; other site 1316932001311 fumarate reductase flavoprotein subunit; Validated; Region: PRK09231 1316932001312 L-aspartate oxidase; Provisional; Region: PRK06175 1316932001313 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 1316932001314 poxB regulator PoxA; Provisional; Region: PRK09350 1316932001315 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 1316932001316 motif 1; other site 1316932001317 dimer interface [polypeptide binding]; other site 1316932001318 active site 1316932001319 motif 2; other site 1316932001320 motif 3; other site 1316932001321 Predicted permeases [General function prediction only]; Region: RarD; COG2962 1316932001322 EamA-like transporter family; Region: EamA; pfam00892 1316932001323 2-acyl-glycerophospho-ethanolamine acyltransferase; Validated; Region: PRK08633 1316932001324 sugar phosphate antiporter; Reviewed; Region: uhpT; PRK09556 1316932001325 BCCT family transporter; Region: BCCT; pfam02028 1316932001326 Putative protein-S-isoprenylcysteine methyltransferase [Posttranslational modification, protein turnover, chaperones]; Region: STE14; COG2020 1316932001327 Uncharacterized membrane protein, putative virulence factor [General function prediction only]; Region: MviN; COG0728 1316932001328 MurJ/MviN, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_MurJ_like; cd13123 1316932001329 30S ribosomal protein S20; Reviewed; Region: rpsT; PRK00239 1316932001330 large-conductance mechanosensitive channel; Provisional; Region: mscL; PRK13952 1316932001331 large-conductance mechanosensitive channel; Reviewed; Region: mscL; PRK00567 1316932001332 Flavodoxin domain; Region: Flavodoxin_5; cl17428 1316932001333 Cation transport protein; Region: TrkH; cl17365 1316932001334 potassium uptake protein, TrkH family; Region: 2a38; TIGR00933 1316932001335 hypothetical protein; Provisional; Region: PRK11568 1316932001336 Uncharacterized protein family UPF0029; Region: UPF0029; pfam01205 1316932001337 Domain of unknown function (DUF1949); Region: DUF1949; pfam09186 1316932001338 methionyl-tRNA formyltransferase; Reviewed; Region: fmt; PRK00005 1316932001339 Methionyl-tRNA formyltransferase, N-terminal hydrolase domain; Region: FMT_core_Met-tRNA-FMT_N; cd08646 1316932001340 putative active site [active] 1316932001341 substrate binding site [chemical binding]; other site 1316932001342 putative cosubstrate binding site; other site 1316932001343 catalytic site [active] 1316932001344 C-terminal domain of Formyltransferase and other enzymes; Region: Met_tRNA_FMT_C; cd08704 1316932001345 substrate binding site [chemical binding]; other site 1316932001346 putative molybdenum transport ATP-binding protein ModF; Provisional; Region: PRK10938 1316932001347 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1316932001348 Walker A/P-loop; other site 1316932001349 ATP binding site [chemical binding]; other site 1316932001350 Q-loop/lid; other site 1316932001351 ABC transporter signature motif; other site 1316932001352 Walker B; other site 1316932001353 D-loop; other site 1316932001354 H-loop/switch region; other site 1316932001355 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1316932001356 Walker A/P-loop; other site 1316932001357 ATP binding site [chemical binding]; other site 1316932001358 Q-loop/lid; other site 1316932001359 ABC transporter signature motif; other site 1316932001360 Walker B; other site 1316932001361 D-loop; other site 1316932001362 H-loop/switch region; other site 1316932001363 Protein of unknown function, DUF479; Region: DUF479; cl01203 1316932001364 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 1316932001365 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 1316932001366 ABC-ATPase subunit interface; other site 1316932001367 dimer interface [polypeptide binding]; other site 1316932001368 putative PBP binding regions; other site 1316932001369 Winged helix-turn helix; Region: HTH_29; pfam13551 1316932001370 Helix-turn-helix domain; Region: HTH_28; pfam13518 1316932001371 Homeodomain-like domain; Region: HTH_32; pfam13565 1316932001372 Integrase core domain; Region: rve; pfam00665 1316932001373 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 1316932001374 Integrase core domain; Region: rve_3; pfam13683 1316932001375 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 1316932001376 Walker A/P-loop; other site 1316932001377 ATP binding site [chemical binding]; other site 1316932001378 ABC transporter; Region: ABC_tran; pfam00005 1316932001379 Q-loop/lid; other site 1316932001380 ABC transporter signature motif; other site 1316932001381 Walker B; other site 1316932001382 D-loop; other site 1316932001383 H-loop/switch region; other site 1316932001384 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 1316932001385 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 1316932001386 intersubunit interface [polypeptide binding]; other site 1316932001387 lipoyl synthase; Provisional; Region: PRK05481 1316932001388 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 1316932001389 FeS/SAM binding site; other site 1316932001390 lipoate-protein ligase B; Provisional; Region: PRK14342 1316932001391 hypothetical protein; Provisional; Region: PRK04998 1316932001392 D-alanyl-D-alanine carboxypeptidase fraction A; Provisional; Region: PRK10793 1316932001393 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 1316932001394 Penicillin-binding protein 5, C-terminal domain; Region: PBP5_C; smart00936 1316932001395 Lipoproteins [Cell envelope biogenesis, outer membrane]; Region: RlpA; COG0797 1316932001396 Rare lipoprotein A (RlpA)-like double-psi beta-barrel; Region: DPBB_1; pfam03330 1316932001397 Cell cycle protein; Region: FTSW_RODA_SPOVE; cl00511 1316932001398 penicillin-binding protein 2; Region: pbp2_mrdA; TIGR03423 1316932001399 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 1316932001400 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 1316932001401 rRNA large subunit methyltransferase; Provisional; Region: PRK00103 1316932001402 Oligomerisation domain; Region: Oligomerisation; cl00519 1316932001403 EamA-like transporter family; Region: EamA; cl17759 1316932001404 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 1316932001405 EamA-like transporter family; Region: EamA; pfam00892 1316932001406 mannonate dehydratase; Provisional; Region: PRK03906 1316932001407 mannonate dehydratase; Region: uxuA; TIGR00695 1316932001408 DNA-binding transcriptional repressor UxuR; Provisional; Region: PRK10225 1316932001409 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1316932001410 DNA-binding site [nucleotide binding]; DNA binding site 1316932001411 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 1316932001412 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 1316932001413 Alcohol dehydrogenases of the MDR family; Region: Zn_ADH7; cd08261 1316932001414 putative NAD(P) binding site [chemical binding]; other site 1316932001415 catalytic Zn binding site [ion binding]; other site 1316932001416 structural Zn binding site [ion binding]; other site 1316932001417 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 1316932001418 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; pfam03480 1316932001419 TRAP-type C4-dicarboxylate transport system, small permease component [Carbohydrate transport and metabolism]; Region: DctM; COG3090 1316932001420 DctM-like transporters; Region: DctM; pfam06808 1316932001421 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; COG1593 1316932001422 D-mannonate oxidoreductase; Provisional; Region: PRK08277 1316932001423 putative D-mannonate oxidoreductase, classical (c) SDR; Region: mannonate_red_SDR_c; cd08935 1316932001424 putative NAD(P) binding site [chemical binding]; other site 1316932001425 active site 1316932001426 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 1316932001427 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 1316932001428 substrate binding site [chemical binding]; other site 1316932001429 ATP binding site [chemical binding]; other site 1316932001430 keto-hydroxyglutarate-aldolase/keto-deoxy- phosphogluconate aldolase; Provisional; Region: PRK05718 1316932001431 KDPG and KHG aldolase; Region: KDPG_aldolase; cd00452 1316932001432 active site 1316932001433 intersubunit interface [polypeptide binding]; other site 1316932001434 catalytic residue [active] 1316932001435 Protein of unknown function (DUF560); Region: DUF560; pfam04575 1316932001436 DNA mismatch repair protein MutS; Provisional; Region: PRK05399 1316932001437 MutS domain I; Region: MutS_I; pfam01624 1316932001438 MutS domain II; Region: MutS_II; pfam05188 1316932001439 MutS domain III; Region: MutS_III; pfam05192 1316932001440 ATP-binding cassette domain of MutS1 homolog; Region: ABC_MutS1; cd03284 1316932001441 Walker A/P-loop; other site 1316932001442 ATP binding site [chemical binding]; other site 1316932001443 Q-loop/lid; other site 1316932001444 ABC transporter signature motif; other site 1316932001445 Walker B; other site 1316932001446 D-loop; other site 1316932001447 H-loop/switch region; other site 1316932001448 Helix-hairpin-helix motif; Region: HHH_3; pfam12836 1316932001449 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cl14786 1316932001450 Domain amino terminal to FKBP-type peptidyl-prolyl isomerase; Region: FKBP_N; pfam01346 1316932001451 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 1316932001452 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 1316932001453 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 1316932001454 catalytic residues [active] 1316932001455 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 1316932001456 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3676 1316932001457 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3676 1316932001458 tRNA modification GTPase TrmE; Reviewed; Region: trmE; PRK05291 1316932001459 GTP-binding protein TrmE N-terminus; Region: TrmE_N; pfam10396 1316932001460 trmE is a tRNA modification GTPase; Region: trmE; cd04164 1316932001461 G1 box; other site 1316932001462 GTP/Mg2+ binding site [chemical binding]; other site 1316932001463 Switch I region; other site 1316932001464 G2 box; other site 1316932001465 Switch II region; other site 1316932001466 G3 box; other site 1316932001467 G4 box; other site 1316932001468 G5 box; other site 1316932001469 Catalytic cysteine-containing C-terminus of GTPase, MnmE; Region: GTPase_Cys_C; pfam12631 1316932001470 tRNA(Ile)-lysidine synthetase; Provisional; Region: tilS; PRK10660 1316932001471 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 1316932001472 Ligand Binding Site [chemical binding]; other site 1316932001473 TilS substrate binding domain; Region: TilS; pfam09179 1316932001474 TilS substrate C-terminal domain; Region: TilS_C; pfam11734 1316932001475 site-specific tyrosine recombinase XerD; Reviewed; Region: xerD; PRK00283 1316932001476 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 1316932001477 active site 1316932001478 Int/Topo IB signature motif; other site 1316932001479 glutamate racemase; Provisional; Region: PRK00865 1316932001480 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 1316932001481 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 1316932001482 Chorismate lyase; Region: Chor_lyase; cl01230 1316932001483 uridine phosphorylase; Provisional; Region: PRK11178 1316932001484 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 1316932001485 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 1316932001486 motif II; other site 1316932001487 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 1316932001488 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 1316932001489 active site 1316932001490 prolyl-tRNA synthetase; Provisional; Region: PRK09194 1316932001491 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 1316932001492 dimer interface [polypeptide binding]; other site 1316932001493 motif 1; other site 1316932001494 active site 1316932001495 motif 2; other site 1316932001496 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 1316932001497 putative deacylase active site [active] 1316932001498 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 1316932001499 active site 1316932001500 motif 3; other site 1316932001501 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 1316932001502 anticodon binding site; other site 1316932001503 heat shock protein 90; Provisional; Region: PRK05218 1316932001504 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 1316932001505 ATP binding site [chemical binding]; other site 1316932001506 Mg2+ binding site [ion binding]; other site 1316932001507 G-X-G motif; other site 1316932001508 Antitoxin Phd_YefM, type II toxin-antitoxin system; Region: PhdYeFM_antitox; pfam02604 1316932001509 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 1316932001510 oligomeric interface; other site 1316932001511 putative active site [active] 1316932001512 homodimer interface [polypeptide binding]; other site 1316932001513 ATP-dependent DNA helicase RecG; Provisional; Region: PRK10917 1316932001514 Pathogenicity locus; Region: Cdd1; pfam11731 1316932001515 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 1316932001516 generic binding surface II; other site 1316932001517 ssDNA binding site; other site 1316932001518 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 1316932001519 ATP binding site [chemical binding]; other site 1316932001520 putative Mg++ binding site [ion binding]; other site 1316932001521 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 1316932001522 nucleotide binding region [chemical binding]; other site 1316932001523 ATP-binding site [chemical binding]; other site 1316932001524 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; cl00226 1316932001525 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; cl00226 1316932001526 active site 1316932001527 phosphoglucomutase-2-like protein; Provisional; Region: PTZ00150 1316932001528 This CD includes PGM2 (phosphoglucomutase 2) and PGM2L1 (phosphoglucomutase 2-like 1). The mammalian PGM2 is thought to be a phosphopentomutase that catalyzes the conversion of the nucleoside breakdown products, ribose-1-phosphate and...; Region: PGM2; cd05799 1316932001529 active site 1316932001530 substrate binding site [chemical binding]; other site 1316932001531 metal binding site [ion binding]; metal-binding site 1316932001532 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 1316932001533 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 1316932001534 P-loop; other site 1316932001535 Magnesium ion binding site [ion binding]; other site 1316932001536 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 1316932001537 Magnesium ion binding site [ion binding]; other site 1316932001538 Capsule polysaccharide export protein [Cell envelope biogenesis, outer membrane]; Region: KpsS; COG3562 1316932001539 Capsule polysaccharide biosynthesis protein; Region: Capsule_synth; pfam05159 1316932001540 Capsule polysaccharide export protein [Cell envelope biogenesis, outer membrane]; Region: KpsC; COG3563 1316932001541 UDP-N-acetylglucosamine 2-epimerase [Cell envelope biogenesis, outer membrane]; Region: WecB; COG0381 1316932001542 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 1316932001543 active site 1316932001544 homodimer interface [polypeptide binding]; other site 1316932001545 UDP-N-acetyl-D-mannosamine dehydrogenase; Provisional; Region: wecC; PRK11064 1316932001546 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 1316932001547 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 1316932001548 UDP binding domain; Region: UDPG_MGDP_dh_C; smart00984 1316932001549 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4641 1316932001550 Glycosyl transferases group 1; Region: Glyco_trans_1_2; pfam13524 1316932001551 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 1316932001552 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4641 1316932001553 Glycosyl transferases group 1; Region: Glyco_trans_1_2; pfam13524 1316932001554 Periplasmic protein involved in polysaccharide export, contains SLBB domain of b-grasp fold [Cell wall/membrane/envelope biogenesis]; Region: Wza; COG1596 1316932001555 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 1316932001556 polysaccharide export inner-membrane protein, BexC/CtrB/KpsE family; Region: BexC_CtrB_KpsE; TIGR01010 1316932001557 ABC-type polysaccharide/polyol phosphate export systems, permease component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: TagG; COG1682 1316932001558 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 1316932001559 ABC-type polysaccharide/polyol phosphate transport system, ATPase component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: TagH; COG1134 1316932001560 ATP-binding cassette component of polysaccharide transport system; Region: ABC_KpsT_Wzt; cd03220 1316932001561 Walker A/P-loop; other site 1316932001562 ATP binding site [chemical binding]; other site 1316932001563 Q-loop/lid; other site 1316932001564 ABC transporter signature motif; other site 1316932001565 Walker B; other site 1316932001566 D-loop; other site 1316932001567 H-loop/switch region; other site 1316932001568 Protein of unknown function (DUF533); Region: DUF533; pfam04391 1316932001569 tellurium resistance terB-like protein, subgroup 3; Region: terB_like_YebE; cd07178 1316932001570 putative metal binding site [ion binding]; other site 1316932001571 hypothetical protein; Provisional; Region: PRK01752 1316932001572 SEC-C motif; Region: SEC-C; pfam02810 1316932001573 SEC-C motif; Region: SEC-C; pfam02810 1316932001574 tRNA uridine 5-carboxymethylaminomethyl modification enzyme GidA; Validated; Region: PRK05192 1316932001575 tRNA:m(5)U-54 methyltransferase; Region: gid_trmFO; TIGR00137 1316932001576 NAD(FAD)-utilizing enzyme possibly involved in translation [Translation, ribosomal structure and biogenesis]; Region: Gid; COG1206 1316932001577 GidA associated domain 3; Region: GIDA_assoc_3; pfam13932 1316932001578 Predicted S-adenosylmethionine-dependent methyltransferase involved in bacterial cell division [Cell envelope biogenesis, outer membrane]; Region: GidB; COG0357 1316932001579 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 1316932001580 S-adenosylmethionine binding site [chemical binding]; other site 1316932001581 Na+/melibiose symporter and related transporters [Carbohydrate transport and metabolism]; Region: MelB; COG2211 1316932001582 melibiose:sodium symporter; Provisional; Region: PRK10429; cl15392 1316932001583 Beta-xylosidase [Carbohydrate transport and metabolism]; Region: XynB; COG3507 1316932001584 Glycosyl hydrolase family 43, beta-D-xylosidase; Region: GH43_XYL_1; cd09000 1316932001585 inhibitor binding site; inhibition site 1316932001586 active site 1316932001587 Protein of unknown function (DUF1349); Region: DUF1349; cl01397 1316932001588 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 1316932001589 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 1316932001590 active site 1316932001591 catalytic tetrad [active] 1316932001592 sn-glycerol-3-phosphate transporter; Provisional; Region: glpT; PRK11273 1316932001593 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 1316932001594 putative substrate translocation pore; other site 1316932001595 glycerophosphodiester phosphodiesterase; Provisional; Region: glpQ; PRK11143 1316932001596 Glycerophosphodiester phosphodiesterase domain of Escherichia coli (GlpQ) and similar proteins; Region: GDPD_EcGlpQ_like; cd08600 1316932001597 active site 1316932001598 catalytic site [active] 1316932001599 metal binding site [ion binding]; metal-binding site 1316932001600 glycerol-3-phosphate transporter; Region: glpT; TIGR00712 1316932001601 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 1316932001602 putative substrate translocation pore; other site 1316932001603 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 1316932001604 Glycerol-3-phosphate dehydrogenase [Energy production and conversion]; Region: GlpA; COG0578 1316932001605 Bacterial protein of unknown function (DUF883); Region: DUF883; pfam05957 1316932001606 Sugar (pentulose and hexulose) kinases [Carbohydrate transport and metabolism]; Region: XylB; COG1070 1316932001607 L-xylulose kinases; a subfamily of the FGGY family of carbohydrate kinases; Region: FGGY_L-XK; cd07802 1316932001608 putative N- and C-terminal domain interface [polypeptide binding]; other site 1316932001609 putative active site [active] 1316932001610 MgATP binding site [chemical binding]; other site 1316932001611 catalytic site [active] 1316932001612 metal binding site [ion binding]; metal-binding site 1316932001613 putative xylulose binding site [chemical binding]; other site 1316932001614 SMP-30/Gluconolaconase/LRE-like region; Region: SGL; pfam08450 1316932001615 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 1316932001616 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 1316932001617 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 1316932001618 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1316932001619 TM-ABC transporter signature motif; other site 1316932001620 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 1316932001621 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 1316932001622 Walker A/P-loop; other site 1316932001623 ATP binding site [chemical binding]; other site 1316932001624 Q-loop/lid; other site 1316932001625 ABC transporter signature motif; other site 1316932001626 Walker B; other site 1316932001627 D-loop; other site 1316932001628 H-loop/switch region; other site 1316932001629 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 1316932001630 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 1316932001631 tripartite ATP-independent periplasmic transporter solute receptor, DctP family; Region: dctP; TIGR00787 1316932001632 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 1316932001633 tripartite ATP-independent periplasmic transporter solute receptor, DctP family; Region: dctP; TIGR00787 1316932001634 DctM-like transporters; Region: DctM; pfam06808 1316932001635 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; cl17274 1316932001636 TRAP-type C4-dicarboxylate transport system, small permease component [Carbohydrate transport and metabolism]; Region: DctM; COG3090 1316932001637 Domain of unknown function (DUF386); Region: DUF386; cl01047 1316932001638 2,3-diketo-L-gulonate reductase; Provisional; Region: PRK13260 1316932001639 L-fucose isomerase (FucIase) and L-arabinose isomerase (AI) family; composed of FucIase, AI and similar proteins. FucIase converts L-fucose, an aldohexose, to its ketose form, which prepares it for aldol cleavage (similar to the isomerization of glucose...; Region: L-fuc_L-ara-isomerases; cl00947 1316932001640 substrate binding site [chemical binding]; other site 1316932001641 Mn binding site [ion binding]; other site 1316932001642 carbamoyl phosphate synthase large subunit; Reviewed; Region: carB; PRK05294 1316932001643 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 1316932001644 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 1316932001645 Carbamoyl-phosphate synthetase large chain, oligomerisation domain; Region: CPSase_L_D3; pfam02787 1316932001646 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 1316932001647 ATP-grasp domain; Region: ATP-grasp_4; cl17255 1316932001648 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 1316932001649 IMP binding site; other site 1316932001650 dimer interface [polypeptide binding]; other site 1316932001651 interdomain contacts; other site 1316932001652 partial ornithine binding site; other site 1316932001653 carbamoyl phosphate synthase small subunit; Reviewed; Region: PRK12564 1316932001654 Carbamoyl-phosphate synthase small chain, CPSase domain; Region: CPSase_sm_chain; smart01097 1316932001655 Small chain of the glutamine-dependent form of carbamoyl phosphate synthase, CPSase II; Region: GATase1_CPSase; cd01744 1316932001656 catalytic site [active] 1316932001657 subunit interface [polypeptide binding]; other site 1316932001658 F0F1 ATP synthase subunit I; Validated; Region: PRK06099 1316932001659 F0F1-type ATP synthase, subunit a [Energy production and conversion]; Region: AtpB; COG0356 1316932001660 F0F1 ATP synthase subunit A; Validated; Region: PRK05815 1316932001661 F0F1 ATP synthase subunit C; Validated; Region: PRK06876 1316932001662 F0F1 ATP synthase subunit B; Validated; Region: PRK05759 1316932001663 F0F1-type ATP synthase, subunit b [Energy production and conversion]; Region: AtpF; COG0711 1316932001664 F0F1 ATP synthase subunit delta; Validated; Region: PRK05758 1316932001665 ATP synthase delta (OSCP) subunit; Region: OSCP; pfam00213 1316932001666 F0F1 ATP synthase subunit alpha; Validated; Region: PRK09281 1316932001667 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 1316932001668 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 1316932001669 beta subunit interaction interface [polypeptide binding]; other site 1316932001670 Walker A motif; other site 1316932001671 ATP binding site [chemical binding]; other site 1316932001672 Walker B motif; other site 1316932001673 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 1316932001674 mitochondrial ATP synthase gamma subunit; Region: F1-ATPase_gamma; cd12151 1316932001675 core domain interface [polypeptide binding]; other site 1316932001676 delta subunit interface [polypeptide binding]; other site 1316932001677 epsilon subunit interface [polypeptide binding]; other site 1316932001678 F0F1 ATP synthase subunit beta; Validated; Region: PRK09280 1316932001679 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 1316932001680 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 1316932001681 alpha subunit interaction interface [polypeptide binding]; other site 1316932001682 Walker A motif; other site 1316932001683 ATP binding site [chemical binding]; other site 1316932001684 Walker B motif; other site 1316932001685 inhibitor binding site; inhibition site 1316932001686 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 1316932001687 F0F1 ATP synthase subunit epsilon; Validated; Region: atpC; PRK00571 1316932001688 mitochondrial ATP synthase delta subunit; Region: F1-ATPase_delta; cd12152 1316932001689 gamma subunit interface [polypeptide binding]; other site 1316932001690 epsilon subunit interface [polypeptide binding]; other site 1316932001691 LBP interface [polypeptide binding]; other site 1316932001692 Asparagine synthetase (aspartate-ammonia ligase) (AsnA) catalyses the conversion of L-aspartate to L-asparagine in the presence of ATP and ammonia. AsnA is a homodimeric enzyme which is structurally similiar to the catalytic core domain of class II...; Region: AsnA; cd00645 1316932001693 dimer interface [polypeptide binding]; other site 1316932001694 active site 1316932001695 DNA-binding transcriptional regulator AsnC; Provisional; Region: PRK11179 1316932001696 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 1316932001697 dimerization interface [polypeptide binding]; other site 1316932001698 putative DNA binding site [nucleotide binding]; other site 1316932001699 putative Zn2+ binding site [ion binding]; other site 1316932001700 AsnC family; Region: AsnC_trans_reg; pfam01037 1316932001701 FMN-binding protein MioC; Provisional; Region: PRK09004 1316932001702 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 1316932001703 The substrate-binding component of an ABC-type dipeptide import system contains the type 2 periplasmic binding fold; Region: PBP2_DppA_like; cd08493 1316932001704 peptide binding site [polypeptide binding]; other site 1316932001705 Pectate lyase superfamily protein; Region: Pectate_lyase_3; pfam12708 1316932001706 Uncharacterized protein conserved in bacteria (DUF2313); Region: DUF2313; pfam10076 1316932001707 Phage-related minor tail protein; Region: PhageMin_Tail; pfam10145 1316932001708 Phage tail tube protein; Region: Tail_tube; pfam10618 1316932001709 Phage tail sheath protein; Region: Phage_sheath_1; cl01389 1316932001710 Mu DNA-binding domain; Region: HTH_Tnp_Mu_1; pfam02316 1316932001711 Winged helix-turn-helix DNA-binding; Region: HTH_35; cl17423 1316932001712 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 1316932001713 sequence-specific DNA binding site [nucleotide binding]; other site 1316932001714 Predicted transcriptional regulator [Transcription]; Region: COG2932 1316932001715 salt bridge; other site 1316932001716 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 1316932001717 Catalytic site [active] 1316932001718 N-acetylneuraminate lyase; Provisional; Region: PRK04147 1316932001719 N-Acetylneuraminic acid aldolase, also called N-acetylneuraminate lyase (NAL); Region: NAL; cd00954 1316932001720 inhibitor site; inhibition site 1316932001721 active site 1316932001722 dimer interface [polypeptide binding]; other site 1316932001723 catalytic residue [active] 1316932001724 N-acetylmannosamine kinase; Provisional; Region: PRK05082 1316932001725 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 1316932001726 nucleotide binding site [chemical binding]; other site 1316932001727 Putative N-acetylmannosamine-6-phosphate epimerase [Carbohydrate transport and metabolism]; Region: NanE; COG3010 1316932001728 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 1316932001729 putative active site cavity [active] 1316932001730 selenocysteine synthase; Provisional; Region: PRK04311 1316932001731 Selenocysteine synthase N terminal; Region: Se-cys_synth_N; pfam12390 1316932001732 Selenocysteine synthase [seryl-tRNASer selenium transferase] [Amino acid transport and metabolism]; Region: SelA; COG1921 1316932001733 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1316932001734 catalytic residue [active] 1316932001735 pyridoxamine 5'-phosphate oxidase; Provisional; Region: PRK05679 1316932001736 Pyridoxamine 5'-phosphate oxidase; Region: Pyridox_oxidase; pfam01243 1316932001737 Pyridoxine 5'-phosphate oxidase C-terminal dimerisation region; Region: PNPOx_C; pfam10590 1316932001738 Plasmid stabilisation system protein; Region: Plasmid_stabil; cl17483 1316932001739 selenocysteinyl-tRNA-specific translation factor; Provisional; Region: PRK10512 1316932001740 SelB, the dedicated elongation factor for delivery of selenocysteinyl-tRNA to the ribosome; Region: SelB; cd04171 1316932001741 G1 box; other site 1316932001742 putative GEF interaction site [polypeptide binding]; other site 1316932001743 GTP/Mg2+ binding site [chemical binding]; other site 1316932001744 Switch I region; other site 1316932001745 G2 box; other site 1316932001746 G3 box; other site 1316932001747 Switch II region; other site 1316932001748 G4 box; other site 1316932001749 G5 box; other site 1316932001750 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 1316932001751 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 1316932001752 Elongation factor SelB, winged helix; Region: SelB-wing_2; pfam09106 1316932001753 Elongation factor SelB, winged helix; Region: SelB-wing_3; pfam09107 1316932001754 TRAP transporter solute receptor, TAXI family; Region: TRAP_TAXI; TIGR02122 1316932001755 TRAP-type uncharacterized transport system, periplasmic component [General function prediction only]; Region: Imp; COG2358 1316932001756 TRAP-type uncharacterized transport system, fused permease components [General function prediction only]; Region: COG4666 1316932001757 DctM-like transporters; Region: DctM; pfam06808 1316932001758 TRAP-type uncharacterized transport system, fused permease components [General function prediction only]; Region: COG4666 1316932001759 Domain of unknown function (DUF3394); Region: DUF3394; pfam11874 1316932001760 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 1316932001761 Ligand Binding Site [chemical binding]; other site 1316932001762 16S rRNA methyltransferase B; Provisional; Region: PRK10901 1316932001763 RNA binding domain of NusB (N protein-Utilization Substance B) and Sun (also known as RrmB or Fmu) proteins. This family includes two orthologous groups exemplified by the transcription termination factor NusB and the N-terminal domain of the...; Region: NusB_Sun; cl00223 1316932001764 putative RNA binding site [nucleotide binding]; other site 1316932001765 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 1316932001766 S-adenosylmethionine binding site [chemical binding]; other site 1316932001767 potassium transporter peripheral membrane component; Reviewed; Region: trkA; PRK09496 1316932001768 TrkA-N domain; Region: TrkA_N; pfam02254 1316932001769 TrkA-C domain; Region: TrkA_C; pfam02080 1316932001770 TrkA-N domain; Region: TrkA_N; pfam02254 1316932001771 TrkA-C domain; Region: TrkA_C; pfam02080 1316932001772 Protein of unknown function (DUF1440); Region: DUF1440; pfam07274 1316932001773 Escherichia coli lactaldehyde dehydrogenase AldA-like; Region: ALDH_LactADH-AldA; cd07088 1316932001774 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 1316932001775 NAD binding site [chemical binding]; other site 1316932001776 catalytic residues [active] 1316932001777 substrate binding site [chemical binding]; other site 1316932001778 L-1,2-propanediol oxidoreductase; Provisional; Region: PRK10624 1316932001779 Lactadehyde:propanediol oxidoreductase (LPO) catalyzes the interconversion between L-lactaldehyde and L-1,2-propanediol in Escherichia coli and other enterobacteria; Region: LPO; cd08176 1316932001780 dimer interface [polypeptide binding]; other site 1316932001781 active site 1316932001782 metal binding site [ion binding]; metal-binding site 1316932001783 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 1316932001784 active site turn [active] 1316932001785 phosphorylation site [posttranslational modification] 1316932001786 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: RbsB; COG1879 1316932001787 Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems; Region: PBP1_ABC_sugar_binding_like_2; cd06310 1316932001788 putative ligand binding site [chemical binding]; other site 1316932001789 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1316932001790 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 1316932001791 TM-ABC transporter signature motif; other site 1316932001792 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 1316932001793 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 1316932001794 Walker A/P-loop; other site 1316932001795 ATP binding site [chemical binding]; other site 1316932001796 Q-loop/lid; other site 1316932001797 ABC transporter signature motif; other site 1316932001798 Walker B; other site 1316932001799 D-loop; other site 1316932001800 H-loop/switch region; other site 1316932001801 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 1316932001802 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 1316932001803 intersubunit interface [polypeptide binding]; other site 1316932001804 active site 1316932001805 Zn2+ binding site [ion binding]; other site 1316932001806 Fucose dissimilation pathway protein FucU [Carbohydrate transport and metabolism]; Region: FucU; COG4154 1316932001807 L-fucose isomerase; Provisional; Region: fucI; PRK10991 1316932001808 L-fucose isomerase (FucIase) and L-arabinose isomerase (AI) family; composed of FucIase, AI and similar proteins. FucIase converts L-fucose, an aldohexose, to its ketose form, which prepares it for aldol cleavage (similar to the isomerization of glucose...; Region: L-fuc_L-ara-isomerases; cl00947 1316932001809 hexamer (dimer of trimers) interface [polypeptide binding]; other site 1316932001810 trimer interface [polypeptide binding]; other site 1316932001811 substrate binding site [chemical binding]; other site 1316932001812 Mn binding site [ion binding]; other site 1316932001813 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 1316932001814 helix_turn_helix, Deoxyribose operon repressor; Region: HTH_DEOR; smart00420 1316932001815 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 1316932001816 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 1316932001817 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 1316932001818 Plasmid stabilisation system protein; Region: Plasmid_stabil; pfam05016 1316932001819 phosphoribosylformylglycinamidine synthase; Provisional; Region: PRK05297 1316932001820 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 1316932001821 dimerization interface [polypeptide binding]; other site 1316932001822 ATP binding site [chemical binding]; other site 1316932001823 PurL subunit of the formylglycinamide ribonucleotide amidotransferase (FGAR-AT), second repeat. FGAR-AT catalyzes the ATP-dependent conversion of formylglycinamide ribonucleotide (FGAR) and glutamine to formylglycinamidine ribonucleotide (FGAM), ADP; Region: PurL_repeat2; cd02204 1316932001824 dimerization interface [polypeptide binding]; other site 1316932001825 ATP binding site [chemical binding]; other site 1316932001826 Type 1 glutamine amidotransferase (GATase1)-like domain found in Formylglycinamide ribonucleotide amidotransferase; Region: GATase1_FGAR_AT; cd01740 1316932001827 putative active site [active] 1316932001828 catalytic triad [active] 1316932001829 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 1316932001830 Transposase IS200 like; Region: Y1_Tnp; cl00848 1316932001831 Bacterial L-asparaginases and related enzymes; Region: L-asparaginase_like; cl00216 1316932001832 Bacterial L-asparaginases and related enzymes; Region: L-asparaginase_like; cl00216 1316932001833 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3676 1316932001834 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3676 1316932001835 putative sulfite oxidase subunit YedZ; Reviewed; Region: PRK05419 1316932001836 TMAO/DMSO reductase; Reviewed; Region: PRK05363 1316932001837 Sulfite oxidase (SO) family, molybdopterin binding domain. This molybdopterin cofactor (Moco) binding domain is found in a variety of oxidoreductases, main members of this family are nitrate reductase (NR) and sulfite oxidase (SO). SO catalyzes the...; Region: SO_family_Moco; cl00199 1316932001838 Moco binding site; other site 1316932001839 metal coordination site [ion binding]; other site 1316932001840 RNA polymerase sigma factor; Provisional; Region: PRK12530 1316932001841 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1316932001842 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 1316932001843 DNA binding residues [nucleotide binding] 1316932001844 putative oxidoreductase; Provisional; Region: PRK11579 1316932001845 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 1316932001846 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 1316932001847 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 1316932001848 Transglutaminase-like superfamily; Region: Transglut_core; pfam01841 1316932001849 MerT mercuric transport protein; Region: MerT; cl03578 1316932001850 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 1316932001851 metal-binding site [ion binding] 1316932001852 PTS system enzyme II sorbitol-specific factor; Region: EII-GUT; cl01515 1316932001853 Phosphotransferase system sorbitol-specific component IIBC [Carbohydrate transport and metabolism]; Region: SrlE; COG3732 1316932001854 Sorbitol phosphotransferase enzyme II N-terminus; Region: EIIBC-GUT_N; pfam03612 1316932001855 Sorbitol phosphotransferase enzyme II C-terminus; Region: EIIBC-GUT_C; pfam07663 1316932001856 PTS system glucitol/sorbitol-specific IIA component; Region: PTSIIA_gutA; cl01516 1316932001857 sorbitol-6-phosphate dehydrogenase; Provisional; Region: PRK12384 1316932001858 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1316932001859 NAD(P) binding site [chemical binding]; other site 1316932001860 active site 1316932001861 DNA-binding transcriptional activator GutM; Provisional; Region: PRK10234 1316932001862 2-deoxyglucose-6-phosphatase; Provisional; Region: PRK10826 1316932001863 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 1316932001864 motif II; other site 1316932001865 DNA-bindng transcriptional repressor SrlR; Provisional; Region: srlR; PRK10434 1316932001866 DeoR-like helix-turn-helix domain; Region: HTH_DeoR; pfam08220 1316932001867 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 1316932001868 KpsF/GutQ family protein; Region: kpsF; TIGR00393 1316932001869 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 1316932001870 putative active site [active] 1316932001871 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 1316932001872 PTS system mannitol-specific transporter subunit IICBA; Provisional; Region: PRK15083 1316932001873 PTS system, mannitol-specific IIC component; Region: mtlA; TIGR00851 1316932001874 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 1316932001875 active site 1316932001876 P-loop; other site 1316932001877 phosphorylation site [posttranslational modification] 1316932001878 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 1316932001879 active site 1316932001880 phosphorylation site [posttranslational modification] 1316932001881 mannitol-1-phosphate 5-dehydrogenase; Provisional; Region: PRK02318 1316932001882 Mannitol dehydrogenase Rossmann domain; Region: Mannitol_dh; pfam01232 1316932001883 Mannitol dehydrogenase C-terminal domain; Region: Mannitol_dh_C; pfam08125 1316932001884 Mannitol repressor; Region: MtlR; cl11450 1316932001885 Transcriptional regulator [Transcription]; Region: MtlR; COG3722 1316932001886 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 1316932001887 transmembrane helices; other site 1316932001888 TrkA-C domain; Region: TrkA_C; pfam02080 1316932001889 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 1316932001890 TrkA-C domain; Region: TrkA_C; pfam02080 1316932001891 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 1316932001892 transcriptional repressor DicA; Reviewed; Region: PRK09706 1316932001893 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 1316932001894 non-specific DNA binding site [nucleotide binding]; other site 1316932001895 salt bridge; other site 1316932001896 sequence-specific DNA binding site [nucleotide binding]; other site 1316932001897 Predicted transcriptional regulator [Transcription]; Region: Nlp; COG3423 1316932001898 Mu DNA-binding domain; Region: HTH_Tnp_Mu_1; pfam02316 1316932001899 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1316932001900 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 1316932001901 TM-ABC transporter signature motif; other site 1316932001902 xylose transporter ATP-binding subunit; Provisional; Region: PRK13549 1316932001903 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 1316932001904 Walker A/P-loop; other site 1316932001905 ATP binding site [chemical binding]; other site 1316932001906 Q-loop/lid; other site 1316932001907 ABC transporter signature motif; other site 1316932001908 Walker B; other site 1316932001909 D-loop; other site 1316932001910 H-loop/switch region; other site 1316932001911 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 1316932001912 D-xylose transporter subunit XylF; Provisional; Region: xylF; PRK10355 1316932001913 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 1316932001914 putative ligand binding site [chemical binding]; other site 1316932001915 xylose isomerase; Provisional; Region: PRK05474 1316932001916 xylose isomerase; Region: xylose_isom_A; TIGR02630 1316932001917 xylulokinase; Provisional; Region: PRK15027 1316932001918 Escherichia coli xylulokinase-like D-xylulose kinases; a subgroup of the FGGY family of carbohydrate kinases; Region: FGGY_D-XK_EcXK-like; cd07808 1316932001919 N- and C-terminal domain interface [polypeptide binding]; other site 1316932001920 active site 1316932001921 MgATP binding site [chemical binding]; other site 1316932001922 catalytic site [active] 1316932001923 metal binding site [ion binding]; metal-binding site 1316932001924 xylulose binding site [chemical binding]; other site 1316932001925 homodimer interface [polypeptide binding]; other site 1316932001926 Membrane transporters of cations and cationic drugs [Inorganic ion transport and metabolism]; Region: EmrE; COG2076 1316932001927 Predicted esterase of the alpha/beta hydrolase fold [General function prediction only]; Region: COG3545 1316932001928 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 1316932001929 diaminopimelate epimerase; Provisional; Region: dapF; PRK00450 1316932001930 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 1316932001931 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 1316932001932 Anaerobic C4-dicarboxylate transporter [General function prediction only]; Region: DcuB; COG2704 1316932001933 anaerobic C4-dicarboxylate transporter; Reviewed; Region: PRK09412 1316932001934 CrcB-like protein; Region: CRCB; cl09114 1316932001935 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 1316932001936 amphipathic channel; other site 1316932001937 Asn-Pro-Ala signature motifs; other site 1316932001938 glycerol kinase; Provisional; Region: glpK; PRK00047 1316932001939 Escherichia coli glycerol kinase-like proteins; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_EcGK_like; cd07786 1316932001940 N- and C-terminal domain interface [polypeptide binding]; other site 1316932001941 active site 1316932001942 MgATP binding site [chemical binding]; other site 1316932001943 catalytic site [active] 1316932001944 metal binding site [ion binding]; metal-binding site 1316932001945 glycerol binding site [chemical binding]; other site 1316932001946 homotetramer interface [polypeptide binding]; other site 1316932001947 homodimer interface [polypeptide binding]; other site 1316932001948 FBP binding site [chemical binding]; other site 1316932001949 protein IIAGlc interface [polypeptide binding]; other site 1316932001950 Uncharacterized conserved protein [Function unknown]; Region: COG2128 1316932001951 Carboxymuconolactone decarboxylase family; Region: CMD; pfam02627 1316932001952 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 1316932001953 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 1316932001954 active site 1316932001955 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 1316932001956 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 1316932001957 dimer interface [polypeptide binding]; other site 1316932001958 conserved gate region; other site 1316932001959 putative PBP binding loops; other site 1316932001960 ABC-ATPase subunit interface; other site 1316932001961 NMT1-like family; Region: NMT1_2; pfam13379 1316932001962 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 1316932001963 type I secretion membrane fusion protein, HlyD family; Region: type_I_hlyD; TIGR01843 1316932001964 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1316932001965 HlyD family secretion protein; Region: HlyD_3; pfam13437 1316932001966 A sub-family of peptidase C39 which contains Cyclolysin and Hemolysin processing peptidases. Peptidase family C39 mostly contains bacteriocin-processing endopeptidases from bacteria. The cysteine peptidases in family C39 cleave the "double-glycine...; Region: Peptidase_C39_likeA; cd02417 1316932001967 type I secretion system ABC transporter, HlyB family; Region: type_I_sec_HlyB; TIGR01846 1316932001968 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 1316932001969 ATP-binding cassette domain of hemolysin B, subfamily C; Region: ABCC_Hemolysin; cd03252 1316932001970 Walker A/P-loop; other site 1316932001971 ATP binding site [chemical binding]; other site 1316932001972 Q-loop/lid; other site 1316932001973 ABC transporter signature motif; other site 1316932001974 Walker B; other site 1316932001975 D-loop; other site 1316932001976 H-loop/switch region; other site 1316932001977 RTX N-terminal domain; Region: RTX; pfam02382 1316932001978 RTX C-terminal domain; Region: RTX_C; pfam08339 1316932001979 RTX toxin acyltransferase family; Region: HlyC; pfam02794 1316932001980 lysine-arginine-ornithine-binding periplasmic protein; Region: 3A0103s03R; TIGR01096 1316932001981 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 1316932001982 substrate binding pocket [chemical binding]; other site 1316932001983 membrane-bound complex binding site; other site 1316932001984 hinge residues; other site 1316932001985 Protein of unknown function (DUF535); Region: DUF535; pfam04393 1316932001986 ATP-dependent protease ATP-binding subunit HslU; Provisional; Region: hslU; PRK05201 1316932001987 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 1316932001988 Walker A motif; other site 1316932001989 ATP binding site [chemical binding]; other site 1316932001990 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 1316932001991 Walker B motif; other site 1316932001992 arginine finger; other site 1316932001993 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 1316932001994 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 1316932001995 active site 1316932001996 HslU subunit interaction site [polypeptide binding]; other site 1316932001997 putative DNA-binding transcriptional regulator; Reviewed; Region: PRK00347 1316932001998 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 1316932001999 EamA-like transporter family; Region: EamA; pfam00892 1316932002000 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 1316932002001 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 1316932002002 putative metal binding site [ion binding]; other site 1316932002003 adenine DNA glycosylase; Provisional; Region: PRK10880 1316932002004 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 1316932002005 minor groove reading motif; other site 1316932002006 helix-hairpin-helix signature motif; other site 1316932002007 substrate binding pocket [chemical binding]; other site 1316932002008 active site 1316932002009 Iron-sulfur binding domain of endonuclease III; Region: EndIII_4Fe-2S; pfam10576 1316932002010 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 1316932002011 DNA binding and oxoG recognition site [nucleotide binding] 1316932002012 oxidative damage protection protein; Provisional; Region: PRK05408 1316932002013 murein transglycosylase C; Provisional; Region: mltC; PRK11671 1316932002014 Domain of unknown function (DUF3393); Region: DUF3393; pfam11873 1316932002015 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 1316932002016 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 1316932002017 N-acetyl-D-glucosamine binding site [chemical binding]; other site 1316932002018 catalytic residue [active] 1316932002019 signal recognition particle protein; Provisional; Region: PRK10867 1316932002020 SRP54-type protein, helical bundle domain; Region: SRP54_N; smart00963 1316932002021 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 1316932002022 P loop; other site 1316932002023 GTP binding site [chemical binding]; other site 1316932002024 Signal peptide binding domain; Region: SRP_SPB; pfam02978 1316932002025 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 1316932002026 helix_turn_helix, Deoxyribose operon repressor; Region: HTH_DEOR; smart00420 1316932002027 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 1316932002028 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 1316932002029 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 1316932002030 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3395 1316932002031 putative aldolase; Validated; Region: PRK08130 1316932002032 intersubunit interface [polypeptide binding]; other site 1316932002033 active site 1316932002034 Zn2+ binding site [ion binding]; other site 1316932002035 Hydroxypyruvate isomerase [Carbohydrate transport and metabolism]; Region: Hfi; COG3622 1316932002036 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 1316932002037 Metal-binding active site; metal-binding site 1316932002038 fructuronate transporter; Provisional; Region: PRK10034; cl15264 1316932002039 GntP family permease; Region: GntP_permease; pfam02447 1316932002040 Predicted peptidase [General function prediction only]; Region: COG4099 1316932002041 Kynurenine formamidase [Amino acid transport and metabolism]; Region: COG1878 1316932002042 putative heme utilization radical SAM enzyme HutW; Region: rSAM_HutW; TIGR04107 1316932002043 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 1316932002044 FeS/SAM binding site; other site 1316932002045 putative heme utilization carrier protein HutX; Region: HutX; TIGR04108 1316932002046 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1316932002047 NADH(P)-binding; Region: NAD_binding_10; pfam13460 1316932002048 NAD(P) binding site [chemical binding]; other site 1316932002049 active site 1316932002050 Dihaem cytochrome c; Region: DHC; pfam09626 1316932002051 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 1316932002052 dimer interface [polypeptide binding]; other site 1316932002053 motif 1; other site 1316932002054 active site 1316932002055 motif 2; other site 1316932002056 motif 3; other site 1316932002057 Glutaredoxin-related protein [Posttranslational modification, protein turnover, chaperones]; Region: COG4545 1316932002058 Protein of unknown function (DUF1016); Region: DUF1016; pfam06250 1316932002059 Predicted nuclease of restriction endonuclease-like fold [General function prediction only]; Region: COG4804 1316932002060 glycyl-tRNA synthetase subunit beta; Validated; Region: glyS; PRK01233 1316932002061 DALR anticodon binding domain; Region: DALR_1; pfam05746 1316932002062 L-cysteine desulfidase [Amino acid transport and metabolism]; Region: COG3681 1316932002063 threonine/serine transporter TdcC; Provisional; Region: PRK13629; cl17672 1316932002064 Amino acid permeases [Amino acid transport and metabolism]; Region: SdaC; COG0814 1316932002065 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2964 1316932002066 YheO-like PAS domain; Region: PAS_6; pfam08348 1316932002067 HTH domain; Region: HTH_22; pfam13309 1316932002068 site-specific tyrosine recombinase XerC; Reviewed; Region: xerC; PRK00236 1316932002069 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 1316932002070 active site 1316932002071 Int/Topo IB signature motif; other site 1316932002072 Protein of unknown function (DUF454); Region: DUF454; cl01063 1316932002073 tRNA (uracil-5-)-methyltransferase; Validated; Region: PRK05031 1316932002074 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 1316932002075 S-adenosylmethionine binding site [chemical binding]; other site 1316932002076 hypothetical protein; Provisional; Region: PRK11027 1316932002077 Methyltransferase domain; Region: Methyltransf_24; pfam13578 1316932002078 Uncharacterized conserved protein [Function unknown]; Region: COG2938 1316932002079 4-hydroxy-3-methylbut-2-enyl diphosphate reductase; Reviewed; Region: ispH; PRK01045 1316932002080 4-Hydroxy-3-methylbut-2-enyl diphosphate reductase IspH [Lipid metabolism]; Region: lytB; COG0761 1316932002081 lipoprotein signal peptidase; Reviewed; Region: lspA; PRK00376 1316932002082 nitrogen regulatory protein P-II 1; Provisional; Region: PRK10858 1316932002083 Nitrogen regulatory protein P-II; Region: P-II; smart00938 1316932002084 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 1316932002085 MPT binding site; other site 1316932002086 trimer interface [polypeptide binding]; other site 1316932002087 Cytochrome c biogenesis factor [Posttranslational modification, protein turnover, chaperones]; Region: COG4235 1316932002088 cytochrome c-type biogenesis protein CcmI; Region: cytochro_ccmI; TIGR03142 1316932002089 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 1316932002090 binding surface 1316932002091 TPR motif; other site 1316932002092 Cytochrome C biogenesis protein; Region: CcmH; pfam03918 1316932002093 periplasmic protein thiol:disulfide oxidoreductases, DsbE subfamily; Region: dsbE; TIGR00385 1316932002094 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 1316932002095 catalytic residues [active] 1316932002096 central insert; other site 1316932002097 pantothenate kinase; Provisional; Region: PRK05439 1316932002098 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 1316932002099 ATP-binding site [chemical binding]; other site 1316932002100 CoA-binding site [chemical binding]; other site 1316932002101 Mg2+-binding site [ion binding]; other site 1316932002102 elongation factor Tu; Reviewed; Region: PRK00049 1316932002103 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 1316932002104 G1 box; other site 1316932002105 GEF interaction site [polypeptide binding]; other site 1316932002106 GTP/Mg2+ binding site [chemical binding]; other site 1316932002107 Switch I region; other site 1316932002108 G2 box; other site 1316932002109 G3 box; other site 1316932002110 Switch II region; other site 1316932002111 G4 box; other site 1316932002112 G5 box; other site 1316932002113 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 1316932002114 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 1316932002115 Antibiotic Binding Site [chemical binding]; other site 1316932002116 ferric transporter ATP-binding subunit; Provisional; Region: fbpC; PRK11432 1316932002117 ATP-binding cassette domain of the carbohydrate and solute transporters-like; Region: ABC_Carb_Solutes_like; cd03259 1316932002118 Walker A/P-loop; other site 1316932002119 ATP binding site [chemical binding]; other site 1316932002120 Q-loop/lid; other site 1316932002121 ABC transporter signature motif; other site 1316932002122 Walker B; other site 1316932002123 D-loop; other site 1316932002124 H-loop/switch region; other site 1316932002125 TOBE domain; Region: TOBE_2; pfam08402 1316932002126 ABC-type Fe3+ transport system, permease component [Inorganic ion transport and metabolism]; Region: ThiP; COG1178 1316932002127 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 1316932002128 dimer interface [polypeptide binding]; other site 1316932002129 conserved gate region; other site 1316932002130 putative PBP binding loops; other site 1316932002131 ABC-ATPase subunit interface; other site 1316932002132 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 1316932002133 dimer interface [polypeptide binding]; other site 1316932002134 conserved gate region; other site 1316932002135 putative PBP binding loops; other site 1316932002136 ABC-ATPase subunit interface; other site 1316932002137 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 1316932002138 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 1316932002139 DNA-bindng transcriptional repressor SrlR; Provisional; Region: srlR; PRK10434 1316932002140 helix_turn_helix, Deoxyribose operon repressor; Region: HTH_DEOR; smart00420 1316932002141 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 1316932002142 glucosamine--fructose-6-phosphate aminotransferase; Reviewed; Region: PRK00331 1316932002143 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 1316932002144 glutaminase active site [active] 1316932002145 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 1316932002146 dimer interface [polypeptide binding]; other site 1316932002147 active site 1316932002148 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 1316932002149 dimer interface [polypeptide binding]; other site 1316932002150 active site 1316932002151 50S ribosomal protein L14; Validated; Region: rplN; PRK05483 1316932002152 50S ribosomal protein L24; Reviewed; Region: rplX; PRK00004 1316932002153 KOW motif of Ribosomal Protein L26; Region: KOW_RPL26; cd06089 1316932002154 RNA binding site [nucleotide binding]; other site 1316932002155 50S ribosomal protein L5; Validated; Region: rplE; PRK00010 1316932002156 Ribosomal protein L5; Region: Ribosomal_L5; pfam00281 1316932002157 ribosomal L5P family C-terminus; Region: Ribosomal_L5_C; pfam00673 1316932002158 30S ribosomal protein S14; Reviewed; Region: rpsN; PRK08881 1316932002159 30S ribosomal protein S8; Validated; Region: rpsH; PRK00136 1316932002160 50S ribosomal protein L6; Validated; Region: rplF; PRK05498 1316932002161 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 1316932002162 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 1316932002163 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 1316932002164 23S rRNA interface [nucleotide binding]; other site 1316932002165 L21e interface [polypeptide binding]; other site 1316932002166 5S rRNA interface [nucleotide binding]; other site 1316932002167 L27 interface [polypeptide binding]; other site 1316932002168 L5 interface [polypeptide binding]; other site 1316932002169 30S ribosomal protein S5; Validated; Region: rpsE; PRK00550 1316932002170 Ribosomal protein S5, N-terminal domain; Region: Ribosomal_S5; pfam00333 1316932002171 Ribosomal protein S5, C-terminal domain; Region: Ribosomal_S5_C; pfam03719 1316932002172 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 1316932002173 23S rRNA binding site [nucleotide binding]; other site 1316932002174 50S ribosomal protein L15; Reviewed; Region: rplO; PRK05592 1316932002175 preprotein translocase subunit SecY; Reviewed; Region: secY; PRK09204 1316932002176 SecY translocase; Region: SecY; pfam00344 1316932002177 50S ribosomal protein L36; Reviewed; Region: rpmJ; PRK00465 1316932002178 30S ribosomal protein S13; Validated; Region: rpsM; PRK05179 1316932002179 30S ribosomal protein S13; Region: bact_S13; TIGR03631 1316932002180 30S ribosomal protein S11; Validated; Region: PRK05309 1316932002181 30S ribosomal protein S4; Validated; Region: rpsD; PRK05327 1316932002182 Ribosomal protein S4/S9 N-terminal domain; Region: Ribosomal_S4; pfam00163 1316932002183 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 1316932002184 RNA binding surface [nucleotide binding]; other site 1316932002185 DNA-directed RNA polymerase subunit alpha; Provisional; Region: PRK05182 1316932002186 N-terminal domain of the Alpha subunit of Bacterial RNA polymerase; Region: RNAP_alpha_NTD; cd06928 1316932002187 alphaNTD homodimer interface [polypeptide binding]; other site 1316932002188 alphaNTD - beta interaction site [polypeptide binding]; other site 1316932002189 alphaNTD - beta' interaction site [polypeptide binding]; other site 1316932002190 Bacterial RNA polymerase, alpha chain C terminal domain; Region: RNA_pol_A_CTD; pfam03118 1316932002191 Ribosomal protein L17 [Translation, ribosomal structure and biogenesis]; Region: RplQ; COG0203 1316932002192 Transcriptional regulators [Transcription]; Region: PurR; COG1609 1316932002193 Ligand-binding domain of DNA transcription repressor specific for xylose (XylR); Region: PBP1_XylR; cd01543 1316932002194 putative dimerization interface [polypeptide binding]; other site 1316932002195 putative ligand binding site [chemical binding]; other site 1316932002196 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1316932002197 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 1316932002198 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1316932002199 gluconate operon transcriptional regulator; Provisional; Region: PRK14987 1316932002200 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 1316932002201 DNA binding site [nucleotide binding] 1316932002202 domain linker motif; other site 1316932002203 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 1316932002204 putative ligand binding site [chemical binding]; other site 1316932002205 putative dimerization interface [polypeptide binding]; other site 1316932002206 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 1316932002207 Shikimate kinase; Region: SKI; pfam01202 1316932002208 ATP-binding site [chemical binding]; other site 1316932002209 Gluconate-6-phosphate binding site [chemical binding]; other site 1316932002210 H+/gluconate symporter and related permeases [Carbohydrate transport and metabolism / Amino acid transport and metabolism]; Region: GntT; COG2610 1316932002211 fructuronate transporter; Provisional; Region: PRK10034; cl15264 1316932002212 cell density-dependent motility repressor; Provisional; Region: PRK10082 1316932002213 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1316932002214 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 1316932002215 dimerization interface [polypeptide binding]; other site 1316932002216 Asp/Glu/Hydantoin racemase; Region: Asp_Glu_race; cl00518 1316932002217 aspartate racemase; Region: asp_race; TIGR00035 1316932002218 Anaerobic C4-dicarboxylate transporter [General function prediction only]; Region: DcuB; COG2704 1316932002219 anaerobic C4-dicarboxylate transporter; Reviewed; Region: PRK09412 1316932002220 succinic semialdehyde dehydrogenase; Region: PLN02278 1316932002221 Mitochondrial succinate-semialdehyde dehydrogenase and ALDH family members 5A1 and 5F1-like; Region: ALDH_F5_SSADH_GabD; cd07103 1316932002222 tetramerization interface [polypeptide binding]; other site 1316932002223 NAD(P) binding site [chemical binding]; other site 1316932002224 catalytic residues [active] 1316932002225 KduI/IolB family; Region: KduI; cl01508 1316932002226 Methylmalonate semialdehyde dehydrogenase and ALDH family members 6A1 and 6B2; Region: ALDH_F6_MMSDH; cd07085 1316932002227 methylmalonic acid semialdehyde dehydrogenase; Region: MMSDH; TIGR01722 1316932002228 tetrameric interface [polypeptide binding]; other site 1316932002229 NAD binding site [chemical binding]; other site 1316932002230 catalytic residues [active] 1316932002231 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: RbsB; COG1879 1316932002232 Periplasmic sugar-binding domain of active transport systems that are members of the type I periplasmic binding protein (PBP1) superfamily; Region: PBP1_ABC_sugar_binding_like; cd01536 1316932002233 ligand binding site [chemical binding]; other site 1316932002234 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 1316932002235 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 1316932002236 Walker A/P-loop; other site 1316932002237 ATP binding site [chemical binding]; other site 1316932002238 Q-loop/lid; other site 1316932002239 ABC transporter signature motif; other site 1316932002240 Walker B; other site 1316932002241 D-loop; other site 1316932002242 H-loop/switch region; other site 1316932002243 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 1316932002244 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1316932002245 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 1316932002246 TM-ABC transporter signature motif; other site 1316932002247 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 1316932002248 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 1316932002249 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 1316932002250 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 1316932002251 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 1316932002252 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 1316932002253 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 1316932002254 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 1316932002255 Metal-binding active site; metal-binding site 1316932002256 Acetolactate synthase [Amino acid transport and metabolism]; Region: COG3962 1316932002257 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 1316932002258 PYR/PP interface [polypeptide binding]; other site 1316932002259 dimer interface [polypeptide binding]; other site 1316932002260 TPP binding site [chemical binding]; other site 1316932002261 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 1316932002262 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 1316932002263 TPP-binding site; other site 1316932002264 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 1316932002265 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 1316932002266 substrate binding site [chemical binding]; other site 1316932002267 ATP binding site [chemical binding]; other site 1316932002268 Uncharacterized protein conserved in bacteria (DUF2090); Region: DUF2090; pfam09863 1316932002269 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3892 1316932002270 Alpha-L-fucosidase; Region: Alpha_L_fucos; smart00812 1316932002271 Alpha-L-fucosidase [Carbohydrate transport and metabolism]; Region: COG3669 1316932002272 cellobiose phosphotransferase system IIC component; Reviewed; Region: celD; PRK09592 1316932002273 Phosphotransferase system cellobiose-specific component IIC [Carbohydrate transport and metabolism]; Region: CelB; COG1455 1316932002274 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 1316932002275 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 1316932002276 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 1316932002277 putative active site [active] 1316932002278 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 1316932002279 active site turn [active] 1316932002280 phosphorylation site [posttranslational modification] 1316932002281 30S ribosomal protein S16; Reviewed; Region: rpsP; PRK00040 1316932002282 16S rRNA-processing protein RimM; Provisional; Region: rimM; PRK00122 1316932002283 RimM N-terminal domain; Region: RimM; pfam01782 1316932002284 PRC-barrel domain; Region: PRC; pfam05239 1316932002285 tRNA (guanine-N(1)-)-methyltransferase; Reviewed; Region: trmD; PRK00026 1316932002286 50S ribosomal protein L19; Provisional; Region: rplS; PRK05338 1316932002287 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) MazG-like domain superfamily; Region: NTP-PPase; cd11523 1316932002288 metal binding site [ion binding]; metal-binding site 1316932002289 Uncharacterized conserved protein [Function unknown]; Region: COG2850 1316932002290 Cupin domain; Region: Cupin_2; cl17218 1316932002291 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK08591 1316932002292 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 1316932002293 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 1316932002294 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 1316932002295 acetyl-CoA carboxylase biotin carboxyl carrier protein subunit; Validated; Region: PRK06302 1316932002296 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 1316932002297 carboxyltransferase (CT) interaction site; other site 1316932002298 biotinylation site [posttranslational modification]; other site 1316932002299 Mannosyltransferase OCH1 and related enzymes [Cell envelope biogenesis, outer membrane]; Region: OCH1; COG3774 1316932002300 Glycosyltransferase sugar-binding region containing DXD motif; Region: Gly_transf_sug; pfam04488 1316932002301 Dehydroquinase class II; Region: DHquinase_II; pfam01220 1316932002302 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 1316932002303 active site 1316932002304 trimer interface [polypeptide binding]; other site 1316932002305 dimer interface [polypeptide binding]; other site 1316932002306 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1316932002307 Coenzyme A binding pocket [chemical binding]; other site 1316932002308 2,3,4,5-tetrahydropyridine-2,6-carboxylate N-succinyltransferase; Provisional; Region: dapD; PRK11830 1316932002309 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 1316932002310 trimer interface [polypeptide binding]; other site 1316932002311 active site 1316932002312 substrate binding site [chemical binding]; other site 1316932002313 CoA binding site [chemical binding]; other site 1316932002314 D-alanyl-D-alanine carboxypeptidase [Cell envelope biogenesis, outer membrane]; Region: VanY; COG1876 1316932002315 D-alanyl-D-alanine carboxypeptidase; Region: VanY; pfam02557 1316932002316 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 1316932002317 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 1316932002318 S-adenosylmethionine binding site [chemical binding]; other site 1316932002319 Sporulation related domain; Region: SPOR; pfam05036 1316932002320 2-octaprenyl-3-methyl-6-methoxy-1,4-benzoquinol hydroxylase; Reviewed; Region: ubiF; PRK08020 1316932002321 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 1316932002322 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 1316932002323 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 1316932002324 Walker A motif; other site 1316932002325 ATP binding site [chemical binding]; other site 1316932002326 Part of AAA domain; Region: AAA_19; pfam13245 1316932002327 Family description; Region: UvrD_C_2; pfam13538 1316932002328 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 1316932002329 Type I restriction-modification system methyltransferase subunit [Defense mechanisms]; Region: HsdM; COG0286 1316932002330 Eco57I restriction-modification methylase; Region: Eco57I; pfam07669 1316932002331 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 1316932002332 S-adenosylmethionine binding site [chemical binding]; other site 1316932002333 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 1316932002334 non-specific DNA binding site [nucleotide binding]; other site 1316932002335 salt bridge; other site 1316932002336 sequence-specific DNA binding site [nucleotide binding]; other site 1316932002337 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 1316932002338 Serine Recombinase family, catalytic domain; a DNA binding domain may be present either N- or C-terminal to the catalytic domain. These enzymes perform site-specific recombination of DNA molecules by a concerted, four-strand cleavage and rejoining...; Region: Ser_Recombinase; cd00338 1316932002339 catalytic residues [active] 1316932002340 catalytic nucleophile [active] 1316932002341 Recombinase; Region: Recombinase; pfam07508 1316932002342 nucleoid occlusion protein; Region: nucleoid_noc; TIGR04285 1316932002343 ParB-like nuclease domain; Region: ParB; smart00470 1316932002344 Stage 0 sporulation protein J (antagonist of Soj) containing ParB-like nuclease domain [Transcription]; Region: Spo0J; COG1475 1316932002345 ParB-like nuclease domain; Region: ParBc; cl02129 1316932002346 RepB plasmid partitioning protein; Region: RepB; pfam07506 1316932002347 Winged helix-turn helix; Region: HTH_29; pfam13551 1316932002348 Helix-turn-helix domain; Region: HTH_28; pfam13518 1316932002349 Homeodomain-like domain; Region: HTH_32; pfam13565 1316932002350 Integrase core domain; Region: rve; pfam00665 1316932002351 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 1316932002352 Integrase core domain; Region: rve_3; pfam13683 1316932002353 TniQ; Region: TniQ; pfam06527 1316932002354 Bacterial TniB protein; Region: TniB; pfam05621 1316932002355 AAA domain; Region: AAA_22; pfam13401 1316932002356 Helix-turn-helix domain; Region: HTH_28; pfam13518 1316932002357 Winged helix-turn helix; Region: HTH_29; pfam13551 1316932002358 Integrase core domain; Region: rve; pfam00665 1316932002359 Integrase core domain; Region: rve_3; cl15866 1316932002360 Mu transposase, C-terminal; Region: Mu-transpos_C; pfam09299 1316932002361 TnsA endonuclease N terminal; Region: Tn7_Tnp_TnsA_N; pfam08722 1316932002362 TnsA endonuclease C terminal; Region: Tn7_Tnp_TnsA_C; pfam08721 1316932002363 Predicted ATPase with chaperone activity [Posttranslational modification, protein turnover, chaperones]; Region: COG0606 1316932002364 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase; pfam01078 1316932002365 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase_2; pfam13335 1316932002366 2-succinyl-6-hydroxy-2, 4-cyclohexadiene-1-carboxylate synthase; Provisional; Region: PRK11126 1316932002367 Putative serine esterase (DUF676); Region: DUF676; pfam05057 1316932002368 2-succinyl-5-enolpyruvyl-6-hydroxy-3-cyclohexene-1- carboxylate synthase; Validated; Region: PRK07449 1316932002369 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 1316932002370 dimer interface [polypeptide binding]; other site 1316932002371 tetramer interface [polypeptide binding]; other site 1316932002372 PYR/PP interface [polypeptide binding]; other site 1316932002373 TPP binding site [chemical binding]; other site 1316932002374 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 1316932002375 TPP-binding site; other site 1316932002376 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 1316932002377 Glycosyl transferase family 8; Region: Glyco_transf_8; pfam01501 1316932002378 Protein of unknown function (DUF406); Region: DUF406; pfam04175 1316932002379 Bacterial Transmembrane Pair family; Region: BTP; pfam05232 1316932002380 Bacterial Transmembrane Pair family; Region: BTP; pfam05232 1316932002381 methyl-galactoside ABC transporter galactose-binding periplasmic protein MglB; Provisional; Region: PRK15395 1316932002382 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 1316932002383 ligand binding site [chemical binding]; other site 1316932002384 calcium binding site [ion binding]; other site 1316932002385 Transposase IS200 like; Region: Y1_Tnp; pfam01797 1316932002386 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG0675 1316932002387 Helix-turn-helix domain; Region: HTH_OrfB_IS605; pfam12323 1316932002388 Probable transposase; Region: OrfB_IS605; pfam01385 1316932002389 transposase, IS605 OrfB family, central region; Region: tspaseT_teng_C; TIGR01766 1316932002390 methyl-galactoside ABC transporter galactose-binding periplasmic protein MglB; Provisional; Region: PRK15395 1316932002391 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 1316932002392 ligand binding site [chemical binding]; other site 1316932002393 calcium binding site [ion binding]; other site 1316932002394 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 1316932002395 galactose/methyl galaxtoside transporter ATP-binding protein; Provisional; Region: PRK10982 1316932002396 Walker A/P-loop; other site 1316932002397 ATP binding site [chemical binding]; other site 1316932002398 Q-loop/lid; other site 1316932002399 ABC transporter signature motif; other site 1316932002400 Walker B; other site 1316932002401 D-loop; other site 1316932002402 H-loop/switch region; other site 1316932002403 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 1316932002404 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1316932002405 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 1316932002406 TM-ABC transporter signature motif; other site 1316932002407 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 1316932002408 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 1316932002409 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3676 1316932002410 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3676 1316932002411 bifunctional proline dehydrogenase/pyrroline-5-carboxylate dehydrogenase; Reviewed; Region: PRK11905 1316932002412 Proline dehydrogenase [Amino acid transport and metabolism]; Region: PutA; COG0506 1316932002413 Delta(1)-pyrroline-5-carboxylate dehydrogenase, PutA; Region: ALDH_PutA-P5CDH; cd07125 1316932002414 Glutamate binding site [chemical binding]; other site 1316932002415 NAD binding site [chemical binding]; other site 1316932002416 catalytic residues [active] 1316932002417 Na+/H+ antiporter NhaC; Region: antiport_nhaC; TIGR00931 1316932002418 ornithine--oxo-acid transaminase; Provisional; Region: rocD; PRK04073 1316932002419 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 1316932002420 inhibitor-cofactor binding pocket; inhibition site 1316932002421 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1316932002422 catalytic residue [active] 1316932002423 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3676 1316932002424 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 1316932002425 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 1316932002426 Plastocyanin [Energy production and conversion]; Region: PetE; COG3794 1316932002427 Cupredoxin-like domain; Region: Cupredoxin_1; cl17234 1316932002428 hypothetical protein; Provisional; Region: PRK10506 1316932002429 Type II secretory pathway, component PulJ [Intracellular trafficking and secretion]; Region: PulJ; COG4795 1316932002430 exonuclease V subunit gamma; Provisional; Region: recC; PRK11069 1316932002431 Exodeoxyribonuclease V, gamma subunit; Region: Exonuc_V_gamma; pfam04257 1316932002432 protease3; Provisional; Region: PRK15101 1316932002433 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 1316932002434 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 1316932002435 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 1316932002436 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 1316932002437 The substrate-binding component of an ABC-type dipeptide import system contains the type 2 periplasmic binding fold; Region: PBP2_DppA_like; cd08493 1316932002438 peptide binding site [polypeptide binding]; other site 1316932002439 TonB-dependent heme/hemoglobin receptor family protein; Region: TonB-hemin; TIGR01785 1316932002440 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 1316932002441 N-terminal plug; other site 1316932002442 ligand-binding site [chemical binding]; other site 1316932002443 Hemolysin activation/secretion protein [Intracellular trafficking and secretion]; Region: FhaC; COG2831 1316932002444 POTRA domain, ShlB-type; Region: POTRA_2; pfam08479 1316932002445 haemagglutination activity domain; Region: Haemagg_act; pfam05860 1316932002446 Large exoproteins involved in heme utilization or adhesion [Intracellular trafficking and secretion]; Region: FhaB; COG3210 1316932002447 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; pfam03099 1316932002448 Biotin-(acetyl-CoA carboxylase) ligase [Coenzyme metabolism]; Region: BirA; COG0340 1316932002449 Biotin protein ligase C terminal domain; Region: BPL_C; pfam02237 1316932002450 UDP-N-acetylenolpyruvoylglucosamine reductase; Provisional; Region: murB; PRK00046 1316932002451 FAD binding domain; Region: FAD_binding_4; pfam01565 1316932002452 UDP-N-acetylenolpyruvoylglucosamine reductase, C-terminal domain; Region: MurB_C; pfam02873 1316932002453 DNA-binding transcriptional dual regulator Crp; Provisional; Region: PRK11753 1316932002454 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 1316932002455 ligand binding site [chemical binding]; other site 1316932002456 flexible hinge region; other site 1316932002457 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 1316932002458 putative switch regulator; other site 1316932002459 non-specific DNA interactions [nucleotide binding]; other site 1316932002460 DNA binding site [nucleotide binding] 1316932002461 sequence specific DNA binding site [nucleotide binding]; other site 1316932002462 putative cAMP binding site [chemical binding]; other site 1316932002463 hypothetical protein; Provisional; Region: PRK04966 1316932002464 division inhibitor protein; Provisional; Region: slmA; PRK09480 1316932002465 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1316932002466 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 1316932002467 trimer interface [polypeptide binding]; other site 1316932002468 active site 1316932002469 A4GalT_like proteins catalyze the addition of galactose or glucose residues to the lipooligosaccharide (LOS) or lipopolysaccharide (LPS) of the bacterial cell surface; Region: GT8_A4GalT_like; cd04194 1316932002470 Glycosyl transferase family 8; Region: Glyco_transf_8; pfam01501 1316932002471 Ligand binding site; other site 1316932002472 metal-binding site 1316932002473 Protein of unknown function (DUF1016); Region: DUF1016; pfam06250 1316932002474 Src Homology 3 domain superfamily; Region: SH3; cl17036 1316932002475 peptide ligand binding site [polypeptide binding]; other site 1316932002476 bifunctional phosphopantothenoylcysteine decarboxylase/phosphopantothenate synthase; Validated; Region: PRK05579 1316932002477 Flavoprotein; Region: Flavoprotein; pfam02441 1316932002478 DNA / pantothenate metabolism flavoprotein; Region: DFP; pfam04127 1316932002479 hypothetical protein; Reviewed; Region: PRK00024 1316932002480 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 1316932002481 MPN+ (JAMM) motif; other site 1316932002482 Zinc-binding site [ion binding]; other site 1316932002483 50S ribosomal protein L28; Reviewed; Region: rpmB; PRK00359 1316932002484 50S ribosomal protein L33; Validated; Region: rpmG; PRK00595 1316932002485 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 1316932002486 helix_turn_helix, Deoxyribose operon repressor; Region: HTH_DEOR; smart00420 1316932002487 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 1316932002488 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3395 1316932002489 2-keto-3-deoxygluconate permease; Provisional; Region: PRK05274 1316932002490 4-hydroxythreonine-4-phosphate dehydrogenase; Reviewed; Region: pdxA; PRK00232 1316932002491 4-hydroxythreonine-4-phosphate dehydrogenase; Validated; Region: pdxA; PRK03743 1316932002492 diaminobutyrate--2-oxoglutarate aminotransferase; Provisional; Region: PRK06931 1316932002493 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 1316932002494 inhibitor-cofactor binding pocket; inhibition site 1316932002495 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1316932002496 catalytic residue [active] 1316932002497 DOPA decarboxylase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD correspond to DOPA/tyrosine decarboxylase (DDC), histidine decarboxylase (HDC), and...; Region: DOPA_deC_like; cd06450 1316932002498 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1316932002499 catalytic residue [active] 1316932002500 Bacterial OB fold (BOF) protein; Region: BOF; cl01196 1316932002501 Putative NADPH-quinone reductase (modulator of drug activity B) [General function prediction only]; Region: MdaB; COG2249 1316932002502 ferredoxin-type protein NapF; Region: napF; TIGR00402 1316932002503 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 1316932002504 4Fe-4S binding domain; Region: Fer4; cl02805 1316932002505 NapD protein; Region: NapD; pfam03927 1316932002506 nitrate reductase catalytic subunit; Provisional; Region: PRK13532 1316932002507 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 1316932002508 [4Fe-4S] binding site [ion binding]; other site 1316932002509 molybdopterin cofactor binding site; other site 1316932002510 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 1316932002511 molybdopterin cofactor binding site; other site 1316932002512 quinol dehydrogenase periplasmic component; Provisional; Region: napG; PRK09476 1316932002513 quinol dehydrogenase membrane component; Provisional; Region: napH; PRK09477 1316932002514 4Fe-4S binding domain; Region: Fer4_5; pfam12801 1316932002515 4Fe-4S binding domain; Region: Fer4_6; pfam12837 1316932002516 Nitrate reductase cytochrome c-type subunit (NapB); Region: NapB; pfam03892 1316932002517 periplasmic nitrate (or nitrite) reductase c-type cytochrome, NapC/NirT family; Region: napC_nirT; TIGR02161 1316932002518 NapC/NirT cytochrome c family, N-terminal region; Region: Cytochrom_NNT; pfam03264 1316932002519 Enterobacter aerogenes GpdQ and related proteins, metallophosphatase domain; Region: MPP_GpdQ; cd07402 1316932002520 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 1316932002521 active site 1316932002522 metal binding site [ion binding]; metal-binding site 1316932002523 hexamer interface [polypeptide binding]; other site 1316932002524 Periplasmic nitrate reductase protein NapE; Region: NapE; cl01848 1316932002525 trimethylamine-N-oxide reductase c-type cytochrome TorC; Region: torC; TIGR02162 1316932002526 cytochrome c-type protein NapC; Provisional; Region: PRK10617; cl17554 1316932002527 trimethylamine N-oxide reductase I catalytic subunit; Provisional; Region: PRK15102 1316932002528 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 1316932002529 molybdopterin cofactor binding site [chemical binding]; other site 1316932002530 substrate binding site [chemical binding]; other site 1316932002531 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 1316932002532 molybdopterin cofactor binding site; other site 1316932002533 Nitrate reductase delta subunit; Region: Nitrate_red_del; cl00958 1316932002534 Lipoprotein GNA1870 C terminal like; Region: Lipoprot_C; pfam08794 1316932002535 Protein of unknown function (DUF560); Region: DUF560; pfam04575 1316932002536 Winged helix-turn helix; Region: HTH_29; pfam13551 1316932002537 Helix-turn-helix domain; Region: HTH_28; pfam13518 1316932002538 Homeodomain-like domain; Region: HTH_32; pfam13565 1316932002539 Integrase core domain; Region: rve; pfam00665 1316932002540 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 1316932002541 Integrase core domain; Region: rve_3; pfam13683 1316932002542 ADP-ribose pyrophosphatase NudF; Provisional; Region: nudF; PRK10729 1316932002543 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 1316932002544 dimer interface [polypeptide binding]; other site 1316932002545 ADP-ribose binding site [chemical binding]; other site 1316932002546 active site 1316932002547 nudix motif; other site 1316932002548 metal binding site [ion binding]; metal-binding site 1316932002549 phosphate-starvation-inducible protein PsiE; Provisional; Region: PRK02833 1316932002550 4'-phosphopantetheinyl transferase superfamily; Region: ACPS; pfam01648 1316932002551 Predicted membrane protein [Function unknown]; Region: COG2510 1316932002552 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 1316932002553 pH-dependent sodium/proton antiporter; Reviewed; Region: nhaA; PRK09560 1316932002554 Na(+)/pantothenate cotransporters: PanF of Escherichia coli and related proteins; solute binding domain; Region: SLC5sbd_PanF; cd10327 1316932002555 Predicted symporter [General function prediction only]; Region: DhlC; COG4147 1316932002556 Na binding site [ion binding]; other site 1316932002557 Protein of unknown function (DUF997); Region: DUF997; pfam06196 1316932002558 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 1316932002559 dimerization interface [polypeptide binding]; other site 1316932002560 DNA binding site [nucleotide binding] 1316932002561 corepressor binding sites; other site 1316932002562 VacJ like lipoprotein; Region: VacJ; cl01073 1316932002563 UDP-N-acetylmuramate:L-alanyl-gamma-D-glutamyl- meso-diaminopimelate ligase; Region: mpl; TIGR01081 1316932002564 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 1316932002565 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 1316932002566 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 1316932002567 Virulence protein [General function prediction only]; Region: COG3943 1316932002568 Virulence protein RhuM family; Region: Virulence_RhuM; pfam13310 1316932002569 Di-haem cytochrome c peroxidase; Region: CCP_MauG; pfam03150 1316932002570 Extended Signal Peptide of Type V secretion system; Region: ESPR; pfam13018 1316932002571 Left-handed beta-roll, including virulence factors and various other proteins; Region: LbR-like; cl17507 1316932002572 trimer interface [polypeptide binding]; other site 1316932002573 Left-handed beta-roll, including virulence factors and various other proteins; Region: LbR-like; cl17507 1316932002574 trimer interface [polypeptide binding]; other site 1316932002575 Haemagglutinin; Region: HIM; pfam05662 1316932002576 Autotransporter adhesin [Intracellular trafficking and secretion / Extracellular structures]; Region: Hia; COG5295 1316932002577 YadA-like C-terminal region; Region: YadA; pfam03895 1316932002578 Domain of unknown function (DUF4298); Region: DUF4298; pfam14131 1316932002579 DNA-binding transcriptional repressor FabR; Provisional; Region: PRK11202 1316932002580 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1316932002581 DNA-binding transcriptional regulator OxyR; Provisional; Region: PRK11151 1316932002582 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1316932002583 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 1316932002584 dimerization interface [polypeptide binding]; other site 1316932002585 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 1316932002586 catalytic triad [active] 1316932002587 dimer interface [polypeptide binding]; other site 1316932002588 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 1316932002589 threonine synthase; Validated; Region: PRK09225 1316932002590 Threonine synthase [Amino acid transport and metabolism]; Region: ThrC; COG0498 1316932002591 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1316932002592 catalytic residue [active] 1316932002593 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 1316932002594 active site 1316932002595 dimer interfaces [polypeptide binding]; other site 1316932002596 catalytic residues [active] 1316932002597 TIGR01666 family membrane protein; Region: YCCS 1316932002598 FUSC-like inner membrane protein yccS; Region: FUSC-like; pfam12805 1316932002599 Fusaric acid resistance protein-like; Region: FUSC_2; pfam13515 1316932002600 HEXXH motif domain; Region: mod_HExxH; TIGR04267 1316932002601 Uncharacterized paraquat-inducible protein A [Function unknown]; Region: PqiA; COG2995 1316932002602 Paraquat-inducible protein A; Region: PqiA; pfam04403 1316932002603 Paraquat-inducible protein A; Region: PqiA; pfam04403 1316932002604 ketol-acid reductoisomerase; Validated; Region: PRK05225 1316932002605 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvN; pfam07991 1316932002606 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvC; pfam01450 1316932002607 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvC; pfam01450 1316932002608 non-metazoan 5-aminoimidazole-4-(N-succinylcarboxamide) ribonucleotide (SAICAR) synthase; Region: SAICAR_synt_Sc; cd01414 1316932002609 ATP binding site [chemical binding]; other site 1316932002610 active site 1316932002611 substrate binding site [chemical binding]; other site 1316932002612 ATP phosphoribosyltransferase; Reviewed; Region: hisG; PRK00489 1316932002613 ATP phosphoribosyltransferase; Region: hisG; TIGR00070 1316932002614 ATP phosphoribosyltransferase, C-terminal domain; Region: HisG_C-term; TIGR03455 1316932002615 Histidinol dehydrogenase [Amino acid transport and metabolism]; Region: HisD; COG0141 1316932002616 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 1316932002617 NAD binding site [chemical binding]; other site 1316932002618 dimerization interface [polypeptide binding]; other site 1316932002619 product binding site; other site 1316932002620 substrate binding site [chemical binding]; other site 1316932002621 zinc binding site [ion binding]; other site 1316932002622 catalytic residues [active] 1316932002623 putative phosphate acyltransferase; Provisional; Region: PRK05331 1316932002624 50S ribosomal protein L32; Validated; Region: rpmF; PRK01110 1316932002625 hypothetical protein; Provisional; Region: PRK11193 1316932002626 Cytochrome C assembly protein; Region: Cytochrom_C_asm; cl00504 1316932002627 Putative Mg2+ and Co2+ transporter CorB [Inorganic ion transport and metabolism]; Region: CorB; COG4536 1316932002628 Domain of unknown function DUF21; Region: DUF21; pfam01595 1316932002629 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 1316932002630 Transporter associated domain; Region: CorC_HlyC; smart01091 1316932002631 uncharacterized bacterial and archaeal solute carrier 6 subfamily; solute-binding domain; Region: SLC6sbd_u1; cd10334 1316932002632 Na2 binding site [ion binding]; other site 1316932002633 putative substrate binding site 1 [chemical binding]; other site 1316932002634 Na binding site 1 [ion binding]; other site 1316932002635 putative substrate binding site 2 [chemical binding]; other site 1316932002636 glutaredoxin 1; Provisional; Region: grxA; PRK11200 1316932002637 ATP-dependent RNA helicase SrmB; Provisional; Region: PRK11192 1316932002638 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 1316932002639 ATP binding site [chemical binding]; other site 1316932002640 Mg++ binding site [ion binding]; other site 1316932002641 motif III; other site 1316932002642 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 1316932002643 nucleotide binding region [chemical binding]; other site 1316932002644 ATP-binding site [chemical binding]; other site 1316932002645 Protein of unknown function (DUF406); Region: DUF406; pfam04175 1316932002646 luciferase family oxidoreductase, group 1; Region: oxido_grp_1; TIGR03558 1316932002647 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cd00347 1316932002648 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 1316932002649 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 1316932002650 DSBA-like thioredoxin domain; Region: DSBA; pfam01323 1316932002651 catalytic residues [active] 1316932002652 hinge region; other site 1316932002653 alpha helical domain; other site 1316932002654 Protein of unknown function (DUF1040); Region: DUF1040; cl01176 1316932002655 putative bifunctional molybdopterin-guanine dinucleotide biosynthesis protein MobA/MobB; Provisional; Region: PRK14489 1316932002656 MobA catalyzes the formation of molybdopterin guanine dinucleotide; Region: MobA; cd02503 1316932002657 GTP binding site; other site 1316932002658 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 1316932002659 Walker A motif; other site 1316932002660 Immunoglobulin A1 protease; Region: Peptidase_S6; pfam02395 1316932002661 Pertactin-like passenger domains (virulence factors), C-terminal, subgroup 1, of autotransporter proteins of the type V secretion system of Gram-negative bacteria. This subgroup includes the passenger domains of Neisseria and Haemophilus IgA1 proteases; Region: PL1_Passenger_AT; cd01343 1316932002662 Autotransporter beta-domain; Region: Autotransporter; pfam03797 1316932002663 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 1316932002664 AMP binding site [chemical binding]; other site 1316932002665 metal binding site [ion binding]; metal-binding site 1316932002666 active site 1316932002667 D-hexose-6-phosphate epimerase-like; Region: D-hex-6-P-epi_like; cd09020 1316932002668 active site 1316932002669 phosphate binding residues; other site 1316932002670 catalytic residues [active] 1316932002671 Pirin-related protein [General function prediction only]; Region: COG1741 1316932002672 Pirin; Region: Pirin; pfam02678 1316932002673 hypothetical protein; Provisional; Region: PRK11212 1316932002674 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 1316932002675 active site 1316932002676 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 1316932002677 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 1316932002678 active site turn [active] 1316932002679 phosphorylation site [posttranslational modification] 1316932002680 PTS system, glucose-like IIB component; Region: EIIB_glc; TIGR00826 1316932002681 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 1316932002682 Phosphotransferase system, EIIC; Region: PTS_EIIC; pfam02378 1316932002683 thiamine transporter ATP-binding subunit; Provisional; Region: thiQ; PRK10771 1316932002684 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1316932002685 Walker A/P-loop; other site 1316932002686 ATP binding site [chemical binding]; other site 1316932002687 Q-loop/lid; other site 1316932002688 ABC transporter signature motif; other site 1316932002689 Walker B; other site 1316932002690 D-loop; other site 1316932002691 H-loop/switch region; other site 1316932002692 thiamine transporter membrane protein; Reviewed; Region: thiP; PRK09433 1316932002693 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 1316932002694 dimer interface [polypeptide binding]; other site 1316932002695 conserved gate region; other site 1316932002696 putative PBP binding loops; other site 1316932002697 ABC-ATPase subunit interface; other site 1316932002698 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 1316932002699 dimerization domain swap beta strand [polypeptide binding]; other site 1316932002700 regulatory protein interface [polypeptide binding]; other site 1316932002701 active site 1316932002702 regulatory phosphorylation site [posttranslational modification]; other site 1316932002703 phosphoenolpyruvate-protein phosphotransferase; Provisional; Region: PRK11177 1316932002704 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 1316932002705 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 1316932002706 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 1316932002707 PTS system glucose-specific transporter subunit; Provisional; Region: PRK09439 1316932002708 HPr interaction site; other site 1316932002709 glycerol kinase (GK) interaction site [polypeptide binding]; other site 1316932002710 active site 1316932002711 phosphorylation site [posttranslational modification] 1316932002712 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional; Region: PRK14325 1316932002713 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 1316932002714 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 1316932002715 FeS/SAM binding site; other site 1316932002716 TRAM domain; Region: TRAM; pfam01938 1316932002717 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 1316932002718 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 1316932002719 putative substrate binding site [chemical binding]; other site 1316932002720 putative ATP binding site [chemical binding]; other site 1316932002721 Beta-fructosidases (levanase/invertase) [Carbohydrate transport and metabolism]; Region: SacC; COG1621 1316932002722 Glycosyl hydrolase family 32, beta-fructosidases; Region: GH32_B_Fructosidase; cd08996 1316932002723 substrate binding [chemical binding]; other site 1316932002724 active site 1316932002725 Glycosyl hydrolases family 32 C terminal; Region: Glyco_hydro_32C; pfam08244 1316932002726 D-fructose-responsive transcription factor; Region: fruct_sucro_rep; TIGR02417 1316932002727 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 1316932002728 DNA binding site [nucleotide binding] 1316932002729 domain linker motif; other site 1316932002730 Ligand binding domain of DNA transcription repressor specific for fructose (FruR) and its close homologs; Region: PBP1_FruR; cd06274 1316932002731 dimerization interface [polypeptide binding]; other site 1316932002732 ligand binding site [chemical binding]; other site 1316932002733 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 1316932002734 DNA-directed RNA polymerase, omega subunit; Region: rpoZ; TIGR00690 1316932002735 bifunctional (p)ppGpp synthetase II/ guanosine-3',5'-bis pyrophosphate 3'-pyrophosphohydrolase; Provisional; Region: PRK11092 1316932002736 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 1316932002737 Zn2+ binding site [ion binding]; other site 1316932002738 Mg2+ binding site [ion binding]; other site 1316932002739 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 1316932002740 synthetase active site [active] 1316932002741 NTP binding site [chemical binding]; other site 1316932002742 metal binding site [ion binding]; metal-binding site 1316932002743 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 1316932002744 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 1316932002745 Abi-like protein; Region: Abi_2; cl01988 1316932002746 ferrochelatase; Reviewed; Region: hemH; PRK00035 1316932002747 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 1316932002748 C-terminal domain interface [polypeptide binding]; other site 1316932002749 active site 1316932002750 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 1316932002751 active site 1316932002752 N-terminal domain interface [polypeptide binding]; other site 1316932002753 50S ribosomal protein L34; Reviewed; Region: rpmH; PRK00399 1316932002754 ribonuclease P; Reviewed; Region: rnpA; PRK01732 1316932002755 Haemolytic domain; Region: Haemolytic; pfam01809 1316932002756 iron-sulfur cluster insertion protein ErpA; Provisional; Region: PRK13623 1316932002757 Chain length determinant protein [Cell envelope biogenesis, outer membrane]; Region: WzzB; COG3765 1316932002758 Chain length determinant protein; Region: Wzz; pfam02706 1316932002759 Glycosyltransferase family 52; Region: Glyco_transf_52; pfam07922 1316932002760 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 1316932002761 Glycosyl transferase family 2; Region: Glycos_transf_2; pfam00535 1316932002762 active site 1316932002763 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 1316932002764 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 1316932002765 active site 1316932002766 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 1316932002767 exopolysaccharide biosynthesis polyprenyl glycosylphosphotransferase; Region: EPS_sugtrans; TIGR03025 1316932002768 Bacterial sugar transferase; Region: Bac_transf; pfam02397 1316932002769 RelA- and SpoT-like ppGpp Synthetases and Hydrolases, catalytic domain; Region: Rel-Spo_like; cl11966 1316932002770 metal binding triad [ion binding]; metal-binding site 1316932002771 dTDP-glucose 4,6 dehydratase; Provisional; Region: PRK10084 1316932002772 dTDP-D-glucose 4,6-dehydratase, extended (e) SDRs; Region: dTDP_GD_SDR_e; cd05246 1316932002773 NAD binding site [chemical binding]; other site 1316932002774 substrate binding site [chemical binding]; other site 1316932002775 homodimer interface [polypeptide binding]; other site 1316932002776 active site 1316932002777 Lipid A core - O-antigen ligase and related enzymes [Cell envelope biogenesis, outer membrane]; Region: RfaL; COG3307 1316932002778 O-Antigen ligase; Region: Wzy_C; pfam04932 1316932002779 Domain of unknown function (DUF820). This family consists of hypothetical proteins that are greatly expanded in cyanobacteria. The proteins are found sporadically in other bacteria. They have been predicted to belong to the PD-(D/E)xK superfamily of...; Region: DUF820; cd06260 1316932002780 putative active site [active] 1316932002781 30S ribosomal protein S21; Reviewed; Region: rpsU; PRK00270 1316932002782 DNA primase; Validated; Region: dnaG; PRK05667 1316932002783 CHC2 zinc finger; Region: zf-CHC2; pfam01807 1316932002784 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 1316932002785 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 1316932002786 active site 1316932002787 metal binding site [ion binding]; metal-binding site 1316932002788 interdomain interaction site; other site 1316932002789 DnaB-helicase binding domain of primase; Region: DnaB_bind; pfam10410 1316932002790 DNA primase DnaG DnaB-binding; Region: DnaG_DnaB_bind; pfam08278 1316932002791 RNA polymerase sigma factor RpoD; Validated; Region: PRK05658 1316932002792 Sigma-70 factor, region 1.1; Region: Sigma70_r1_1; pfam03979 1316932002793 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 1316932002794 Sigma-70, non-essential region; Region: Sigma70_ner; pfam04546 1316932002795 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1316932002796 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 1316932002797 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 1316932002798 DNA binding residues [nucleotide binding] 1316932002799 Domain of unknown function (DUF4163); Region: DUF4163; pfam13739 1316932002800 Protein of unknown function (DUF3298); Region: DUF3298; pfam11738 1316932002801 1,4-dihydroxy-2-naphthoate octaprenyltransferase; Validated; Region: PRK06080 1316932002802 UbiA prenyltransferase family; Region: UbiA; pfam01040 1316932002803 Escherichia coli YaeB and related proteins; Region: UPF0066; cd09281 1316932002804 homodimer interaction site [polypeptide binding]; other site 1316932002805 cofactor binding site; other site 1316932002806 Uncharacterized conserved protein [Function unknown]; Region: COG2968 1316932002807 Protein of unknown function (DUF541); Region: SIMPL; cl01077 1316932002808 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 1316932002809 amphipathic channel; other site 1316932002810 Asn-Pro-Ala signature motifs; other site 1316932002811 FKBP-type peptidyl-prolyl cis-trans isomerase; Provisional; Region: PRK10737 1316932002812 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 1316932002813 threonine dehydratase; Reviewed; Region: PRK09224 1316932002814 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 1316932002815 tetramer interface [polypeptide binding]; other site 1316932002816 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1316932002817 catalytic residue [active] 1316932002818 First of two tandem C-terminal ACT domains of threonine dehydratase I (ThrD-I; L-threonine hydrolyase); Region: ACT_ThrD-I_1; cd04906 1316932002819 putative Ile/Val binding site [chemical binding]; other site 1316932002820 Second of two tandem C-terminal ACT domains of threonine dehydratase I (ThrD-I; L-threonine hydrolyase); Region: ACT_ThrD-I_2; cd04907 1316932002821 putative Ile/Val binding site [chemical binding]; other site 1316932002822 phosphoglucosamine mutase; Provisional; Region: glmM; PRK10887 1316932002823 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 1316932002824 active site 1316932002825 substrate binding site [chemical binding]; other site 1316932002826 metal binding site [ion binding]; metal-binding site 1316932002827 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 1316932002828 tetramer (dimer of dimers) interface [polypeptide binding]; other site 1316932002829 active site 1316932002830 dimer interface [polypeptide binding]; other site 1316932002831 D-3-phosphoglycerate dehydrogenase; Provisional; Region: PRK11790 1316932002832 Phosphoglycerate dehydrogenases, NAD-binding and catalytic domains; Region: PGDH_3; cd12176 1316932002833 ligand binding site [chemical binding]; other site 1316932002834 NAD binding site [chemical binding]; other site 1316932002835 tetramer interface [polypeptide binding]; other site 1316932002836 catalytic site [active] 1316932002837 C-terminal ACT (regulatory) domain of D-3-Phosphoglycerate Dehydrogenase (3PGDH) found in fungi and bacteria; Region: ACT_3PGDH; cd04901 1316932002838 L-serine binding site [chemical binding]; other site 1316932002839 ACT domain interface; other site 1316932002840 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; pfam13505 1316932002841 two-component response regulator; Provisional; Region: PRK11173 1316932002842 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 1316932002843 active site 1316932002844 phosphorylation site [posttranslational modification] 1316932002845 intermolecular recognition site; other site 1316932002846 dimerization interface [polypeptide binding]; other site 1316932002847 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 1316932002848 DNA binding site [nucleotide binding] 1316932002849 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 1316932002850 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 1316932002851 active site 1316932002852 metal binding site [ion binding]; metal-binding site 1316932002853 bifunctional DNA-binding transcriptional repressor/ NMN adenylyltransferase; Provisional; Region: PRK08099 1316932002854 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 1316932002855 active site 1316932002856 nucleotide binding site [chemical binding]; other site 1316932002857 HIGH motif; other site 1316932002858 KMSKS motif; other site 1316932002859 Predicted ATPase/kinase involved in NAD metabolism [Coenzyme metabolism]; Region: NadR; COG3172 1316932002860 bifunctional riboflavin kinase/FMN adenylyltransferase; Reviewed; Region: PRK05627 1316932002861 FAD synthetase, N-terminal domain of the bifunctional enzyme; Region: FAD_synthetase_N; cd02064 1316932002862 active site 1316932002863 Riboflavin kinase; Region: Flavokinase; smart00904 1316932002864 isoleucyl-tRNA synthetase; Reviewed; Region: ileS; PRK05743 1316932002865 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 1316932002866 active site 1316932002867 HIGH motif; other site 1316932002868 nucleotide binding site [chemical binding]; other site 1316932002869 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 1316932002870 active site 1316932002871 KMSKS motif; other site 1316932002872 Anticodon-binding domain of bacterial and eukaryotic mitochondrial isoleucyl tRNA synthetases; Region: Anticodon_Ia_Ile_BEm; cd07960 1316932002873 tRNA binding surface [nucleotide binding]; other site 1316932002874 anticodon binding site; other site 1316932002875 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 1316932002876 Tannase and feruloyl esterase; Region: Tannase; pfam07519 1316932002877 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 1316932002878 phosphatidylserine synthase; Provisional; Region: pssA; PRK09428 1316932002879 Catalytic domain, repeat 1, of phosphatidylserine synthases from gram-negative bacteria; Region: PLDc_PSS_G_neg_1; cd09134 1316932002880 domain interface [polypeptide binding]; other site 1316932002881 putative active site [active] 1316932002882 catalytic site [active] 1316932002883 Catalytic domain, repeat 2, of phosphatidylserine synthases from gram-negative bacteria; Region: PLDc_PSS_G_neg_2; cd09136 1316932002884 domain interface [polypeptide binding]; other site 1316932002885 putative active site [active] 1316932002886 catalytic site [active] 1316932002887 23S rRNA (guanosine-2'-O-)-methyltransferase; Provisional; Region: PRK11181 1316932002888 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; pfam08032 1316932002889 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 1316932002890 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 1316932002891 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1316932002892 Walker A/P-loop; other site 1316932002893 ATP binding site [chemical binding]; other site 1316932002894 Q-loop/lid; other site 1316932002895 ABC transporter signature motif; other site 1316932002896 Walker B; other site 1316932002897 D-loop; other site 1316932002898 H-loop/switch region; other site 1316932002899 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; pfam08352 1316932002900 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1316932002901 Walker A/P-loop; other site 1316932002902 ATP binding site [chemical binding]; other site 1316932002903 Q-loop/lid; other site 1316932002904 ABC transporter signature motif; other site 1316932002905 Walker B; other site 1316932002906 D-loop; other site 1316932002907 H-loop/switch region; other site 1316932002908 nickel ABC transporter, permease subunit NikC; Region: nickel_nikC; TIGR02790 1316932002909 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 1316932002910 dimer interface [polypeptide binding]; other site 1316932002911 conserved gate region; other site 1316932002912 putative PBP binding loops; other site 1316932002913 ABC-ATPase subunit interface; other site 1316932002914 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 1316932002915 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 1316932002916 dimer interface [polypeptide binding]; other site 1316932002917 conserved gate region; other site 1316932002918 putative PBP binding loops; other site 1316932002919 ABC-ATPase subunit interface; other site 1316932002920 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 1316932002921 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_3; cd08490 1316932002922 peptide chain release factor 3; Provisional; Region: prfC; PRK00741 1316932002923 Release Factor 3 (RF3) protein involved in the terminal step of translocation in bacteria; Region: RF3; cd04169 1316932002924 G1 box; other site 1316932002925 putative GEF interaction site [polypeptide binding]; other site 1316932002926 GTP/Mg2+ binding site [chemical binding]; other site 1316932002927 Switch I region; other site 1316932002928 G2 box; other site 1316932002929 G3 box; other site 1316932002930 Switch II region; other site 1316932002931 G4 box; other site 1316932002932 G5 box; other site 1316932002933 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 1316932002934 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 1316932002935 D-alanyl-D-alanine carboxypeptidase; Region: Peptidase_S11; pfam00768 1316932002936 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 1316932002937 putative active site [active] 1316932002938 catalytic residue [active] 1316932002939 GTP-binding protein YchF; Reviewed; Region: PRK09601 1316932002940 YchF GTPase; Region: YchF; cd01900 1316932002941 G1 box; other site 1316932002942 GTP/Mg2+ binding site [chemical binding]; other site 1316932002943 Switch I region; other site 1316932002944 G2 box; other site 1316932002945 Switch II region; other site 1316932002946 G3 box; other site 1316932002947 G4 box; other site 1316932002948 G5 box; other site 1316932002949 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 1316932002950 L-lactate permease [Energy production and conversion]; Region: LldP; COG1620 1316932002951 L-lactate permease; Region: Lactate_perm; cl00701 1316932002952 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 1316932002953 Cysteine-rich domain; Region: CCG; pfam02754 1316932002954 Cysteine-rich domain; Region: CCG; pfam02754 1316932002955 Uncharacterized conserved protein containing a ferredoxin-like domain [Energy production and conversion]; Region: COG1139 1316932002956 Uncharacterized ACR, YkgG family COG1556; Region: DUF162; pfam02589 1316932002957 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 1316932002958 Domain of unknown function (DUF3390); Region: DUF3390; pfam11870 1316932002959 Uncharacterized conserved protein [Function unknown]; Region: COG1556 1316932002960 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 1316932002961 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 1316932002962 ribonuclease PH; Reviewed; Region: rph; PRK00173 1316932002963 Ribonuclease PH; Region: RNase_PH_bact; cd11362 1316932002964 hexamer interface [polypeptide binding]; other site 1316932002965 active site 1316932002966 hypothetical protein; Provisional; Region: PRK11820 1316932002967 YicC-like family, N-terminal region; Region: YicC_N; pfam03755 1316932002968 Domain of unknown function (DUF1732); Region: DUF1732; pfam08340 1316932002969 putative global regulator; Reviewed; Region: PRK09559 1316932002970 folate-binding protein YgfZ; Region: ygfZ_signature; TIGR03317 1316932002971 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 1316932002972 D-ribose pyranase; Provisional; Region: PRK11797 1316932002973 D-ribose transporter ATP binding protein; Provisional; Region: PRK10762 1316932002974 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 1316932002975 Walker A/P-loop; other site 1316932002976 ATP binding site [chemical binding]; other site 1316932002977 Q-loop/lid; other site 1316932002978 ABC transporter signature motif; other site 1316932002979 Walker B; other site 1316932002980 D-loop; other site 1316932002981 H-loop/switch region; other site 1316932002982 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 1316932002983 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1316932002984 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 1316932002985 TM-ABC transporter signature motif; other site 1316932002986 D-ribose transporter subunit RbsB; Provisional; Region: PRK10653 1316932002987 Periplasmic sugar-binding domain of the thermophilic Thermoanaerobacter tengcongensis ribose binding protein (ttRBP) and its mesophilic homologs; Region: PBP1_ribose_binding; cd06323 1316932002988 ligand binding site [chemical binding]; other site 1316932002989 dimerization interface [polypeptide binding]; other site 1316932002990 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 1316932002991 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 1316932002992 substrate binding site [chemical binding]; other site 1316932002993 dimer interface [polypeptide binding]; other site 1316932002994 ATP binding site [chemical binding]; other site 1316932002995 transcriptional repressor RbsR; Provisional; Region: PRK10423 1316932002996 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 1316932002997 DNA binding site [nucleotide binding] 1316932002998 domain linker motif; other site 1316932002999 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 1316932003000 dimerization interface [polypeptide binding]; other site 1316932003001 ligand binding site [chemical binding]; other site 1316932003002 transcriptional regulator NarP; Provisional; Region: PRK10403 1316932003003 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 1316932003004 active site 1316932003005 phosphorylation site [posttranslational modification] 1316932003006 intermolecular recognition site; other site 1316932003007 dimerization interface [polypeptide binding]; other site 1316932003008 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 1316932003009 DNA binding residues [nucleotide binding] 1316932003010 dimerization interface [polypeptide binding]; other site 1316932003011 23S rRNA m(2)G2445 methyltransferase; Provisional; Region: rlmL; PRK11783 1316932003012 THUMP domain associated with S-adenosylmethionine-dependent methyltransferases; Region: THUMP_AdoMetMT; cd11715 1316932003013 Putative RNA methylase family UPF0020; Region: UPF0020; pfam01170 1316932003014 Middle domain of the SAM-dependent methyltransferase RlmI and related proteins; Region: RlmI_M_like; cd11572 1316932003015 putative RNA binding site [nucleotide binding]; other site 1316932003016 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 1316932003017 S-adenosylmethionine binding site [chemical binding]; other site 1316932003018 Predicted rRNA methylase (SpoU class) [Translation, ribosomal structure and biogenesis]; Region: CspR; COG0219 1316932003019 BRO family, N-terminal domain; Region: Bro-N; smart01040 1316932003020 6-phosphogluconolactonase/Glucosamine-6-phosphate isomerase/deaminase [Carbohydrate transport and metabolism]; Region: NagB; COG0363 1316932003021 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 1316932003022 active site 1316932003023 trimer interface [polypeptide binding]; other site 1316932003024 allosteric site; other site 1316932003025 active site lid [active] 1316932003026 hexamer (dimer of trimers) interface [polypeptide binding]; other site 1316932003027 N-acetylglucosamine-6-phosphate deacetylase [Carbohydrate transport and metabolism]; Region: NagA; COG1820 1316932003028 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 1316932003029 active site 1316932003030 dimer interface [polypeptide binding]; other site 1316932003031 Uncharacterized protein conserved in bacteria (DUF2322); Region: DUF2322; pfam10084 1316932003032 tyrosyl-tRNA synthetase; Validated; Region: PRK05912 1316932003033 catalytic core domain of tyrosinyl-tRNA synthetase; Region: TyrRS_core; cd00805 1316932003034 active site 1316932003035 HIGH motif; other site 1316932003036 dimer interface [polypeptide binding]; other site 1316932003037 KMSKS motif; other site 1316932003038 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 1316932003039 RNA binding surface [nucleotide binding]; other site 1316932003040 Na+-transporting oxaloacetate decarboxylase beta subunit; Region: OAD_beta; cl00816 1316932003041 oxaloacetate decarboxylase; Provisional; Region: PRK14040 1316932003042 Pyruvate carboxylase and Transcarboxylase 5S, carboxyltransferase domain; Region: DRE_TIM_PC_TC_5S; cd07937 1316932003043 active site 1316932003044 catalytic residues [active] 1316932003045 metal binding site [ion binding]; metal-binding site 1316932003046 homodimer binding site [polypeptide binding]; other site 1316932003047 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 1316932003048 carboxyltransferase (CT) interaction site; other site 1316932003049 biotinylation site [posttranslational modification]; other site 1316932003050 oxaloacetate decarboxylase subunit gamma; Provisional; Region: PRK02919 1316932003051 Mn2+ and Fe2+ transporters of the NRAMP family [Inorganic ion transport and metabolism]; Region: MntH; COG1914 1316932003052 Escherichia coli putative lactam utilization protein YbgL and similar proteins; Region: LamB_YcsF_YbgL_like; cd10800 1316932003053 putative active site [active] 1316932003054 Allophanate hydrolase subunit 2 [Amino acid transport and metabolism]; Region: DUR1; COG1984 1316932003055 Allophanate hydrolase subunit 1; Region: AHS1; pfam02682 1316932003056 Allophanate hydrolase subunit 1 [Amino acid transport and metabolism]; Region: DUR1; COG2049 1316932003057 DNA ligase; Provisional; Region: PRK09125 1316932003058 Adenylation domain of kDNA ligases and similar proteins; Region: Adenylation_kDNA_ligase_like; cd07896 1316932003059 DNA binding site [nucleotide binding] 1316932003060 active site 1316932003061 The Oligonucleotide/oligosaccharide binding (OB)-fold domain of kDNA ligase-like ATP-dependent DNA ligases is a DNA-binding module that is part of the catalytic core unit; Region: OBF_kDNA_ligase_like; cd08041 1316932003062 DNA binding site [nucleotide binding] 1316932003063 Predicted divalent heavy-metal cations transporter [Inorganic ion transport and metabolism]; Region: COG0428 1316932003064 Protein of unknown function (DUF805); Region: DUF805; pfam05656 1316932003065 YihA (EngB) GTPase family; Region: YihA_EngB; cd01876 1316932003066 Elongation factor Tu GTP binding domain; Region: GTP_EFTU; pfam00009 1316932003067 G1 box; other site 1316932003068 GTP/Mg2+ binding site [chemical binding]; other site 1316932003069 Switch I region; other site 1316932003070 G2 box; other site 1316932003071 G3 box; other site 1316932003072 Switch II region; other site 1316932003073 G4 box; other site 1316932003074 G5 box; other site 1316932003075 RNase E inhibitor protein; Provisional; Region: PRK11191 1316932003076 Protein of unknown function (DUF1260); Region: DUF1260; pfam06877 1316932003077 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 1316932003078 CPxP motif; other site 1316932003079 proline dipeptidase; Provisional; Region: PRK13607 1316932003080 A family including aminopeptidase P, aminopeptidase M, and prolidase. Also known as metallopeptidase family M24. This family of enzymes is able to cleave amido-, imido- and amidino-containing bonds. Members exibit relatively narrow substrate specificity...; Region: APP_MetAP; cl00279 1316932003081 active site 1316932003082 phage T7 F exclusion suppressor FxsA; Reviewed; Region: fxsA; PRK11463 1316932003083 EamA-like transporter family; Region: EamA; pfam00892 1316932003084 23S rRNA pseudouridine synthase E; Provisional; Region: PRK11394 1316932003085 Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi); Region: PseudoU_synth; cl00130 1316932003086 active site 1316932003087 NADH pyrophosphatase; Reviewed; Region: nudC; PRK00241 1316932003088 NADH pyrophosphatase-like rudimentary NUDIX domain; Region: NUDIX-like; pfam09296 1316932003089 NADH pyrophosphatase zinc ribbon domain; Region: zf-NADH-PPase; pfam09297 1316932003090 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 1316932003091 putative NADH binding site [chemical binding]; other site 1316932003092 putative active site [active] 1316932003093 nudix motif; other site 1316932003094 putative metal binding site [ion binding]; other site 1316932003095 ribonucleotide-diphosphate reductase subunit alpha; Validated; Region: PRK09102 1316932003096 Class I ribonucleotide reductase; Region: RNR_I; cd01679 1316932003097 active site 1316932003098 dimer interface [polypeptide binding]; other site 1316932003099 catalytic residues [active] 1316932003100 effector binding site; other site 1316932003101 R2 peptide binding site; other site 1316932003102 Ribonucleotide Reductase, R2/beta subunit, ferritin-like diiron-binding domain; Region: RNRR2; cd01049 1316932003103 dimer interface [polypeptide binding]; other site 1316932003104 putative radical transfer pathway; other site 1316932003105 diiron center [ion binding]; other site 1316932003106 tyrosyl radical; other site 1316932003107 tRNA-dihydrouridine synthase A; Provisional; Region: PRK11815 1316932003108 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 1316932003109 FMN binding site [chemical binding]; other site 1316932003110 active site 1316932003111 catalytic residues [active] 1316932003112 substrate binding site [chemical binding]; other site 1316932003113 Uncharacterized integral membrane protein (DUF2301); Region: DUF2301; cl02241 1316932003114 isopropylmalate isomerase small subunit; Provisional; Region: leuD; PRK01641 1316932003115 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 1316932003116 substrate binding site [chemical binding]; other site 1316932003117 3-isopropylmalate dehydratase large subunit; Reviewed; Region: PRK00402 1316932003118 3-isopropylmalate dehydratase catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate; Region: IPMI; cd01583 1316932003119 substrate binding site [chemical binding]; other site 1316932003120 ligand binding site [chemical binding]; other site 1316932003121 oligopeptide ABC transporter substrate-binding protein OppA; Provisional; Region: PRK15104 1316932003122 The substrate-binding component of an ABC-type oligopetide import system contains the type 2 periplasmic binding fold; Region: PBP2_OppA; cd08504 1316932003123 peptide binding site [polypeptide binding]; other site 1316932003124 Acylphosphatase; Region: Acylphosphatase; cl00551 1316932003125 aminopeptidase N; Provisional; Region: pepN; PRK14015 1316932003126 Peptidase M1 family containing Aminopeptidase N; Region: M1_APN_1; cd09600 1316932003127 active site 1316932003128 Zn binding site [ion binding]; other site 1316932003129 Putative heme iron utilization protein [Inorganic ion transport and metabolism]; Region: HugZ; COG0748 1316932003130 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 1316932003131 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 1316932003132 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 1316932003133 ligand-binding site [chemical binding]; other site 1316932003134 Haem utilisation ChuX/HutX; Region: ChuX_HutX; cl01509 1316932003135 Tryptophan/tyrosine permease family; Region: Trp_Tyr_perm; cl17316 1316932003136 aromatic amino acid transport protein; Region: araaP; TIGR00837 1316932003137 transcription-repair coupling factor; Provisional; Region: PRK10689 1316932003138 CarD-like/TRCF domain; Region: CarD_TRCF; smart01058 1316932003139 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 1316932003140 ATP binding site [chemical binding]; other site 1316932003141 putative Mg++ binding site [ion binding]; other site 1316932003142 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 1316932003143 nucleotide binding region [chemical binding]; other site 1316932003144 ATP-binding site [chemical binding]; other site 1316932003145 This domain is found in proteins necessary for strand-specific repair in DNA such as TRCF in Escherichia coli; Region: TRCF; smart00982 1316932003146 Protein of unknown function (DUF497); Region: DUF497; pfam04365 1316932003147 Domain of unknown function (DUF4415); Region: DUF4415; pfam14384 1316932003148 Virulence-associated protein and related proteins [Function unknown]; Region: VagC; COG4456 1316932003149 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 1316932003150 oligomeric interface; other site 1316932003151 putative active site [active] 1316932003152 homodimer interface [polypeptide binding]; other site 1316932003153 peptidase T; Region: peptidase-T; TIGR01882 1316932003154 M20 Peptidase T specifically cleaves tripeptides; Region: M20_peptT; cd03892 1316932003155 metal binding site [ion binding]; metal-binding site 1316932003156 dimer interface [polypeptide binding]; other site 1316932003157 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 1316932003158 atypical (a) SDRs, subgroup 4; Region: SDR_a4; cd05266 1316932003159 putative NAD(P) binding site [chemical binding]; other site 1316932003160 ABC-type Mn2+/Zn2+ transport systems, permease components [Inorganic ion transport and metabolism]; Region: ZnuB; COG1108 1316932003161 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 1316932003162 ABC-ATPase subunit interface; other site 1316932003163 dimer interface [polypeptide binding]; other site 1316932003164 putative PBP binding regions; other site 1316932003165 ABC-type Mn2+/Zn2+ transport systems, permease components [Inorganic ion transport and metabolism]; Region: ZnuB; COG1108 1316932003166 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 1316932003167 ABC-ATPase subunit interface; other site 1316932003168 dimer interface [polypeptide binding]; other site 1316932003169 putative PBP binding regions; other site 1316932003170 ABC-type Mn/Zn transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: ZnuC; COG1121 1316932003171 ATP-binding cassette domain of the metal-type transporters; Region: ABC_Metallic_Cations; cd03235 1316932003172 ABC-type metal ion transport system, periplasmic component/surface adhesin [Inorganic ion transport and metabolism]; Region: LraI; COG0803 1316932003173 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 1316932003174 metal binding site [ion binding]; metal-binding site 1316932003175 ribosomal RNA large subunit methyltransferase N; Provisional; Region: PRK11194 1316932003176 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 1316932003177 FeS/SAM binding site; other site 1316932003178 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 1316932003179 non-specific DNA binding site [nucleotide binding]; other site 1316932003180 salt bridge; other site 1316932003181 sequence-specific DNA binding site [nucleotide binding]; other site 1316932003182 Cytotoxic translational repressor of toxin-antitoxin stability system [Translation, ribosomal structure and biogenesis / Cell division and chromosome partitioning]; Region: RelE; COG2026 1316932003183 TPR repeat; Region: TPR_11; pfam13414 1316932003184 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 1316932003185 binding surface 1316932003186 TPR motif; other site 1316932003187 Transcriptional accessory protein [Transcription]; Region: Tex; COG2183 1316932003188 Tex-like protein N-terminal domain; Region: Tex_N; pfam09371 1316932003189 Likely ribonuclease with RNase H fold; Region: YqgFc; smart00732 1316932003190 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 1316932003191 RNA binding site [nucleotide binding]; other site 1316932003192 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 1316932003193 putative FMN binding site [chemical binding]; other site 1316932003194 signal peptide peptidase SppA, 67K type; Region: SppA_67K; TIGR00705 1316932003195 Signal peptide peptidase A (SppA) 67K type, a serine protease, has catalytic Ser-Lys dyad; Region: S49_SppA_67K_type; cd07018 1316932003196 tandem repeat interface [polypeptide binding]; other site 1316932003197 oligomer interface [polypeptide binding]; other site 1316932003198 active site residues [active] 1316932003199 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 1316932003200 tandem repeat interface [polypeptide binding]; other site 1316932003201 oligomer interface [polypeptide binding]; other site 1316932003202 active site residues [active] 1316932003203 Solute carrier families 5 and 6-like; solute binding domain; Region: SLC5-6-like_sbd; cl00456 1316932003204 Na binding site [ion binding]; other site 1316932003205 HMP-P kinase/thiamin-monophosphate pyrophosphorylase; Region: PLN02898 1316932003206 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 1316932003207 dimer interface [polypeptide binding]; other site 1316932003208 substrate binding site [chemical binding]; other site 1316932003209 ATP binding site [chemical binding]; other site 1316932003210 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 1316932003211 thiamine phosphate binding site [chemical binding]; other site 1316932003212 active site 1316932003213 pyrophosphate binding site [ion binding]; other site 1316932003214 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 1316932003215 metabolite-proton symporter; Region: 2A0106; TIGR00883 1316932003216 putative substrate translocation pore; other site 1316932003217 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 1316932003218 substrate binding site [chemical binding]; other site 1316932003219 multimerization interface [polypeptide binding]; other site 1316932003220 ATP binding site [chemical binding]; other site 1316932003221 anaerobic ribonucleoside triphosphate reductase; Provisional; Region: PRK08271 1316932003222 Class III ribonucleotide reductase; Region: RNR_III; cd01675 1316932003223 effector binding site; other site 1316932003224 active site 1316932003225 Zn binding site [ion binding]; other site 1316932003226 glycine loop; other site 1316932003227 anaerobic ribonucleotide reductase-activating protein; Provisional; Region: nrdG; cl15804 1316932003228 acetolactate synthase 2 regulatory subunit; Provisional; Region: ilvM; PRK11152 1316932003229 acetolactate synthase 2 catalytic subunit; Reviewed; Region: PRK08978 1316932003230 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 1316932003231 PYR/PP interface [polypeptide binding]; other site 1316932003232 dimer interface [polypeptide binding]; other site 1316932003233 TPP binding site [chemical binding]; other site 1316932003234 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 1316932003235 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 1316932003236 TPP-binding site [chemical binding]; other site 1316932003237 dimer interface [polypeptide binding]; other site 1316932003238 cytochrome c nitrite reductase subunit c552; Provisional; Region: nrfA; PRK11125 1316932003239 cytochrome c nitrite reductase pentaheme subunit; Provisional; Region: PRK11659 1316932003240 cytochrome c nitrite reductase, Fe-S protein; Region: cyt_nit_nrfC; TIGR03149 1316932003241 Formate-dependent nitrite reductase, membrane component [Inorganic ion transport and metabolism]; Region: NrfD; COG3301 1316932003242 cytochrome c nitrite reductase, NrfD subunit; Region: cyt_nit_nrfD; TIGR03148 1316932003243 cytochrome c nitrate reductase biogenesis protein NrfE; Region: cyt_nit_nrfE; TIGR03145 1316932003244 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 1316932003245 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 1316932003246 cytochrome c nitrite reductase, accessory protein NrfF; Region: cyt_nit_nrfF; TIGR03147 1316932003247 formate-dependent nitrite reductase complex subunit NrfG; Provisional; Region: PRK10370 1316932003248 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 1316932003249 binding surface 1316932003250 TPR motif; other site 1316932003251 serine endoprotease; Provisional; Region: PRK10942 1316932003252 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 1316932003253 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 1316932003254 protein binding site [polypeptide binding]; other site 1316932003255 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 1316932003256 protein binding site [polypeptide binding]; other site 1316932003257 putative ABC transporter ATP-binding protein YrbF; Provisional; Region: PRK11831 1316932003258 ATP-binding cassette transport system involved in resistant to organic solvents; Region: ABC_Org_Solvent_Resistant; cd03261 1316932003259 Walker A/P-loop; other site 1316932003260 ATP binding site [chemical binding]; other site 1316932003261 Q-loop/lid; other site 1316932003262 ABC transporter signature motif; other site 1316932003263 Walker B; other site 1316932003264 D-loop; other site 1316932003265 H-loop/switch region; other site 1316932003266 ABC-type transport system involved in resistance to organic solvents, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2B; COG0767 1316932003267 conserved hypothetical integral membrane protein; Region: TIGR00056 1316932003268 ABC-type transport system involved in resistance to organic solvents, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2C; COG1463 1316932003269 mce related protein; Region: MCE; pfam02470 1316932003270 Toluene tolerance, Ttg2; Region: Tol_Tol_Ttg2; cl01074 1316932003271 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 1316932003272 anti sigma factor interaction site; other site 1316932003273 regulatory phosphorylation site [posttranslational modification]; other site 1316932003274 Predicted transcriptional regulator, BolA superfamily [Transcription]; Region: COG5007 1316932003275 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Region: murA; TIGR01072 1316932003276 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 1316932003277 hinge; other site 1316932003278 active site 1316932003279 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 1316932003280 active site 1316932003281 putative DNA-binding cleft [nucleotide binding]; other site 1316932003282 dimer interface [polypeptide binding]; other site 1316932003283 hypothetical protein; Validated; Region: PRK00110 1316932003284 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 1316932003285 nudix motif; other site 1316932003286 Uncharacterized conserved protein [Function unknown]; Region: COG1801 1316932003287 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 1316932003288 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 1316932003289 Autotransporter beta-domain; Region: Autotransporter; pfam03797 1316932003290 Mu DNA-binding domain; Region: HTH_Tnp_Mu_1; pfam02316 1316932003291 Predicted transcriptional regulator [Transcription]; Region: COG2932 1316932003292 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 1316932003293 Catalytic site [active] 1316932003294 Winged helix-turn-helix DNA-binding; Region: HTH_35; cl17423 1316932003295 Mu DNA-binding domain; Region: HTH_Tnp_Mu_1; pfam02316 1316932003296 Mu DNA binding, I gamma subdomain; Region: HTH_Tnp_Mu_2; pfam09039 1316932003297 Bacteriophage Mu transposase; Region: DDE_2; pfam02914 1316932003298 Mu transposase, C-terminal; Region: Mu-transpos_C; pfam09299 1316932003299 Uncharacterized ATPase, putative transposase [General function prediction only]; Region: COG2842 1316932003300 Mu B transposition protein, C terminal; Region: Phage-MuB_C; pfam09077 1316932003301 Bacteriophage Mu Gam like protein; Region: Phage_Mu_Gam; cl01825 1316932003302 Protein of unknown function (DUF1018); Region: DUF1018; pfam06252 1316932003303 Mor transcription activator family; Region: Mor; pfam08765 1316932003304 Lysozyme family protein [General function prediction only]; Region: zliS; COG3926 1316932003305 Glycosyl hydrolase 108; Region: Glyco_hydro_108; pfam05838 1316932003306 Predicted Peptidoglycan domain; Region: PG_binding_3; pfam09374 1316932003307 Protein of unknown function (DUF2644); Region: DUF2644; pfam10841 1316932003308 Protein of unknown function (DUF2681); Region: DUF2681; pfam10883 1316932003309 Protein of unknown function (DUF2730); Region: DUF2730; pfam10805 1316932003310 Ribonuclease R winged-helix domain; Region: HTH_12; pfam08461 1316932003311 Protein of unknown function (DUF3486); Region: DUF3486; pfam11985 1316932003312 Mu-like prophage FluMu protein gp28 [General function prediction only]; Region: COG4373 1316932003313 Terminase-like family; Region: Terminase_6; pfam03237 1316932003314 Protein of unknown function (DUF935); Region: DUF935; pfam06074 1316932003315 Mu-like prophage protein gp29 [Function unknown]; Region: COG4383 1316932003316 Phage Mu protein F like protein; Region: Phage_Mu_F; cl10072 1316932003317 Phage virion morphogenesis family; Region: Phage_tail_S; pfam05069 1316932003318 Phage major capsid protein E; Region: Phage_cap_E; pfam03864 1316932003319 Protein of unknown function (DUF1320); Region: DUF1320; pfam07030 1316932003320 Gp37 protein; Region: Gp37; pfam09646 1316932003321 Phage tail sheath protein; Region: Phage_sheath_1; cl01389 1316932003322 Phage tail sheath protein; Region: Phage_sheath_1; cl01389 1316932003323 Phage tail tube protein FII; Region: Phage_tube; pfam04985 1316932003324 Mu-like prophage FluMu protein gp41; Region: FluMu_gp41; pfam10109 1316932003325 Phage-related minor tail protein; Region: PhageMin_Tail; pfam10145 1316932003326 membrane protein P6; Region: PHA01399 1316932003327 Phage P2 GpU; Region: Phage_P2_GpU; cl01391 1316932003328 Phage Tail Protein X; Region: Phage_tail_X; cl02088 1316932003329 Phage late control gene D protein (GPD); Region: Phage_GPD; cl15796 1316932003330 phage baseplate assembly protein V; Region: phage_P2_V; TIGR01644 1316932003331 Phage-related baseplate assembly protein; Region: Phage_base_V; pfam04717 1316932003332 Gene 25-like lysozyme; Region: GPW_gp25; cl01403 1316932003333 Baseplate J-like protein; Region: Baseplate_J; cl01294 1316932003334 Phage tail protein (Tail_P2_I); Region: Tail_P2_I; cl01817 1316932003335 N-terminal domain of PARMER_03128; Region: PARMER_03128_N; cd12106 1316932003336 Immunoglobulin A1 protease; Region: Peptidase_S6; pfam02395 1316932003337 aspartyl-tRNA synthetase; Validated; Region: aspS; PRK00476 1316932003338 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 1316932003339 dimer interface [polypeptide binding]; other site 1316932003340 anticodon binding site; other site 1316932003341 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 1316932003342 homodimer interface [polypeptide binding]; other site 1316932003343 motif 1; other site 1316932003344 active site 1316932003345 motif 2; other site 1316932003346 GAD domain; Region: GAD; pfam02938 1316932003347 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 1316932003348 active site 1316932003349 motif 3; other site 1316932003350 Predicted membrane protein [Function unknown]; Region: COG2431 1316932003351 DNA Polymerase IV/Kappa; Region: PolY_Pol_IV_kappa; cd03586 1316932003352 active site 1316932003353 DNA polymerase IV; Validated; Region: PRK02406 1316932003354 DNA binding site [nucleotide binding] 1316932003355 heat shock protein HtpX; Provisional; Region: PRK05457 1316932003356 Predicted membrane protein [Function unknown]; Region: COG1238 1316932003357 formate transporter FocA; Region: formate_focA; TIGR04060 1316932003358 formate acetyltransferase 1; Region: pyr_form_ly_1; TIGR01255 1316932003359 Pyruvate formate lyase 1; Region: PFL1; cd01678 1316932003360 coenzyme A binding site [chemical binding]; other site 1316932003361 active site 1316932003362 catalytic residues [active] 1316932003363 glycine loop; other site 1316932003364 Virulence protein [General function prediction only]; Region: COG3943 1316932003365 Virulence protein RhuM family; Region: Virulence_RhuM; pfam13310 1316932003366 pyruvate formate lyase-activating enzyme 1; Provisional; Region: pflA; PRK11145 1316932003367 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 1316932003368 FeS/SAM binding site; other site 1316932003369 oligopeptidase A; Provisional; Region: PRK10911 1316932003370 Peptidase family M3 dipeptidyl carboxypeptidase (DCP); Region: M3A_DCP; cd06456 1316932003371 active site 1316932003372 Zn binding site [ion binding]; other site 1316932003373 bifunctional chorismate mutase/prephenate dehydratase; Provisional; Region: pheA; PRK10622 1316932003374 chorismate mutase domain of proteobacterial P-protein, clade 1; Region: CM_P_1; TIGR01797 1316932003375 Prephenate dehydratase; Region: PDT; pfam00800 1316932003376 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 1316932003377 putative L-Phe binding site [chemical binding]; other site 1316932003378 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2841 1316932003379 adenylate kinase; Reviewed; Region: adk; PRK00279 1316932003380 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 1316932003381 AMP-binding site [chemical binding]; other site 1316932003382 ATP-AMP (Ap5A)-binding site [chemical binding]; other site 1316932003383 Outer membrane receptor for ferric coprogen and ferric-rhodotorulic acid [Inorganic ion transport and metabolism]; Region: FhuE; COG4773 1316932003384 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 1316932003385 ligand-binding site [chemical binding]; other site 1316932003386 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 1316932003387 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 1316932003388 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 1316932003389 ABC-ATPase subunit interface; other site 1316932003390 dimer interface [polypeptide binding]; other site 1316932003391 putative PBP binding regions; other site 1316932003392 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 1316932003393 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 1316932003394 ABC-ATPase subunit interface; other site 1316932003395 dimer interface [polypeptide binding]; other site 1316932003396 putative PBP binding regions; other site 1316932003397 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 1316932003398 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 1316932003399 intersubunit interface [polypeptide binding]; other site 1316932003400 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 1316932003401 Walker A/P-loop; other site 1316932003402 ATP binding site [chemical binding]; other site 1316932003403 ABC transporter; Region: ABC_tran; pfam00005 1316932003404 Q-loop/lid; other site 1316932003405 ABC transporter signature motif; other site 1316932003406 Walker B; other site 1316932003407 D-loop; other site 1316932003408 H-loop/switch region; other site 1316932003409 muropeptide transporter; Reviewed; Region: ampG; PRK11902 1316932003410 AmpG-like permease; Region: 2A0125; TIGR00901 1316932003411 B12-dependent methionine synthase; Provisional; Region: metH; PRK09490 1316932003412 Methionine synthase I (cobalamin-dependent), methyltransferase domain [Amino acid transport and metabolism]; Region: MetH; COG0646 1316932003413 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 1316932003414 substrate binding pocket [chemical binding]; other site 1316932003415 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 1316932003416 B12 binding site [chemical binding]; other site 1316932003417 cobalt ligand [ion binding]; other site 1316932003418 Vitamin B12 dependent methionine synthase, activation domain; Region: Met_synt_B12; pfam02965 1316932003419 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N_2; pfam13588 1316932003420 N-6 DNA Methylase; Region: N6_Mtase; pfam02384 1316932003421 Methyltransferase domain; Region: Methyltransf_26; pfam13659 1316932003422 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 1316932003423 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 1316932003424 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 1316932003425 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 1316932003426 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 1316932003427 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 1316932003428 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 1316932003429 Walker A/P-loop; other site 1316932003430 ATP binding site [chemical binding]; other site 1316932003431 Q-loop/lid; other site 1316932003432 ABC transporter signature motif; other site 1316932003433 Walker B; other site 1316932003434 D-loop; other site 1316932003435 H-loop/switch region; other site 1316932003436 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 1316932003437 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 1316932003438 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 1316932003439 putative PBP binding regions; other site 1316932003440 ABC-ATPase subunit interface; other site 1316932003441 putative addiction module killer protein; Region: upstrm_HI1419; TIGR02683 1316932003442 Predicted transcriptional regulator [Transcription]; Region: COG3636; cl17681 1316932003443 Outer membrane cobalamin receptor protein [Coenzyme metabolism]; Region: BtuB; COG4206 1316932003444 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 1316932003445 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 1316932003446 intersubunit interface [polypeptide binding]; other site 1316932003447 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 1316932003448 FAD binding site [chemical binding]; other site 1316932003449 UDP-glucose 4-epimerase [Cell envelope biogenesis, outer membrane]; Region: GalE; COG1087 1316932003450 UDP-glucose 4 epimerase, subgroup 1, extended (e) SDRs; Region: UDP_G4E_1_SDR_e; cd05247 1316932003451 NAD binding site [chemical binding]; other site 1316932003452 homodimer interface [polypeptide binding]; other site 1316932003453 active site 1316932003454 substrate binding site [chemical binding]; other site 1316932003455 Trm112p-like protein; Region: Trm112p; cl01066 1316932003456 tetraacyldisaccharide 4'-kinase; Reviewed; Region: lpxK; PRK00652 1316932003457 tetraacyldisaccharide 4'-kinase; Region: lpxK; TIGR00682 1316932003458 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 1316932003459 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 1316932003460 non-specific DNA binding site [nucleotide binding]; other site 1316932003461 salt bridge; other site 1316932003462 sequence-specific DNA binding site [nucleotide binding]; other site 1316932003463 Fic family protein [Function unknown]; Region: COG3177 1316932003464 Fic/DOC family; Region: Fic; pfam02661 1316932003465 ATP-dependent protease ATP-binding subunit ClpX; Provisional; Region: clpX; PRK05342 1316932003466 ClpX C4-type zinc finger; Region: zf-C4_ClpX; smart00994 1316932003467 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 1316932003468 Walker A motif; other site 1316932003469 ATP binding site [chemical binding]; other site 1316932003470 Walker B motif; other site 1316932003471 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 1316932003472 Protease subunit of ATP-dependent Clp proteases [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: ClpP; COG0740 1316932003473 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 1316932003474 oligomer interface [polypeptide binding]; other site 1316932003475 active site residues [active] 1316932003476 Fe-S metabolism associated domain; Region: SufE; cl00951 1316932003477 Methyltransferase domain; Region: Methyltransf_31; pfam13847 1316932003478 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 1316932003479 S-adenosylmethionine binding site [chemical binding]; other site 1316932003480 anthranilate phosphoribosyltransferase; Provisional; Region: trpD; PRK00188 1316932003481 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 1316932003482 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 1316932003483 4-Oxalocrotonate Tautomerase: Catalyzes the isomerization of unsaturated ketones. The structure is a homohexamer that is arranged as a trimer of dimers. The hexamer contains six active sites, each formed by residues from three monomers, two from one...; Region: 4Oxalocrotonate_Tautomerase; cl00235 1316932003484 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 1316932003485 Glutamine amidotransferase class-I; Region: GATase; pfam00117 1316932003486 glutamine binding [chemical binding]; other site 1316932003487 catalytic triad [active] 1316932003488 anthranilate synthase component I; Provisional; Region: PRK13564 1316932003489 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 1316932003490 chorismate binding enzyme; Region: Chorismate_bind; pfam00425 1316932003491 Telomere recombination; Region: Sua5_yciO_yrdC; cl00305 1316932003492 23S rRNA pseudouridylate synthase B; Provisional; Region: PRK10700 1316932003493 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 1316932003494 RNA binding surface [nucleotide binding]; other site 1316932003495 Pseudouridine synthase, Escherichia coli RluB like; Region: PseudoU_synth_RluB; cd02556 1316932003496 probable active site [active] 1316932003497 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 1316932003498 transmembrane helices; other site 1316932003499 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 1316932003500 TrkA-C domain; Region: TrkA_C; pfam02080 1316932003501 TrkA-C domain; Region: TrkA_C; pfam02080 1316932003502 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 1316932003503 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 1316932003504 Extended Signal Peptide of Type V secretion system; Region: ESPR; pfam13018 1316932003505 Left-handed beta-roll, including virulence factors and various other proteins; Region: LbR-like; cl17507 1316932003506 trimer interface [polypeptide binding]; other site 1316932003507 YadA-like, left-handed beta-roll; Region: LbR_YadA-like; cd12820 1316932003508 trimer interface [polypeptide binding]; other site 1316932003509 YadA-like, left-handed beta-roll; Region: LbR_YadA-like; cd12820 1316932003510 trimer interface [polypeptide binding]; other site 1316932003511 YadA-like, left-handed beta-roll; Region: LbR_YadA-like; cd12820 1316932003512 trimer interface [polypeptide binding]; other site 1316932003513 Autotransporter adhesin [Intracellular trafficking and secretion / Extracellular structures]; Region: Hia; COG5295 1316932003514 YadA-like C-terminal region; Region: YadA; pfam03895 1316932003515 Nicotinamide mononucleotide transporter [Coenzyme metabolism]; Region: PnuC; COG3201 1316932003516 4-alpha-glucanotransferase; Provisional; Region: malQ; PRK11052 1316932003517 4-alpha-glucanotransferase [Carbohydrate transport and metabolism]; Region: MalQ; COG1640 1316932003518 Colicin pore forming domain; Region: Colicin; pfam01024 1316932003519 phosphoribosylamine--glycine ligase; Provisional; Region: PRK00885 1316932003520 Phosphoribosylglycinamide synthetase, N domain; Region: GARS_N; pfam02844 1316932003521 Phosphoribosylglycinamide synthetase, ATP-grasp (A) domain; Region: GARS_A; pfam01071 1316932003522 Phosphoribosylglycinamide synthetase, C domain; Region: GARS_C; pfam02843 1316932003523 30S ribosomal protein S6; Reviewed; Region: rpsF; PRK00453 1316932003524 primosomal replication protein N; Provisional; Region: PRK02801 1316932003525 generic binding surface II; other site 1316932003526 generic binding surface I; other site 1316932003527 30S ribosomal protein S18; Reviewed; Region: rpsR; PRK00391 1316932003528 50S ribosomal protein L9; Reviewed; Region: rplI; PRK00137 1316932003529 Ribosomal protein L9, N-terminal domain; Region: Ribosomal_L9_N; pfam01281 1316932003530 Ribosomal protein L9, C-terminal domain; Region: Ribosomal_L9_C; pfam03948 1316932003531 DNA polymerase III, epsilon subunit, Proteobacterial; Region: dnaQ_proteo; TIGR01406 1316932003532 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 1316932003533 active site 1316932003534 catalytic site [active] 1316932003535 substrate binding site [chemical binding]; other site 1316932003536 putative ABC transporter ATP-binding protein; Reviewed; Region: PRK11819 1316932003537 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1316932003538 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1316932003539 ABC transporter; Region: ABC_tran_2; pfam12848 1316932003540 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1316932003541 electron transport complex protein RsxA; Provisional; Region: PRK05151 1316932003542 ferredoxin; Provisional; Region: PRK08764 1316932003543 Putative Fe-S cluster; Region: FeS; pfam04060 1316932003544 4Fe-4S binding domain; Region: Fer4; pfam00037 1316932003545 4Fe-4S binding domain; Region: Fer4; cl02805 1316932003546 electron transport complex, RnfABCDGE type, C subunit; Region: rnfC; TIGR01945 1316932003547 SLBB domain; Region: SLBB; pfam10531 1316932003548 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 1316932003549 Predicted membrane protein [Function unknown]; Region: COG2860 1316932003550 UPF0126 domain; Region: UPF0126; pfam03458 1316932003551 UPF0126 domain; Region: UPF0126; pfam03458 1316932003552 electron transport complex protein RnfD; Reviewed; Region: rnfD; PRK00816 1316932003553 electron transport complex protein RnfG; Validated; Region: PRK01908 1316932003554 electron transport complex RsxE subunit; Provisional; Region: PRK12405 1316932003555 Bacterial lipid A biosynthesis acyltransferase; Region: Lip_A_acyltrans; pfam03279 1316932003556 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 1316932003557 putative acyl-acceptor binding pocket; other site 1316932003558 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1316932003559 active site 1316932003560 DNA polymerase III subunits gamma and tau; Validated; Region: PRK07994 1316932003561 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 1316932003562 Walker A motif; other site 1316932003563 ATP binding site [chemical binding]; other site 1316932003564 Walker B motif; other site 1316932003565 arginine finger; other site 1316932003566 DNA polymerase III subunits gamma and tau domain III; Region: DNA_pol3_gamma3; pfam12169 1316932003567 DNA polymerase III tau subunit V interacting with alpha; Region: DNA_pol3_tau_5; pfam12170 1316932003568 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 1316932003569 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 1316932003570 Walker A/P-loop; other site 1316932003571 ATP binding site [chemical binding]; other site 1316932003572 Q-loop/lid; other site 1316932003573 ABC transporter signature motif; other site 1316932003574 Walker B; other site 1316932003575 D-loop; other site 1316932003576 H-loop/switch region; other site 1316932003577 inner membrane transport permease; Provisional; Region: PRK15066 1316932003578 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 1316932003579 molybdate transporter periplasmic protein; Provisional; Region: modA; PRK10677 1316932003580 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 1316932003581 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 1316932003582 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 1316932003583 dimer interface [polypeptide binding]; other site 1316932003584 conserved gate region; other site 1316932003585 putative PBP binding loops; other site 1316932003586 ABC-ATPase subunit interface; other site 1316932003587 molybdate transporter ATP-binding protein; Provisional; Region: modC; PRK11144 1316932003588 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1316932003589 Walker A/P-loop; other site 1316932003590 ATP binding site [chemical binding]; other site 1316932003591 Q-loop/lid; other site 1316932003592 ABC transporter signature motif; other site 1316932003593 Walker B; other site 1316932003594 D-loop; other site 1316932003595 H-loop/switch region; other site 1316932003596 TOBE domain; Region: TOBE; cl01440 1316932003597 Coenzyme Q-binding protein COQ10p and similar proteins; Region: COQ10p_like; cd07813 1316932003598 putative coenzyme Q binding site [chemical binding]; other site 1316932003599 hypothetical protein; Validated; Region: PRK01777 1316932003600 benzoate transport; Region: 2A0115; TIGR00895 1316932003601 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 1316932003602 putative substrate translocation pore; other site 1316932003603 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 1316932003604 Xaa-His dipeptidase; Region: aa-his-dipept; TIGR01893 1316932003605 M20 Peptidase D has specificity for beta-alanyl-L-histidine dipeptide; Region: M20_pepD; cd03890 1316932003606 metal binding site [ion binding]; metal-binding site 1316932003607 dimer interface [polypeptide binding]; other site 1316932003608 Lipoprotein GNA1870 C terminal like; Region: Lipoprot_C; pfam08794 1316932003609 Tetratricopeptide repeat; Region: TPR_16; pfam13432 1316932003610 Protein of unknown function (DUF560); Region: DUF560; pfam04575 1316932003611 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1316932003612 active site 1316932003613 Guanylate kinase; Region: Guanylate_kin; pfam00625 1316932003614 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 1316932003615 catalytic site [active] 1316932003616 G-X2-G-X-G-K; other site 1316932003617 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 1316932003618 Predicted Zn-dependent hydrolases of the beta-lactamase fold [General function prediction only]; Region: COG2220 1316932003619 Beta-lactamase superfamily domain; Region: Lactamase_B_2; pfam12706 1316932003620 tetrathionate reductase subunit A; Provisional; Region: PRK14991 1316932003621 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 1316932003622 molybdopterin cofactor binding site; other site 1316932003623 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 1316932003624 putative molybdopterin cofactor binding site [chemical binding]; other site 1316932003625 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 1316932003626 putative molybdopterin cofactor binding site; other site 1316932003627 tetrathionate reductase subunit C; Provisional; Region: PRK14992 1316932003628 tetrathionate reductase subunit B; Provisional; Region: PRK14993 1316932003629 4Fe-4S binding domain; Region: Fer4; pfam00037 1316932003630 Antitoxin Phd_YefM, type II toxin-antitoxin system; Region: PhdYeFM_antitox; cl09153 1316932003631 PIN domain; Region: PIN_3; cl17397 1316932003632 ABC transporter, phosphonate, periplasmic substrate-binding protein; Region: Phosphonate-bd; pfam12974 1316932003633 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 1316932003634 dimer interface [polypeptide binding]; other site 1316932003635 phosphorylation site [posttranslational modification] 1316932003636 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 1316932003637 ATP binding site [chemical binding]; other site 1316932003638 Mg2+ binding site [ion binding]; other site 1316932003639 G-X-G motif; other site 1316932003640 Response regulator [Signal transduction mechanisms]; Region: TtrR; COG4566 1316932003641 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 1316932003642 active site 1316932003643 phosphorylation site [posttranslational modification] 1316932003644 intermolecular recognition site; other site 1316932003645 dimerization interface [polypeptide binding]; other site 1316932003646 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 1316932003647 DNA binding residues [nucleotide binding] 1316932003648 dimerization interface [polypeptide binding]; other site 1316932003649 tRNA 2-thiocytidine biosynthesis protein TtcA; Provisional; Region: PRK10696 1316932003650 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 1316932003651 Ligand Binding Site [chemical binding]; other site 1316932003652 bifunctional 3-demethylubiquinone-9 3-methyltransferase/ 2-octaprenyl-6-hydroxy phenol methylase; Provisional; Region: PRK05134 1316932003653 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 1316932003654 S-adenosylmethionine binding site [chemical binding]; other site 1316932003655 Pyrimidine dimer DNA glycosylase; Region: Pyr_excise; pfam03013 1316932003656 DNA gyrase subunit A; Validated; Region: PRK05560 1316932003657 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 1316932003658 CAP-like domain; other site 1316932003659 active site 1316932003660 primary dimer interface [polypeptide binding]; other site 1316932003661 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 1316932003662 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 1316932003663 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 1316932003664 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 1316932003665 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 1316932003666 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 1316932003667 ABC transporter ATPase component; Reviewed; Region: PRK11147 1316932003668 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1316932003669 Walker A/P-loop; other site 1316932003670 ATP binding site [chemical binding]; other site 1316932003671 ABC transporter signature motif; other site 1316932003672 Walker B; other site 1316932003673 D-loop; other site 1316932003674 H-loop/switch region; other site 1316932003675 ABC transporter; Region: ABC_tran_2; pfam12848 1316932003676 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1316932003677 Dinucleotide-utilizing enzymes involved in molybdopterin and thiamine biosynthesis family 1 [Coenzyme metabolism]; Region: COG1179 1316932003678 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 1316932003679 putative ATP binding site [chemical binding]; other site 1316932003680 putative substrate interface [chemical binding]; other site 1316932003681 Predicted Rossmann fold nucleotide-binding protein [General function prediction only]; Region: COG1611 1316932003682 Domain of unknown function (DUF3412); Region: DUF3412; pfam11892 1316932003683 Predicted ATP-dependent endonuclease of the OLD family [DNA replication, recombination, and repair]; Region: COG3593 1316932003684 Protein of unknown function (DUF2813); Region: DUF2813; pfam11398 1316932003685 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 1316932003686 putative active site [active] 1316932003687 putative metal-binding site [ion binding]; other site 1316932003688 DL-methionine transporter ATP-binding subunit; Provisional; Region: metN; PRK11153 1316932003689 ATP-binding cassette domain of methionine transporter; Region: ABC_MetN_methionine_transporter; cd03258 1316932003690 Walker A/P-loop; other site 1316932003691 ATP binding site [chemical binding]; other site 1316932003692 Q-loop/lid; other site 1316932003693 ABC transporter signature motif; other site 1316932003694 Walker B; other site 1316932003695 D-loop; other site 1316932003696 H-loop/switch region; other site 1316932003697 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 1316932003698 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 1316932003699 dimer interface [polypeptide binding]; other site 1316932003700 conserved gate region; other site 1316932003701 ABC-ATPase subunit interface; other site 1316932003702 DL-methionine transporter substrate-binding subunit; Provisional; Region: metQ; PRK11063 1316932003703 NLPA lipoprotein; Region: Lipoprotein_9; cl17547 1316932003704 ABC-type metal ion transport system, periplasmic component/surface antigen [Inorganic ion transport and metabolism]; Region: NlpA; COG1464 1316932003705 NLPA lipoprotein; Region: Lipoprotein_9; pfam03180 1316932003706 DL-methionine transporter substrate-binding subunit; Provisional; Region: metQ; PRK11063 1316932003707 NLPA lipoprotein; Region: Lipoprotein_9; cl17547 1316932003708 S-adenosylmethionine synthetase, N-terminal domain; Region: S-AdoMet_synt_N; pfam00438 1316932003709 S-adenosylmethionine synthetase; Validated; Region: PRK05250 1316932003710 S-adenosylmethionine synthetase, central domain; Region: S-AdoMet_synt_M; pfam02772 1316932003711 S-adenosylmethionine synthetase, C-terminal domain; Region: S-AdoMet_synt_C; pfam02773 1316932003712 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: COG4667 1316932003713 Hypothetical patatin similar to yjju protein of Escherichia coli; Region: Pat_hypo_Ecoli_yjju_like; cd07208 1316932003714 nucleophile elbow; other site 1316932003715 TfoX N-terminal domain; Region: TfoX_N; pfam04993 1316932003716 Ribonuclease T2 (RNase T2) is a widespread family of secreted RNases found in every organism examined thus far. This family includes RNase Rh, RNase MC1, RNase LE, and self-incompatibility RNases (S-RNases). Plant T2 RNases are expressed during leaf...; Region: RNase_T2; cl00208 1316932003717 CAS motifs; other site 1316932003718 active site 1316932003719 hypothetical protein; Provisional; Region: PRK04860 1316932003720 Zn-dependent metalloprotease, SprT family [General function prediction only]; Region: SprT; COG3091 1316932003721 NADH dehydrogenase, FAD-containing subunit [Energy production and conversion]; Region: Ndh; COG1252 1316932003722 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1316932003723 ABC-type thiamine transport system, periplasmic component [Coenzyme metabolism]; Region: TbpA; COG4143 1316932003724 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 1316932003725 AzlC protein; Region: AzlC; pfam03591 1316932003726 Xanthine/uracil/vitamin C permease [Nucleotide transport and metabolism]; Region: COG2252 1316932003727 Sulfate transporter family; Region: Sulfate_transp; pfam00916 1316932003728 preprotein translocase subunit SecF; Reviewed; Region: secF; PRK13022 1316932003729 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 1316932003730 Protein export membrane protein; Region: SecD_SecF; pfam02355 1316932003731 SecD export protein N-terminal TM region; Region: SecD-TM1; pfam13721 1316932003732 preprotein translocase subunit SecD; Reviewed; Region: secD; PRK05812 1316932003733 protein-export membrane protein, SecD/SecF family; Region: 2A0604s01; TIGR00916 1316932003734 preprotein translocase subunit YajC; Validated; Region: yajC; PRK05585 1316932003735 Bacterial protein of unknown function (YtfJ_HI0045); Region: YtfJ_HI0045; pfam09695 1316932003736 galactose mutarotase_like; Region: galactose_mutarotase_like; cd09019 1316932003737 active site 1316932003738 catalytic residues [active] 1316932003739 galactokinase; Provisional; Region: PRK05101 1316932003740 Galactokinase galactose-binding signature; Region: GalKase_gal_bdg; pfam10509 1316932003741 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 1316932003742 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 1316932003743 galactose-1-phosphate uridylyltransferase; Provisional; Region: PRK11720 1316932003744 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 1316932003745 dimer interface [polypeptide binding]; other site 1316932003746 active site 1316932003747 Uncharacterized integral membrane protein [Function unknown]; Region: COG3739 1316932003748 phosphodiesterase YaeI; Provisional; Region: PRK11340 1316932003749 Bacillus subtilis YkuE and related proteins, C-terminal metallophosphatase domain; Region: MPP_YkuE_C; cd07385 1316932003750 putative active site [active] 1316932003751 putative metal binding site [ion binding]; other site 1316932003752 Predicted permeases [General function prediction only]; Region: COG0679 1316932003753 peptide chain release factor 2; Provisional; Region: PRK08787 1316932003754 This domain is found in peptide chain release factors; Region: PCRF; smart00937 1316932003755 RF-1 domain; Region: RF-1; pfam00472 1316932003756 WYL domain; Region: WYL; pfam13280 1316932003757 Serine/threonine phosphatases, family 2C, catalytic domain; The protein architecture and deduced catalytic mechanism of PP2C phosphatases are similar to the PP1, PP2A, PP2B family of protein Ser/Thr phosphatases, with which PP2C shares no sequence...; Region: PP2Cc; cl00120 1316932003758 active site 1316932003759 SIR2 superfamily of proteins includes silent information regulator 2 (Sir2) enzymes which catalyze NAD+-dependent protein/histone deacetylation, where the acetyl group from the lysine epsilon-amino group is transferred to the ADP-ribose moiety of NAD+; Region: SIR2; cl00195 1316932003760 Winged helix-turn helix; Region: HTH_29; pfam13551 1316932003761 Helix-turn-helix domain; Region: HTH_28; pfam13518 1316932003762 Homeodomain-like domain; Region: HTH_32; pfam13565 1316932003763 Integrase core domain; Region: rve; pfam00665 1316932003764 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 1316932003765 Integrase core domain; Region: rve_3; pfam13683 1316932003766 selenophosphate synthetase; Provisional; Region: PRK00943 1316932003767 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 1316932003768 dimerization interface [polypeptide binding]; other site 1316932003769 putative ATP binding site [chemical binding]; other site 1316932003770 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 1316932003771 nudix motif; other site 1316932003772 2-octaprenyl-6-methoxyphenyl hydroxylase; Validated; Region: PRK05732 1316932003773 2-polyprenyl-6-methoxyphenol 4-hydroxylase; Region: UbiH; TIGR01984 1316932003774 Xanthine/uracil permeases [Nucleotide transport and metabolism]; Region: UraA; COG2233 1316932003775 Dihydroorotate dehydrogenase (DHOD) class 1A FMN-binding domain. DHOD catalyzes the oxidation of (S)-dihydroorotate to orotate. This is the fourth step and the only redox reaction in the de novo biosynthesis of UMP, the precursor of all pyrimidine...; Region: DHOD_1A_like; cd04741 1316932003776 active site 1316932003777 FMN binding site [chemical binding]; other site 1316932003778 substrate binding site [chemical binding]; other site 1316932003779 catalytic residues [active] 1316932003780 homodimer interface [polypeptide binding]; other site 1316932003781 Uncharacterized protein conserved in bacteria (DUF2251); Region: DUF2251; pfam10008 1316932003782 enolase; Provisional; Region: eno; PRK00077 1316932003783 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 1316932003784 dimer interface [polypeptide binding]; other site 1316932003785 metal binding site [ion binding]; metal-binding site 1316932003786 substrate binding pocket [chemical binding]; other site 1316932003787 23S rRNA methyluridine methyltransferase; Reviewed; Region: rumB; PRK03522 1316932003788 beta-hexosaminidase; Provisional; Region: PRK05337 1316932003789 Beta-glucosidase-related glycosidases [Carbohydrate transport and metabolism]; Region: BglX; COG1472 1316932003790 Membrane protein TerC, possibly involved in tellurium resistance [Inorganic ion transport and metabolism]; Region: TerC; COG0861 1316932003791 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 1316932003792 putative DNA-binding cleft [nucleotide binding]; other site 1316932003793 putative DNA clevage site; other site 1316932003794 molecular lever; other site 1316932003795 LexA repressor; Validated; Region: PRK00215 1316932003796 LexA DNA binding domain; Region: LexA_DNA_bind; pfam01726 1316932003797 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 1316932003798 Catalytic site [active] 1316932003799 glycerol-3-phosphate O-acyltransferase; Region: plsB; TIGR03703 1316932003800 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: GPAT-like; Region: LPLAT_DHAPAT-like; cd07993 1316932003801 putative acyl-acceptor binding pocket; other site 1316932003802 Predicted membrane protein [Function unknown]; Region: COG1584 1316932003803 Cupin; Region: Cupin_6; pfam12852 1316932003804 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1316932003805 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 1316932003806 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1316932003807 Uncharacterized homolog of gamma-carboxymuconolactone decarboxylase subunit [Function unknown]; Region: COG0599 1316932003808 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 1316932003809 active site residue [active] 1316932003810 Predicted membrane protein [Function unknown]; Region: COG3059 1316932003811 phosphoribosylglycinamide formyltransferase 2; Validated; Region: purT; PRK09288 1316932003812 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1316932003813 ATP-grasp domain; Region: ATP-grasp; pfam02222 1316932003814 PTS system, glucose-specific IIBC component; Region: PTS-II-BC-glcB; TIGR02002 1316932003815 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 1316932003816 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 1316932003817 active site turn [active] 1316932003818 phosphorylation site [posttranslational modification] 1316932003819 dihydroxy-acid dehydratase; Provisional; Region: PRK12448 1316932003820 Dissimilatory sulfite reductase (desulfoviridin), gamma subunit [Inorganic ion transport and metabolism]; Region: DsrC; COG2920 1316932003821 sulfur relay protein, TusE/DsrC/DsvC family; Region: dsrC_tusE_dsvC; TIGR03342 1316932003822 Integral membrane protein, interacts with FtsH [General function prediction only]; Region: COG0670 1316932003823 YccA-like proteins; Region: YccA_like; cd10433 1316932003824 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 1316932003825 excinuclease ABC subunit C; Validated; Region: uvrC; PRK00558 1316932003826 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 1316932003827 GIY-YIG motif/motif A; other site 1316932003828 active site 1316932003829 catalytic site [active] 1316932003830 putative DNA binding site [nucleotide binding]; other site 1316932003831 metal binding site [ion binding]; metal-binding site 1316932003832 UvrB/uvrC motif; Region: UVR; pfam02151 1316932003833 UvrC Helix-hairpin-helix N-terminal; Region: UvrC_HhH_N; pfam08459 1316932003834 Helix-hairpin-helix motif; Region: HHH; pfam00633 1316932003835 Prokaryotic membrane lipoprotein lipid attachment site; Region: LPAM_1; pfam08139 1316932003836 Ribosomal protein L20; Region: Ribosomal_L20; cd07026 1316932003837 23S rRNA binding site [nucleotide binding]; other site 1316932003838 L21 binding site [polypeptide binding]; other site 1316932003839 L13 binding site [polypeptide binding]; other site 1316932003840 50S ribosomal protein L35; Reviewed; Region: rpmI; PRK00172 1316932003841 translation initiation factor IF-3; Reviewed; Region: infC; PRK00028 1316932003842 Translation initiation factor IF-3, N-terminal domain; Region: IF3_N; pfam05198 1316932003843 Translation initiation factor IF-3, C-terminal domain; Region: IF3_C; pfam00707 1316932003844 ATP-dependent DNA helicase RecQ; Provisional; Region: PRK11057 1316932003845 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 1316932003846 ATP binding site [chemical binding]; other site 1316932003847 putative Mg++ binding site [ion binding]; other site 1316932003848 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 1316932003849 nucleotide binding region [chemical binding]; other site 1316932003850 ATP-binding site [chemical binding]; other site 1316932003851 This DNA-binding domain is found in the RecQ helicase among others and has a helix-turn-helix structure; Region: RQC; smart00956 1316932003852 HRDC domain; Region: HRDC; pfam00570 1316932003853 frataxin-like protein; Provisional; Region: cyaY; PRK00446 1316932003854 putative iron binding site [ion binding]; other site 1316932003855 Glycosyltransferase family 25 [lipooligosaccharide (LOS) biosynthesis protein] is a family of glycosyltransferases involved in LOS biosynthesis. The members include the beta(1,4) galactosyltransferases: Lgt2 of Moraxella catarrhalis, LgtB and LgtE of...; Region: Glyco_transf_25; cd06532 1316932003856 UGMP family protein; Validated; Region: PRK09604 1316932003857 tRNA threonylcarbamoyl adenosine modification protein YeaZ; Region: T6A_YeaZ; TIGR03725 1316932003858 outer membrane assembly lipoprotein YfiO; Region: OM_YfiO; TIGR03302 1316932003859 23S rRNA pseudouridine synthase D; Provisional; Region: rluD; PRK11180 1316932003860 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 1316932003861 RNA binding surface [nucleotide binding]; other site 1316932003862 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 1316932003863 active site 1316932003864 Entericidin EcnA/B family; Region: Entericidin; cl02322 1316932003865 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 1316932003866 30S subunit binding site; other site 1316932003867 Bacterial lipid A biosynthesis acyltransferase; Region: Lip_A_acyltrans; pfam03279 1316932003868 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 1316932003869 putative acyl-acceptor binding pocket; other site 1316932003870 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 1316932003871 dihydrodipicolinate synthase; Region: dapA; TIGR00674 1316932003872 dimer interface [polypeptide binding]; other site 1316932003873 active site 1316932003874 catalytic residue [active] 1316932003875 threonine/serine transporter TdcC; Provisional; Region: PRK13629; cl17672 1316932003876 Winged helix-turn helix; Region: HTH_29; pfam13551 1316932003877 Helix-turn-helix domain; Region: HTH_28; pfam13518 1316932003878 Homeodomain-like domain; Region: HTH_32; pfam13565 1316932003879 Integrase core domain; Region: rve; pfam00665 1316932003880 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 1316932003881 Integrase core domain; Region: rve_3; pfam13683 1316932003882 Amino acid permeases [Amino acid transport and metabolism]; Region: SdaC; COG0814 1316932003883 threonine/serine transporter TdcC; Provisional; Region: PRK13629; cl17672 1316932003884 L-serine dehydratase, iron-sulfur-dependent, single chain form; Region: sda_mono; TIGR00720 1316932003885 Serine dehydratase beta chain; Region: SDH_beta; pfam03315 1316932003886 Serine dehydratase alpha chain; Region: SDH_alpha; pfam03313 1316932003887 bifunctional phosphoribosylaminoimidazolecarboxamide formyltransferase/IMP cyclohydrolase; Provisional; Region: purH; PRK00881 1316932003888 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 1316932003889 purine monophosphate binding site [chemical binding]; other site 1316932003890 dimer interface [polypeptide binding]; other site 1316932003891 putative catalytic residues [active] 1316932003892 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; smart00798 1316932003893 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; cl03362 1316932003894 Predicted acetyltransferase [General function prediction only]; Region: COG2388 1316932003895 D-alanyl-D-alanine carboxypeptidase/endopeptidase; Provisional; Region: PRK11113 1316932003896 D-alanyl-D-alanine carboxypeptidase, serine-type, PBP4 family; Region: PBP4; TIGR00666 1316932003897 transcription elongation factor GreA; Reviewed; Region: greA; PRK00226 1316932003898 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 1316932003899 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 1316932003900 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 1316932003901 active site 1316932003902 multimer interface [polypeptide binding]; other site 1316932003903 methionyl-tRNA synthetase; Reviewed; Region: metG; PRK00133 1316932003904 catalytic core domain of methioninyl-tRNA synthetases; Region: MetRS_core; cd00814 1316932003905 active site 1316932003906 HIGH motif; other site 1316932003907 KMSKS motif; other site 1316932003908 Anticodon-binding domain of methionyl tRNA synthetases; Region: Anticodon_Ia_Met; cd07957 1316932003909 tRNA binding surface [nucleotide binding]; other site 1316932003910 anticodon binding site; other site 1316932003911 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 1316932003912 dimer interface [polypeptide binding]; other site 1316932003913 putative tRNA-binding site [nucleotide binding]; other site 1316932003914 O-succinylbenzoate synthase; Provisional; Region: PRK05105 1316932003915 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 1316932003916 active site 1316932003917 16S rRNA pseudouridylate synthase A; Provisional; Region: PRK10839 1316932003918 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 1316932003919 RNA binding surface [nucleotide binding]; other site 1316932003920 Pseudouridine synthase, Escherichia coli RsuA like; Region: PseudoU_synth_RsuA; cd02553 1316932003921 active site 1316932003922 uracil binding [chemical binding]; other site 1316932003923 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 1316932003924 bicyclomycin/multidrug efflux system; Provisional; Region: PRK11102 1316932003925 putative substrate translocation pore; other site 1316932003926 23S rRNA m(5)U1939 methyltransferase; Reviewed; Region: rumA; PRK13168 1316932003927 TRAM domain; Region: TRAM; pfam01938 1316932003928 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 1316932003929 S-adenosylmethionine binding site [chemical binding]; other site 1316932003930 deoxyguanosinetriphosphate triphosphohydrolase-like protein; Provisional; Region: PRK05318 1316932003931 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl17215 1316932003932 Phosphohydrolase-associated domain; Region: HD_assoc; pfam13286 1316932003933 ATP-dependent helicase HepA; Validated; Region: PRK04914 1316932003934 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 1316932003935 ATP binding site [chemical binding]; other site 1316932003936 putative Mg++ binding site [ion binding]; other site 1316932003937 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 1316932003938 nucleotide binding region [chemical binding]; other site 1316932003939 ATP-binding site [chemical binding]; other site 1316932003940 Protein of unknown function (DUF497); Region: DUF497; pfam04365 1316932003941 RNA recognition motif (RRM) superfamily; Region: RRM_SF; cl17169 1316932003942 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 1316932003943 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 1316932003944 active site 1316932003945 N-acetyl-anhydromuramyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: ampD; COG3023 1316932003946 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 1316932003947 amidase catalytic site [active] 1316932003948 Zn binding residues [ion binding]; other site 1316932003949 substrate binding site [chemical binding]; other site 1316932003950 Protein involved in catabolism of external DNA [General function prediction only]; Region: ComJ; COG2961 1316932003951 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1316932003952 active site 1316932003953 The URO-D_CIMS_like protein superfamily includes bacterial and eukaryotic uroporphyrinogen decarboxylases (URO-D), coenzyme M methyltransferases and other putative bacterial methyltransferases, as well as cobalamine (B12) independent methionine synthases; Region: URO-D_CIMS_like; cl00464 1316932003954 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 1316932003955 THF binding site; other site 1316932003956 substrate binding site [chemical binding]; other site 1316932003957 zinc-binding site [ion binding]; other site 1316932003958 cystathionine beta-lyase; Provisional; Region: PRK08114 1316932003959 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 1316932003960 homodimer interface [polypeptide binding]; other site 1316932003961 substrate-cofactor binding pocket; other site 1316932003962 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1316932003963 catalytic residue [active] 1316932003964 disulfide bond formation protein B; Provisional; Region: PRK01749 1316932003965 sodium/proton antiporter; Reviewed; Region: nhaB; PRK09547 1316932003966 fatty acid metabolism regulator; Provisional; Region: PRK04984 1316932003967 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1316932003968 DNA-binding site [nucleotide binding]; DNA binding site 1316932003969 FadR C-terminal domain; Region: FadR_C; pfam07840 1316932003970 Phosphate starvation-inducible protein PhoH, predicted ATPase [Signal transduction mechanisms]; Region: PhoH; COG1702 1316932003971 PhoH-like protein; Region: PhoH; pfam02562 1316932003972 transketolase; Reviewed; Region: PRK12753 1316932003973 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 1316932003974 TPP-binding site [chemical binding]; other site 1316932003975 dimer interface [polypeptide binding]; other site 1316932003976 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 1316932003977 PYR/PP interface [polypeptide binding]; other site 1316932003978 dimer interface [polypeptide binding]; other site 1316932003979 TPP binding site [chemical binding]; other site 1316932003980 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 1316932003981 50S ribosomal protein L31; Reviewed; Region: rpmE; PRK00019 1316932003982 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 1316932003983 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 1316932003984 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 1316932003985 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 1316932003986 putative active site [active] 1316932003987 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1316932003988 DNA-binding transcriptional regulator IlvY; Provisional; Region: PRK11716 1316932003989 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 1316932003990 putative dimerization interface [polypeptide binding]; other site 1316932003991 ATP-dependent Lon protease, bacterial type [Posttranslational modification, protein turnover, chaperones]; Region: Lon; COG0466 1316932003992 Found in ATP-dependent protease La (LON); Region: LON; smart00464 1316932003993 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 1316932003994 Walker A motif; other site 1316932003995 ATP binding site [chemical binding]; other site 1316932003996 Walker B motif; other site 1316932003997 arginine finger; other site 1316932003998 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 1316932003999 riboflavin biosynthesis protein RibD; Region: eubact_ribD; TIGR00326 1316932004000 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 1316932004001 catalytic motif [active] 1316932004002 Zn binding site [ion binding]; other site 1316932004003 RibD C-terminal domain; Region: RibD_C; cl17279 1316932004004 riboflavin synthase subunit alpha; Provisional; Region: PRK09289 1316932004005 Lumazine binding domain; Region: Lum_binding; pfam00677 1316932004006 Lumazine binding domain; Region: Lum_binding; pfam00677 1316932004007 bifunctional 3,4-dihydroxy-2-butanone 4-phosphate synthase/GTP cyclohydrolase II protein; Provisional; Region: PRK09311 1316932004008 3,4-dihydroxy-2-butanone 4-phosphate synthase; Region: DHBP_synthase; pfam00926 1316932004009 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 1316932004010 dimerization interface [polypeptide binding]; other site 1316932004011 active site 1316932004012 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 1316932004013 homopentamer interface [polypeptide binding]; other site 1316932004014 active site 1316932004015 apolipoprotein N-acyltransferase; Reviewed; Region: lnt; PRK00302 1316932004016 Apolipoprotein N-acyl transferase (class 9 nitrilases); Region: ALP_N-acyl_transferase; cd07571 1316932004017 putative active site [active] 1316932004018 catalytic triad [active] 1316932004019 putative dimer interface [polypeptide binding]; other site 1316932004020 Putative Mg2+ and Co2+ transporter CorC [Inorganic ion transport and metabolism]; Region: CorC; COG4535 1316932004021 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 1316932004022 Transporter associated domain; Region: CorC_HlyC; smart01091 1316932004023 Uncharacterized protein conserved in bacteria (DUF2057); Region: DUF2057; cl11437 1316932004024 hypothetical protein; Provisional; Region: PRK03641 1316932004025 polysaccharide export protein Wza; Provisional; Region: PRK15078 1316932004026 methionine aminopeptidase; Provisional; Region: PLN03158 1316932004027 Uncharacterized component of anaerobic dehydrogenases [General function prediction only]; Region: TorD; COG3381 1316932004028 endonuclease IV; Provisional; Region: PRK01060 1316932004029 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 1316932004030 AP (apurinic/apyrimidinic) site pocket; other site 1316932004031 DNA interaction; other site 1316932004032 Metal-binding active site; metal-binding site 1316932004033 NlpC/P60 family; Region: NLPC_P60; pfam00877 1316932004034 The S24, S26 LexA/signal peptidase superfamily contains LexA-related and type I signal peptidase families. The S24 LexA protein domains include: the lambda repressor CI/C2 family and related bacterial prophage repressor proteins; LexA (EC 3.4.21.88), the...; Region: Peptidase_S24_S26; cl10465 1316932004035 autonomous glycyl radical cofactor GrcA; Provisional; Region: PRK11127 1316932004036 Family 1 of Uracil-DNA glycosylase (UDG) enzymes; Region: UDG_F1; cd10027 1316932004037 ligand binding site [chemical binding]; other site 1316932004038 active site 1316932004039 UGI interface [polypeptide binding]; other site 1316932004040 catalytic site [active] 1316932004041 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 1316932004042 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 1316932004043 Membrane protein implicated in regulation of membrane protease activity [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: COG1585 1316932004044 Peptidase S8 family domain in Autotransporter serine proteases; Region: Peptidases_S8_Autotransporter_serine_protease_like; cd04848 1316932004045 catalytic triad [active] 1316932004046 putative active site [active] 1316932004047 Autotransporter beta-domain; Region: Autotransporter; pfam03797 1316932004048 ATP-dependent RNA helicase HrpA; Provisional; Region: PRK11131 1316932004049 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 1316932004050 ATP binding site [chemical binding]; other site 1316932004051 putative Mg++ binding site [ion binding]; other site 1316932004052 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 1316932004053 nucleotide binding region [chemical binding]; other site 1316932004054 ATP-binding site [chemical binding]; other site 1316932004055 Helicase associated domain (HA2); Region: HA2; pfam04408 1316932004056 Oligonucleotide/oligosaccharide-binding (OB)-fold; Region: OB_NTP_bind; pfam07717 1316932004057 Domain of unknown function (DUF3418); Region: DUF3418; pfam11898 1316932004058 Predicted membrane protein [Function unknown]; Region: COG2707 1316932004059 GrpE; Region: GrpE; pfam01025 1316932004060 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 1316932004061 dimer interface [polypeptide binding]; other site 1316932004062 hsp70 (ATPase domain) interactions [polypeptide binding]; other site 1316932004063 spermidine/putrescine ABC transporter periplasmic substrate-binding protein; Reviewed; Region: potD; PRK09501 1316932004064 Bacterial extracellular solute-binding protein; Region: SBP_bac_6; pfam13343 1316932004065 multidrug efflux protein; Reviewed; Region: PRK01766 1316932004066 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Vibrio cholerae NorM; Region: MATE_NorM_like; cd13131 1316932004067 cation binding site [ion binding]; other site 1316932004068 exonuclease V subunit beta; Provisional; Region: recB; PRK10876 1316932004069 Part of AAA domain; Region: AAA_19; pfam13245 1316932004070 transcription elongation factor GreB; Reviewed; Region: greB; PRK01885 1316932004071 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 1316932004072 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 1316932004073 aminopeptidase B; Provisional; Region: PRK05015 1316932004074 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 1316932004075 interface (dimer of trimers) [polypeptide binding]; other site 1316932004076 Substrate-binding/catalytic site; other site 1316932004077 Zn-binding sites [ion binding]; other site 1316932004078 Predicted secreted acid phosphatase [General function prediction only]; Region: COG2503 1316932004079 Sodium Bile acid symporter family; Region: SBF; cl17470 1316932004080 Predicted Na+-dependent transporter [General function prediction only]; Region: COG0385 1316932004081 Sodium Bile acid symporter family; Region: SBF; cl17470 1316932004082 macrolide transporter subunit MacA; Provisional; Region: PRK11578 1316932004083 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1316932004084 HlyD family secretion protein; Region: HlyD_3; pfam13437 1316932004085 putative hydrolase; Provisional; Region: PRK10976 1316932004086 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 1316932004087 active site 1316932004088 motif I; other site 1316932004089 motif II; other site 1316932004090 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 1316932004091 2-isopropylmalate synthase; Validated; Region: PRK00915 1316932004092 2-isopropylmalate synthase (IPMS), N-terminal catalytic TIM barrel domain; Region: DRE_TIM_IPMS; cd07940 1316932004093 active site 1316932004094 catalytic residues [active] 1316932004095 metal binding site [ion binding]; metal-binding site 1316932004096 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; pfam08502 1316932004097 RNA polymerase sigma factor AlgU; Provisional; Region: algU; PRK11923 1316932004098 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1316932004099 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 1316932004100 DNA binding residues [nucleotide binding] 1316932004101 Negative regulator of sigma E activity [Signal transduction mechanisms]; Region: RseA; COG3073 1316932004102 Anti sigma-E protein RseA, N-terminal domain; Region: RseA_N; pfam03872 1316932004103 Anti sigma-E protein RseA, C-terminal domain; Region: RseA_C; pfam03873 1316932004104 Negative regulator of sigma E activity [Signal transduction mechanisms]; Region: RseB; COG3026 1316932004105 anti-sigma E factor; Provisional; Region: rseB; PRK09455 1316932004106 Positive regulator of sigma(E), RseC/MucC; Region: RseC_MucC; pfam04246 1316932004107 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK08974 1316932004108 Prokaryotic long-chain fatty acid CoA synthetases similar to Escherichia coli FadD; Region: FC-FACS_FadD_like; cd05936 1316932004109 acyl-activating enzyme (AAE) consensus motif; other site 1316932004110 putative AMP binding site [chemical binding]; other site 1316932004111 putative active site [active] 1316932004112 putative CoA binding site [chemical binding]; other site 1316932004113 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1316932004114 active site 1316932004115 16S ribosomal RNA methyltransferase KsgA/Dim1 family protein; Reviewed; Region: ksgA; PRK00274 1316932004116 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 1316932004117 S-adenosylmethionine binding site [chemical binding]; other site 1316932004118 Parvulin-like peptidyl-prolyl isomerase [Posttranslational modification, protein turnover, chaperones]; Region: SurA; COG0760 1316932004119 SurA N-terminal domain; Region: SurA_N; pfam09312 1316932004120 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 1316932004121 Pyrimidine operon attenuation protein/uracil phosphoribosyltransferase [Nucleotide transport and metabolism]; Region: PyrR; COG2065 1316932004122 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1316932004123 active site 1316932004124 bifunctional heptose 7-phosphate kinase/heptose 1-phosphate adenyltransferase; Provisional; Region: PRK11316 1316932004125 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 1316932004126 putative ribose interaction site [chemical binding]; other site 1316932004127 putative ADP binding site [chemical binding]; other site 1316932004128 rfaE bifunctional protein, domain II; Region: rfaE_dom_II; TIGR02199 1316932004129 active site 1316932004130 nucleotide binding site [chemical binding]; other site 1316932004131 HIGH motif; other site 1316932004132 KMSKS motif; other site 1316932004133 GTP-binding protein Der; Reviewed; Region: PRK00093 1316932004134 EngA1 GTPase contains the first domain of EngA; Region: EngA1; cd01894 1316932004135 G1 box; other site 1316932004136 GTP/Mg2+ binding site [chemical binding]; other site 1316932004137 Switch I region; other site 1316932004138 G2 box; other site 1316932004139 Switch II region; other site 1316932004140 G3 box; other site 1316932004141 G4 box; other site 1316932004142 G5 box; other site 1316932004143 EngA2 GTPase contains the second domain of EngA; Region: EngA2; cd01895 1316932004144 G1 box; other site 1316932004145 GTP/Mg2+ binding site [chemical binding]; other site 1316932004146 Switch I region; other site 1316932004147 G2 box; other site 1316932004148 G3 box; other site 1316932004149 Switch II region; other site 1316932004150 G4 box; other site 1316932004151 G5 box; other site 1316932004152 glutamyl-tRNA reductase; Reviewed; Region: hemA; PRK00045 1316932004153 NADP-binding domain of glutamyl-tRNA reductase; Region: NAD_bind_Glutamyl_tRNA_reduct; cd05213 1316932004154 tRNA; other site 1316932004155 putative tRNA binding site [nucleotide binding]; other site 1316932004156 putative NADP binding site [chemical binding]; other site 1316932004157 Glutamyl-tRNAGlu reductase, dimerisation domain; Region: GlutR_dimer; pfam00745 1316932004158 (p)ppGpp synthetase I/GTP pyrophosphokinase; Provisional; Region: relA; PRK10872 1316932004159 HD domain; Region: HD_4; pfam13328 1316932004160 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 1316932004161 synthetase active site [active] 1316932004162 NTP binding site [chemical binding]; other site 1316932004163 metal binding site [ion binding]; metal-binding site 1316932004164 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 1316932004165 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 1316932004166 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Provisional; Region: PRK05447 1316932004167 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Region: DXP_reductoisom; pfam02670 1316932004168 1-deoxy-D-xylulose 5-phosphate reductoisomerase C-terminal; Region: DXP_redisom_C; pfam08436 1316932004169 DXP reductoisomerase C-terminal domain; Region: DXPR_C; pfam13288 1316932004170 Na+/H+ antiporter NhaC; Region: antiport_nhaC; TIGR00931 1316932004171 Succinate dehydrogenase/fumarate reductase, flavoprotein subunit [Energy production and conversion]; Region: SdhA; COG1053 1316932004172 L-aspartate oxidase; Provisional; Region: PRK06175 1316932004173 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppF; COG1124 1316932004174 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1316932004175 Walker A/P-loop; other site 1316932004176 ATP binding site [chemical binding]; other site 1316932004177 Q-loop/lid; other site 1316932004178 ABC transporter signature motif; other site 1316932004179 Walker B; other site 1316932004180 D-loop; other site 1316932004181 H-loop/switch region; other site 1316932004182 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 1316932004183 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 1316932004184 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 1316932004185 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 1316932004186 dimer interface [polypeptide binding]; other site 1316932004187 conserved gate region; other site 1316932004188 putative PBP binding loops; other site 1316932004189 ABC-ATPase subunit interface; other site 1316932004190 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 1316932004191 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1316932004192 Walker A/P-loop; other site 1316932004193 ATP binding site [chemical binding]; other site 1316932004194 Q-loop/lid; other site 1316932004195 ABC transporter signature motif; other site 1316932004196 Walker B; other site 1316932004197 D-loop; other site 1316932004198 H-loop/switch region; other site 1316932004199 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 1316932004200 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 1316932004201 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 1316932004202 dimer interface [polypeptide binding]; other site 1316932004203 conserved gate region; other site 1316932004204 putative PBP binding loops; other site 1316932004205 ABC-ATPase subunit interface; other site 1316932004206 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 1316932004207 The substrate-binding domain of an ABC-type nickel/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like; cd00995 1316932004208 HemN family oxidoreductase; Provisional; Region: PRK05660 1316932004209 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 1316932004210 FeS/SAM binding site; other site 1316932004211 HemN C-terminal domain; Region: HemN_C; pfam06969 1316932004212 Virulence protein RhuM family; Region: Virulence_RhuM; pfam13310 1316932004213 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 1316932004214 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 1316932004215 catalytic triad [active] 1316932004216 D,D-heptose 1,7-bisphosphate phosphatase; Region: GmhB_yaeD; TIGR00213 1316932004217 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 1316932004218 active site 1316932004219 motif I; other site 1316932004220 motif II; other site 1316932004221 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2904 1316932004222 7-cyano-7-deazaguanine reductase; Provisional; Region: queF; PRK11792 1316932004223 Enzyme related to GTP cyclohydrolase I [General function prediction only]; Region: COG0780 1316932004224 anhydro-N-acetylmuramic acid kinase; Reviewed; Region: anmK; PRK09585 1316932004225 N-acetylmuramic acid-6-phosphate etherase; Reviewed; Region: murQ; PRK05441 1316932004226 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 1316932004227 putative active site [active] 1316932004228 HemK family putative methylases; Region: hemK_fam; TIGR00536 1316932004229 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 1316932004230 S-adenosylmethionine binding site [chemical binding]; other site 1316932004231 hypothetical protein; Provisional; Region: PRK04946 1316932004232 Smr domain; Region: Smr; pfam01713 1316932004233 YeaK is an uncharacterized Echerichia coli protein with a YbaK-like domain of unknown function. The YbaK-like domain family includes the INS amino acid-editing domain of the bacterial class II prolyl tRNA synthetase (ProRS), and it's trans-acting...; Region: YeaK; cd04336 1316932004234 putative deacylase active site [active] 1316932004235 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 1316932004236 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 1316932004237 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 1316932004238 HipA-like N-terminal domain; Region: HipA_N; pfam07805 1316932004239 HipA-like C-terminal domain; Region: HipA_C; pfam07804 1316932004240 Winged helix-turn helix; Region: HTH_29; pfam13551 1316932004241 Helix-turn-helix domain; Region: HTH_28; pfam13518 1316932004242 Homeodomain-like domain; Region: HTH_32; pfam13565 1316932004243 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 1316932004244 Integrase core domain; Region: rve; pfam00665 1316932004245 Integrase core domain; Region: rve_3; pfam13683 1316932004246 D-hexose-6-phosphate epimerase-like; Region: D-hex-6-P-epi_like; cd09020 1316932004247 active site 1316932004248 phosphate binding residues; other site 1316932004249 catalytic residues [active] 1316932004250 Immunoglobulin A1 protease; Region: Peptidase_S6; pfam02395 1316932004251 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 1316932004252 Autotransporter beta-domain; Region: Autotransporter; pfam03797 1316932004253 putative bifunctional molybdopterin-guanine dinucleotide biosynthesis protein MobA/MobB; Provisional; Region: PRK14489 1316932004254 MobA catalyzes the formation of molybdopterin guanine dinucleotide; Region: MobA; cd02503 1316932004255 GTP binding site; other site 1316932004256 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 1316932004257 Walker A motif; other site 1316932004258 Protein of unknown function (DUF1040); Region: DUF1040; cl01176 1316932004259 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 1316932004260 DSBA-like thioredoxin domain; Region: DSBA; pfam01323 1316932004261 catalytic residues [active] 1316932004262 hinge region; other site 1316932004263 alpha helical domain; other site 1316932004264 luciferase family oxidoreductase, group 1; Region: oxido_grp_1; TIGR03558 1316932004265 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 1316932004266 luciferase family oxidoreductase, group 1; Region: oxido_grp_1; TIGR03558 1316932004267 Protein of unknown function (DUF406); Region: DUF406; pfam04175 1316932004268 Winged helix-turn helix; Region: HTH_29; pfam13551 1316932004269 Helix-turn-helix domain; Region: HTH_28; pfam13518 1316932004270 Homeodomain-like domain; Region: HTH_32; pfam13565 1316932004271 Integrase core domain; Region: rve; pfam00665 1316932004272 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 1316932004273 Integrase core domain; Region: rve_3; pfam13683 1316932004274 Lipopolysaccharide biosynthesis protein [Cell envelope biogenesis, outer membrane]; Region: RgpF; COG3754 1316932004275 Plasmid stabilisation system protein; Region: Plasmid_stabil; pfam05016 1316932004276 Winged helix-turn helix; Region: HTH_29; pfam13551 1316932004277 Helix-turn-helix domain; Region: HTH_28; pfam13518 1316932004278 Homeodomain-like domain; Region: HTH_32; pfam13565 1316932004279 Integrase core domain; Region: rve; pfam00665 1316932004280 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 1316932004281 Integrase core domain; Region: rve_3; pfam13683 1316932004282 AAA domain; Region: AAA_31; pfam13614 1316932004283 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 1316932004284 P-loop; other site 1316932004285 Magnesium ion binding site [ion binding]; other site 1316932004286 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 1316932004287 Magnesium ion binding site [ion binding]; other site 1316932004288 integrating conjugative element protein, PFL_4711 family; Region: conj_TIGR03755 1316932004289 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 1316932004290 catalytic residue [active] 1316932004291 TraU protein; Region: TraU; cl06067 1316932004292 Protein of unknown function (DUF3577); Region: DUF3577; pfam12101 1316932004293 oligopeptide transporter ATP-binding component; Provisional; Region: oppD; PRK09473 1316932004294 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1316932004295 Walker A/P-loop; other site 1316932004296 ATP binding site [chemical binding]; other site 1316932004297 Q-loop/lid; other site 1316932004298 ABC transporter signature motif; other site 1316932004299 Walker B; other site 1316932004300 D-loop; other site 1316932004301 H-loop/switch region; other site 1316932004302 oligopeptide/dipeptide ABC transporter, ATP-binding protein, C-terminal domain; Region: oligo_HPY; TIGR01727 1316932004303 oligopeptide ABC transporter ATP-binding protein OppF; Provisional; Region: PRK15079 1316932004304 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1316932004305 Walker A/P-loop; other site 1316932004306 ATP binding site [chemical binding]; other site 1316932004307 Q-loop/lid; other site 1316932004308 ABC transporter signature motif; other site 1316932004309 Walker B; other site 1316932004310 D-loop; other site 1316932004311 H-loop/switch region; other site 1316932004312 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 1316932004313 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 1316932004314 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 1316932004315 active site 1316932004316 zinc binding site [ion binding]; other site 1316932004317 dithiobiotin synthetase; Reviewed; Region: bioD; PRK00090 1316932004318 AAA domain; Region: AAA_26; pfam13500 1316932004319 biotin biosynthesis protein BioC; Region: BioC; TIGR02072 1316932004320 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 1316932004321 S-adenosylmethionine binding site [chemical binding]; other site 1316932004322 Protein of unknown function (DUF452); Region: DUF452; pfam04301 1316932004323 Aminotransferase class I and II; Region: Aminotran_1_2; pfam00155 1316932004324 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 1316932004325 substrate-cofactor binding pocket; other site 1316932004326 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1316932004327 catalytic residue [active] 1316932004328 adenosylmethionine--8-amino-7-oxononanoate transaminase; Provisional; Region: PRK06173 1316932004329 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 1316932004330 inhibitor-cofactor binding pocket; inhibition site 1316932004331 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1316932004332 catalytic residue [active] 1316932004333 phosphatidylserine decarboxylase; Reviewed; Region: psd; PRK00044 1316932004334 Domain amino terminal to FKBP-type peptidyl-prolyl isomerase; Region: FKBP_N; pfam01346 1316932004335 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 1316932004336 gamma-glutamyl kinase; Provisional; Region: PRK05429 1316932004337 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 1316932004338 nucleotide binding site [chemical binding]; other site 1316932004339 homotetrameric interface [polypeptide binding]; other site 1316932004340 putative phosphate binding site [ion binding]; other site 1316932004341 putative allosteric binding site; other site 1316932004342 PUA domain; Region: PUA; pfam01472 1316932004343 Uncharacterized conserved protein [Function unknown]; Region: COG2966 1316932004344 Protein of unknown function (DUF1212); Region: DUF1212; pfam06738 1316932004345 Domain of unknown function (DUF3560); Region: DUF3560; pfam12083 1316932004346 integrating conjugative element relaxase, PFL_4751 family; Region: ICE_TraI_Pfluor; TIGR03760 1316932004347 Putative helicase; Region: TraI_2; pfam07514 1316932004348 Domain of unknown function (DUF1738); Region: DUF1738; pfam08401 1316932004349 integrating conjugative element protein, PFL_4705 family; Region: conj_TIGR03752 1316932004350 Winged helix-turn helix; Region: HTH_29; pfam13551 1316932004351 N-terminal domain of molybdenum-binding protein [General function prediction only]; Region: ModE; cl17549 1316932004352 Adenine-specific DNA methylase [DNA replication, recombination, and repair]; Region: COG3392 1316932004353 D12 class N6 adenine-specific DNA methyltransferase; Region: MethyltransfD12; cl17344 1316932004354 Site-specific DNA methylase [DNA replication, recombination, and repair]; Region: Dam; COG0338 1316932004355 AlwI restriction endonuclease; Region: RE_AlwI; pfam09491 1316932004356 SEFIR domain; Region: SEFIR; pfam08357 1316932004357 Winged helix-turn helix; Region: HTH_29; pfam13551 1316932004358 Helix-turn-helix domain; Region: HTH_28; pfam13518 1316932004359 Integrase core domain; Region: rve; pfam00665 1316932004360 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 1316932004361 Integrase core domain; Region: rve_3; pfam13683 1316932004362 Antirestriction protein [DNA replication, recombination, and repair]; Region: COG4227 1316932004363 Domain of unknown function (DUF1738); Region: DUF1738; pfam08401 1316932004364 integrating conjugative element relaxase, PFL_4751 family; Region: ICE_TraI_Pfluor; TIGR03760 1316932004365 Putative helicase; Region: TraI_2; pfam07514 1316932004366 Protein of unknown function (DUF1528); Region: DUF1528; pfam07515 1316932004367 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 1316932004368 active site 1316932004369 catalytic residues [active] 1316932004370 DNA binding site [nucleotide binding] 1316932004371 Int/Topo IB signature motif; other site 1316932004372 Superfamily of activating enzymes (E1) of the ubiquitin-like proteins. This family includes classical ubiquitin-activating enzymes E1, ubiquitin-like (ubl) activating enzymes and other mechanistic homologes, like MoeB, Thif1 and others. The common...; Region: E1_enzyme_family; cd01483 1316932004373 ATP binding site [chemical binding]; other site 1316932004374 substrate interface [chemical binding]; other site 1316932004375 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 1316932004376 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cd00267 1316932004377 Walker A/P-loop; other site 1316932004378 ATP binding site [chemical binding]; other site 1316932004379 Q-loop/lid; other site 1316932004380 ABC transporter signature motif; other site 1316932004381 Walker B; other site 1316932004382 D-loop; other site 1316932004383 H-loop/switch region; other site 1316932004384 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 1316932004385 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1316932004386 putative substrate translocation pore; other site 1316932004387 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1316932004388 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 1316932004389 dimer interface [polypeptide binding]; other site 1316932004390 phosphorylation site [posttranslational modification] 1316932004391 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 1316932004392 ATP binding site [chemical binding]; other site 1316932004393 Mg2+ binding site [ion binding]; other site 1316932004394 G-X-G motif; other site 1316932004395 Response regulator receiver domain; Region: Response_reg; pfam00072 1316932004396 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 1316932004397 active site 1316932004398 phosphorylation site [posttranslational modification] 1316932004399 intermolecular recognition site; other site 1316932004400 dimerization interface [polypeptide binding]; other site 1316932004401 Histidine Phosphotransfer domain, involved in signalling through a two part component systems in which an autophosphorylating histidine protein kinase serves as a phosphoryl donor to a response regulator protein; the response regulator protein is...; Region: HPT; cl00086 1316932004402 Methylated DNA-protein cysteine methyltransferase [DNA replication, recombination, and repair]; Region: Ada; COG0350 1316932004403 6-O-methylguanine DNA methyltransferase, ribonuclease-like domain; Region: Methyltransf_1N; pfam02870 1316932004404 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 1316932004405 DNA binding site [nucleotide binding] 1316932004406 active site 1316932004407 Outer membrane protein transport protein (OMPP1/FadL/TodX); Region: Toluene_X; cl17479 1316932004408 Outer membrane protein transport protein (OMPP1/FadL/TodX); Region: Toluene_X; cl17479 1316932004409 iron-sulfur cluster assembly transcription factor IscR; Region: IscR; TIGR02010 1316932004410 Rrf2 family protein; Region: rrf2_super; TIGR00738 1316932004411 cysteine desulfurase; Provisional; Region: PRK14012 1316932004412 cysteine desulfurase NifS; Region: FeS_nifS; TIGR03402 1316932004413 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1316932004414 catalytic residue [active] 1316932004415 NifU homolog involved in Fe-S cluster formation [Energy production and conversion]; Region: IscU; COG0822 1316932004416 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cd06664 1316932004417 trimerization site [polypeptide binding]; other site 1316932004418 active site 1316932004419 iron-sulfur cluster assembly protein; Provisional; Region: iscA; PRK09502 1316932004420 co-chaperone HscB; Provisional; Region: hscB; PRK01773 1316932004421 DnaJ domain; Region: DnaJ; pfam00226 1316932004422 HSP70 interaction site [polypeptide binding]; other site 1316932004423 HSCB C-terminal oligomerisation domain; Region: HSCB_C; pfam07743 1316932004424 Protein of unknown function DUF2625; Region: DUF2625; pfam10946 1316932004425 Domain of unknown function, appears to be related to a diverse group of endonucleases; Region: Endonuclease_DUF559; cd01038 1316932004426 putative active site [active] 1316932004427 chaperone protein HscA; Provisional; Region: hscA; PRK05183 1316932004428 Nucleotide-binding domain of HscA and similar proteins; Region: HscA_like_NBD; cd10236 1316932004429 nucleotide binding site [chemical binding]; other site 1316932004430 putative NEF/HSP70 interaction site [polypeptide binding]; other site 1316932004431 SBD interface [polypeptide binding]; other site 1316932004432 Ferredoxin [Energy production and conversion]; Region: Fdx; COG0633 1316932004433 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 1316932004434 catalytic loop [active] 1316932004435 iron binding site [ion binding]; other site 1316932004436 Iron-sulphur cluster assembly; Region: Fe-S_assembly; cl01123 1316932004437 Tellurite resistance protein and related permeases [Inorganic ion transport and metabolism]; Region: TehA; COG1275 1316932004438 Tellurite-resistance/Dicarboxylate Transporter (TDT) family includes TehA protein; Region: TDT_TehA; cd09324 1316932004439 gating phenylalanine in ion channel; other site 1316932004440 multifunctional tRNA nucleotidyl transferase/2'3'-cyclic phosphodiesterase/2'nucleotidase/phosphatase; Reviewed; Region: cca; PRK10885 1316932004441 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 1316932004442 active site 1316932004443 NTP binding site [chemical binding]; other site 1316932004444 metal binding triad [ion binding]; metal-binding site 1316932004445 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 1316932004446 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 1316932004447 Zn2+ binding site [ion binding]; other site 1316932004448 Mg2+ binding site [ion binding]; other site 1316932004449 endonuclease III; Provisional; Region: PRK10702 1316932004450 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 1316932004451 minor groove reading motif; other site 1316932004452 helix-hairpin-helix signature motif; other site 1316932004453 substrate binding pocket [chemical binding]; other site 1316932004454 active site 1316932004455 iron-sulpphur binding domain in DNA-(apurinic or apyrimidinic site) lyase (subfamily of ENDO3); Region: FES; smart00525 1316932004456 hypothetical protein; Provisional; Region: PRK10621 1316932004457 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 1316932004458 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 1316932004459 gamma-glutamyl kinase; Provisional; Region: PRK05429 1316932004460 putative phosphate binding site [ion binding]; other site 1316932004461 putative allosteric binding site; other site 1316932004462 homotetrameric interface [polypeptide binding]; other site 1316932004463 nucleotide binding site [chemical binding]; other site 1316932004464 PUA domain; Region: PUA; pfam01472 1316932004465 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 1316932004466 nucleotide binding site [chemical binding]; other site 1316932004467 Dihydrofolate reductase [Coenzyme metabolism]; Region: FolA; COG0262 1316932004468 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 1316932004469 folate binding site [chemical binding]; other site 1316932004470 NADP+ binding site [chemical binding]; other site 1316932004471 DNA repair protein RadA; Provisional; Region: PRK11823 1316932004472 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 1316932004473 Walker A motif/ATP binding site; other site 1316932004474 ATP binding site [chemical binding]; other site 1316932004475 Walker B motif; other site 1316932004476 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 1316932004477 putative major pilin subunit; Provisional; Region: PRK10574 1316932004478 Type II secretion system (T2SS), protein E, N-terminal domain; Region: T2SE_Nter; pfam05157 1316932004479 Type II secretory pathway, component PulF [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulF; COG1459 1316932004480 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 1316932004481 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 1316932004482 Dephospho-CoA kinase [Coenzyme metabolism]; Region: CoaE; COG0237 1316932004483 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 1316932004484 CoA-binding site [chemical binding]; other site 1316932004485 ATP-binding [chemical binding]; other site 1316932004486 Domain of unknown function (DUF329); Region: DUF329; pfam03884 1316932004487 DNA polymerase III subunit delta; Reviewed; Region: holA; PRK05574 1316932004488 DNA polymerase III, delta subunit; Region: DNA_pol3_delta; pfam06144 1316932004489 Lipopolysaccharide-assembly; Region: LptE; cl01125 1316932004490 leucyl-tRNA synthetase; Validated; Region: leuS; PRK00390 1316932004491 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 1316932004492 HIGH motif; other site 1316932004493 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 1316932004494 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 1316932004495 active site 1316932004496 KMSKS motif; other site 1316932004497 Anticodon-binding domain of bacterial and eukaryotic mitochondrial leucyl tRNA synthetases; Region: Anticodon_Ia_Leu_BEm; cd07958 1316932004498 tRNA binding surface [nucleotide binding]; other site 1316932004499 seryl-tRNA synthetase; Provisional; Region: PRK05431 1316932004500 Seryl-tRNA synthetase N-terminal domain; Region: Seryl_tRNA_N; pfam02403 1316932004501 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 1316932004502 dimer interface [polypeptide binding]; other site 1316932004503 active site 1316932004504 motif 1; other site 1316932004505 motif 2; other site 1316932004506 motif 3; other site 1316932004507 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 1316932004508 SmpB-tmRNA interface; other site 1316932004509 Uncharacterized conserved small protein [Function unknown]; Region: COG5606 1316932004510 salt bridge; other site 1316932004511 non-specific DNA binding site [nucleotide binding]; other site 1316932004512 sequence-specific DNA binding site [nucleotide binding]; other site 1316932004513 Phage derived protein Gp49-like (DUF891); Region: Gp49; cl01470 1316932004514 YcjX-like family, DUF463; Region: DUF463; pfam04317 1316932004515 Uncharacterized conserved protein [Function unknown]; Region: COG3025 1316932004516 Uncharacterized subgroup of the CYTH-like superfamily having an associated CHAD domain; Region: CYTH-like_Pase_CHAD; cd07756 1316932004517 putative active site [active] 1316932004518 putative metal binding residues [ion binding]; other site 1316932004519 signature motif; other site 1316932004520 putative triphosphate binding site [ion binding]; other site 1316932004521 hypothetical protein; Provisional; Region: PRK05114 1316932004522 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 1316932004523 tRNA pseudouridine isomerase C; Region: PseudoU_synth_TruC; cd02563 1316932004524 probable active site [active] 1316932004525 tRNA pseudouridine synthase C; Region: DUF446; pfam04287 1316932004526 bifunctional indole-3-glycerol phosphate synthase/phosphoribosylanthranilate isomerase; Provisional; Region: PRK09427 1316932004527 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 1316932004528 active site 1316932004529 ribulose/triose binding site [chemical binding]; other site 1316932004530 phosphate binding site [ion binding]; other site 1316932004531 substrate (anthranilate) binding pocket [chemical binding]; other site 1316932004532 product (indole) binding pocket [chemical binding]; other site 1316932004533 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 1316932004534 active site 1316932004535 bifunctional tRNA (mnm(5)s(2)U34)-methyltransferase/FAD-dependent cmnm(5)s(2)U34 oxidoreductase; Reviewed; Region: mnmC; PRK01747 1316932004536 Uncharacterized conserved protein [Function unknown]; Region: COG4121 1316932004537 UDP-N-acetylglucosamine acyltransferase; Provisional; Region: PRK05289 1316932004538 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 1316932004539 active site 1316932004540 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 1316932004541 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase; Provisional; Region: lpxD; PRK00892 1316932004542 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase, LpxD; Region: LpxD; pfam04613 1316932004543 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 1316932004544 trimer interface [polypeptide binding]; other site 1316932004545 active site 1316932004546 UDP-GlcNAc binding site [chemical binding]; other site 1316932004547 lipid binding site [chemical binding]; lipid-binding site 1316932004548 Outer membrane protein (OmpH-like); Region: OmpH; pfam03938 1316932004549 outer membrane protein assembly factor YaeT; Provisional; Region: PRK11067 1316932004550 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 1316932004551 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 1316932004552 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 1316932004553 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 1316932004554 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 1316932004555 Surface antigen; Region: Bac_surface_Ag; pfam01103 1316932004556 zinc metallopeptidase RseP; Provisional; Region: PRK10779 1316932004557 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 1316932004558 active site 1316932004559 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 1316932004560 protein binding site [polypeptide binding]; other site 1316932004561 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 1316932004562 protein binding site [polypeptide binding]; other site 1316932004563 Site-2 protease (S2P) class of zinc metalloproteases (MEROPS family M50) cleaves transmembrane domains of substrate proteins, regulating intramembrane proteolysis (RIP) of diverse signal transduction mechanisms. Members of this family use proteolytic...; Region: S2P-M50; cl10020 1316932004564 putative substrate binding region [chemical binding]; other site 1316932004565 CDP-diglyceride synthase; Provisional; Region: cdsA; PRK11624 1316932004566 CDP-diglyceride synthetase [Lipid metabolism]; Region: CdsA; COG0575 1316932004567 Undecaprenyl pyrophosphate synthase [Lipid metabolism]; Region: UppS; COG0020 1316932004568 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 1316932004569 catalytic residue [active] 1316932004570 putative FPP diphosphate binding site; other site 1316932004571 putative FPP binding hydrophobic cleft; other site 1316932004572 dimer interface [polypeptide binding]; other site 1316932004573 putative IPP diphosphate binding site; other site 1316932004574 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 1316932004575 biotin synthase; Region: bioB; TIGR00433 1316932004576 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 1316932004577 FeS/SAM binding site; other site 1316932004578 Biotin and Thiamin Synthesis associated domain; Region: BATS; smart00876 1316932004579 Phosphoenolpyruvate carboxykinase; Region: PEPCK_ATP; pfam01293 1316932004580 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 1316932004581 active site 1316932004582 substrate-binding site [chemical binding]; other site 1316932004583 metal-binding site [ion binding] 1316932004584 ATP binding site [chemical binding]; other site 1316932004585 Septum formation initiator [Cell division and chromosome partitioning]; Region: COG2919 1316932004586 cell division protein FtsB; Reviewed; Region: ftsB; PRK00888 1316932004587 CDP-ME synthetase is involved in mevalonate-independent isoprenoid production; Region: CDP-ME_synthetase; cd02516 1316932004588 substrate binding site; other site 1316932004589 dimer interface; other site 1316932004590 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 1316932004591 homotrimer interaction site [polypeptide binding]; other site 1316932004592 zinc binding site [ion binding]; other site 1316932004593 CDP-binding sites; other site 1316932004594 Repair protein; Region: Repair_PSII; pfam04536 1316932004595 Repair protein; Region: Repair_PSII; cl01535 1316932004596 LemA family; Region: LemA; pfam04011 1316932004597 Predicted permeases [General function prediction only]; Region: RarD; COG2962 1316932004598 PTS system fructose-specific transporter subunits IIBC; Provisional; Region: PRK10712 1316932004599 N-terminal domain of the phosphotransferase system fructose-specific component IIB [Carbohydrate transport and metabolism]; Region: COG3925 1316932004600 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 1316932004601 active site 1316932004602 P-loop; other site 1316932004603 phosphorylation site [posttranslational modification] 1316932004604 Phosphotransferase system, fructose-specific IIC component [Carbohydrate transport and metabolism]; Region: FruA; cl17425 1316932004605 Fructose-1-phosphate kinase and related fructose-6-phosphate kinase (PfkB) [Carbohydrate transport and metabolism]; Region: FruK; COG1105 1316932004606 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 1316932004607 putative substrate binding site [chemical binding]; other site 1316932004608 putative ATP binding site [chemical binding]; other site 1316932004609 bifunctional PTS system fructose-specific transporter subunit IIA/HPr protein; Provisional; Region: PRK13779 1316932004610 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 1316932004611 active site 1316932004612 phosphorylation site [posttranslational modification] 1316932004613 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 1316932004614 dimerization domain swap beta strand [polypeptide binding]; other site 1316932004615 regulatory protein interface [polypeptide binding]; other site 1316932004616 active site 1316932004617 regulatory phosphorylation site [posttranslational modification]; other site 1316932004618 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 1316932004619 dimerization domain swap beta strand [polypeptide binding]; other site 1316932004620 regulatory protein interface [polypeptide binding]; other site 1316932004621 active site 1316932004622 regulatory phosphorylation site [posttranslational modification]; other site 1316932004623 glycogen branching enzyme; Provisional; Region: PRK05402 1316932004624 N-terminal Early set domain associated with the catalytic domain of prokaryotic glycogen branching enzyme; Region: E_set_GBE_prok_N; cd02855 1316932004625 Alpha amylase catalytic domain found in the Glycogen branching enzyme (also called 1,4-alpha-glucan branching enzyme); Region: AmyAc_Glg_BE; cd11322 1316932004626 active site 1316932004627 catalytic site [active] 1316932004628 Alpha amylase, C-terminal all-beta domain; Region: Alpha-amylase_C; pfam02806 1316932004629 glycogen debranching enzyme; Provisional; Region: PRK03705 1316932004630 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 1316932004631 Alpha amylase catalytic domain found in glycogen debranching enzymes; Region: AmyAc_Glg_debranch; cd11326 1316932004632 active site 1316932004633 catalytic site [active] 1316932004634 glucose-1-phosphate adenylyltransferase; Provisional; Region: glgC; PRK00725 1316932004635 ADP-glucose pyrophosphorylase is involved in the biosynthesis of glycogen or starch; Region: ADP_Glucose_PP; cd02508 1316932004636 ligand binding site; other site 1316932004637 oligomer interface; other site 1316932004638 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 1316932004639 dimer interface [polypeptide binding]; other site 1316932004640 N-terminal domain interface [polypeptide binding]; other site 1316932004641 sulfate 1 binding site; other site 1316932004642 glycogen synthase; Provisional; Region: glgA; PRK00654 1316932004643 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 1316932004644 ADP-binding pocket [chemical binding]; other site 1316932004645 homodimer interface [polypeptide binding]; other site 1316932004646 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 1316932004647 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 1316932004648 active site pocket [active] 1316932004649 SpoU rRNA Methylase family; Region: SpoU_methylase; cl17307 1316932004650 rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: LasT; COG0565 1316932004651 NAD(P) transhydrogenase subunit alpha; Provisional; Region: pntA; PRK09424 1316932004652 Rubrum transdehydrogenase NAD-binding and catalytic domains; Region: Rubrum_tdh; cd05304 1316932004653 ligand binding site [chemical binding]; other site 1316932004654 homodimer interface [polypeptide binding]; other site 1316932004655 NAD(P) binding site [chemical binding]; other site 1316932004656 trimer interface B [polypeptide binding]; other site 1316932004657 trimer interface A [polypeptide binding]; other site 1316932004658 Domain of unknown function (DUF3814); Region: DUF3814; pfam12769 1316932004659 pyridine nucleotide transhydrogenase; Provisional; Region: pntB; PRK09444 1316932004660 NAD(P) transhydrogenase beta subunit; Region: PNTB; pfam02233 1316932004661 DNA-binding transcriptional regulator MetR; Provisional; Region: PRK15421 1316932004662 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1316932004663 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 1316932004664 putative dimerization interface [polypeptide binding]; other site 1316932004665 aspartate-semialdehyde dehydrogenase; Reviewed; Region: PRK06598 1316932004666 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 1316932004667 4-alpha-glucanotransferase; Provisional; Region: malQ; PRK11052 1316932004668 Transposase IS200 like; Region: Y1_Tnp; pfam01797 1316932004669 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG0675 1316932004670 Helix-turn-helix domain; Region: HTH_OrfB_IS605; pfam12323 1316932004671 Probable transposase; Region: OrfB_IS605; pfam01385 1316932004672 transposase, IS605 OrfB family, central region; Region: tspaseT_teng_C; TIGR01766 1316932004673 HerA helicase [Replication, recombination, and repair]; Region: COG0433 1316932004674 Domain of unknown function DUF87; Region: DUF87; pfam01935 1316932004675 Domain of unknown function DUF87; Region: DUF87; pfam01935 1316932004676 HerA helicase [Replication, recombination, and repair]; Region: COG0433 1316932004677 CRISPR/Cas system-associated RAMP superfamily protein Cas5; Region: Cas5_I-C; cd09752 1316932004678 CRISPR-associated protein (Cas_Cas5); Region: Cas_Cas5d; pfam09704 1316932004679 CRISPR/Cas system-associated protein Cas8c; Region: Cas8c_I-C; cd09757 1316932004680 CRISPR/Cas system-associated RAMP superfamily protein Cas7; Region: Cas7_I-C; cl01465 1316932004681 CRISPR/Cas system-associated protein Cas4; Region: Cas4_I-A_I-B_I-C_I-D_II-B; cd09637 1316932004682 CRISPR/Cas system-associated protein Cas1; Region: Cas1_I-C; cd09721 1316932004683 CRISPR/Cas system-associated protein Cas2; Region: Cas2_I_II_III; cd09725 1316932004684 ribonuclease G; Provisional; Region: PRK11712 1316932004685 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 1316932004686 homodimer interface [polypeptide binding]; other site 1316932004687 oligonucleotide binding site [chemical binding]; other site 1316932004688 lysyl-tRNA synthetase; Reviewed; Region: lysS; PRK00484 1316932004689 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 1316932004690 dimer interface [polypeptide binding]; other site 1316932004691 putative anticodon binding site; other site 1316932004692 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 1316932004693 motif 1; other site 1316932004694 active site 1316932004695 motif 2; other site 1316932004696 motif 3; other site 1316932004697 Phage-related protein, tail component [Function unknown]; Region: COG4733 1316932004698 Putative phage tail protein; Region: Phage-tail_3; pfam13550 1316932004699 Domain of unknown function (DUF1983); Region: DUF1983; pfam09327 1316932004700 Phage-related protein, tail component [Function unknown]; Region: COG4723 1316932004701 Mpr1p, Pad1p N-terminal (MPN) domains with catalytic isopeptidase activity (metal-binding) found in proteins also containing NlpC/P60 domains; Region: MPN_NLPC_P60; cd08073 1316932004702 MPN+ (JAMM) motif; other site 1316932004703 Zinc-binding site [ion binding]; other site 1316932004704 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 1316932004705 NlpC/P60 family; Region: NLPC_P60; cl17555 1316932004706 Phage-related protein [Function unknown]; Region: gp18; COG4672 1316932004707 Phage minor tail protein; Region: Phage_min_tail; pfam05939 1316932004708 Phage-related minor tail protein [Function unknown]; Region: COG5281 1316932004709 tape measure domain; Region: tape_meas_nterm; TIGR02675 1316932004710 Tail length tape measure protein; Region: Phage_HK97_TLTM; pfam06120 1316932004711 phage tail tape measure protein, lambda family; Region: tape_meas_lam_C; TIGR01541 1316932004712 Lambda phage tail tape-measure protein (Tape_meas_lam_C); Region: Tape_meas_lam_C; pfam09718 1316932004713 Protein of unknown function (DUF4035); Region: DUF4035; pfam13227 1316932004714 Phage minor tail protein U; Region: Phage_tail_U; pfam06141 1316932004715 Prophage minor tail protein Z (GPZ); Region: Minor_tail_Z; pfam06763 1316932004716 ATP-binding sugar transporter from pro-phage; Region: Gifsy-2; pfam13856 1316932004717 Uncharacterized conserved protein (DUF2190); Region: DUF2190; pfam09956 1316932004718 Protease subunit of ATP-dependent Clp proteases [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: ClpP; COG0740 1316932004719 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_1; cd07016 1316932004720 oligomer interface [polypeptide binding]; other site 1316932004721 active site residues [active] 1316932004722 Mu-like prophage major head subunit gpT; Region: Mu-like_gpT; cl01826 1316932004723 Bacteriophage capsid protein [General function prediction only]; Region: COG5511 1316932004724 phage portal protein, lambda family; Region: portal_lambda; TIGR01539 1316932004725 Phage terminase large subunit (GpA); Region: Terminase_GpA; pfam05876 1316932004726 Protein of unknown function (DUF1441); Region: DUF1441; pfam07278 1316932004727 Protein of unknown function (DUF2570); Region: DUF2570; pfam10828 1316932004728 Predicted chitinase [General function prediction only]; Region: COG3179 1316932004729 Phage holin family (Lysis protein S); Region: Phage_holin_3; cl04938 1316932004730 Lipoprotein GNA1870 C terminal like; Region: Lipoprot_C; pfam08794 1316932004731 Phage antitermination protein Q; Region: Phage_antitermQ; pfam06530 1316932004732 Endodeoxyribonuclease RusA; Region: RusA; pfam05866 1316932004733 Protein of unknown function (DUF968); Region: DUF968; pfam06147 1316932004734 DNA N-6-adenine-methyltransferase (Dam); Region: Dam; cl05442 1316932004735 Replication protein P; Region: Phage_lambda_P; pfam06992 1316932004736 Helix-turn-helix domain; Region: HTH_36; pfam13730 1316932004737 Phage regulatory protein Rha (Phage_pRha); Region: Phage_pRha; pfam09669 1316932004738 Uncharacterized protein conserved in bacteria, prophage-related [Function unknown]; Region: COG4197 1316932004739 Predicted transcriptional regulator [Transcription]; Region: COG2932 1316932004740 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 1316932004741 Catalytic site [active] 1316932004742 Domain of unknown function (DUF4365); Region: DUF4365; pfam14280 1316932004743 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 1316932004744 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 1316932004745 dimer interface [polypeptide binding]; other site 1316932004746 ssDNA binding site [nucleotide binding]; other site 1316932004747 tetramer (dimer of dimers) interface [polypeptide binding]; other site 1316932004748 Uncharacterized conserved protein (DUF2303); Region: DUF2303; pfam10065 1316932004749 Protein of unknown function (DUF551); Region: DUF551; pfam04448 1316932004750 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) MazG-like domain found in a group of uncharacterized proteins from bacteria and archaea; Region: NTP-PPase_u3; cd11540 1316932004751 putative metal binding site [ion binding]; other site 1316932004752 KilA-N domain; Region: KilA-N; pfam04383 1316932004753 Prophage antirepressor [Transcription]; Region: COG3617 1316932004754 BRO family, N-terminal domain; Region: Bro-N; smart01040 1316932004755 P22AR C-terminal domain; Region: P22_AR_C; pfam10548 1316932004756 RNA recognition motif (RRM) superfamily; Region: RRM_SF; cl17169 1316932004757 Mu-like prophage protein Com; Region: Mu-like_Com; cl11540 1316932004758 Methyltransferase domain; Region: Methyltransf_25; pfam13649 1316932004759 Domain of unknown function (DUF4224); Region: DUF4224; pfam13986 1316932004760 Bacteriophage lambda integrase, N-terminal domain; Region: Phage_integ_N; pfam09003 1316932004761 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 1316932004762 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 1316932004763 active site 1316932004764 DNA binding site [nucleotide binding] 1316932004765 Int/Topo IB signature motif; other site 1316932004766 homoserine O-acetyltransferase; Provisional; Region: metX; PRK00175 1316932004767 homoserine O-acetyltransferase; Region: homoserO_Ac_trn; TIGR01392 1316932004768 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 1316932004769 putative active site [active] 1316932004770 formyltetrahydrofolate deformylase; Reviewed; Region: purU; PRK06027 1316932004771 N-terminal ACT domain of formyltetrahydrofolate deformylase (F4HF-DF; formyltetrahydrofolate hydrolase); Region: ACT_F4HF-DF; cd04875 1316932004772 Formyltetrahydrofolate deformylase (Formyl-FH4 hydrolase), C-terminal hydrolase domain; Region: FMT_core_Formyl-FH4-Hydrolase_C; cd08648 1316932004773 putative active site [active] 1316932004774 putative substrate binding site [chemical binding]; other site 1316932004775 putative cosubstrate binding site; other site 1316932004776 catalytic site [active] 1316932004777 DNA binding protein, nucleoid-associated; Provisional; Region: PRK10328 1316932004778 Domain in histone-like proteins of HNS family; Region: HNS; smart00528 1316932004779 Na+/H+ antiporter family; Region: Na_H_antiporter; pfam03553 1316932004780 classical (c) SDR, subgroup 5; Region: SDR_c5; cd05346 1316932004781 malonic semialdehyde reductase; Provisional; Region: PRK10538 1316932004782 putative NAD(P) binding site [chemical binding]; other site 1316932004783 homotetramer interface [polypeptide binding]; other site 1316932004784 homodimer interface [polypeptide binding]; other site 1316932004785 active site 1316932004786 tryptophan synthase, beta subunit; Region: trpB; TIGR00263 1316932004787 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 1316932004788 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1316932004789 catalytic residue [active] 1316932004790 tryptophan synthase alpha subunit; Provisional; Region: trpA; CHL00200 1316932004791 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 1316932004792 substrate binding site [chemical binding]; other site 1316932004793 active site 1316932004794 catalytic residues [active] 1316932004795 heterodimer interface [polypeptide binding]; other site 1316932004796 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5339 1316932004797 Bacterial protein of unknown function (DUF945); Region: DUF945; pfam06097 1316932004798 Integrase core domain; Region: rve; pfam00665 1316932004799 Integrase core domain; Region: rve_3; pfam13683 1316932004800 Winged helix-turn helix; Region: HTH_29; pfam13551 1316932004801 Helix-turn-helix domain; Region: HTH_28; pfam13518 1316932004802 Homeodomain-like domain; Region: HTH_32; pfam13565 1316932004803 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 1316932004804 active site 1316932004805 DNA binding site [nucleotide binding] 1316932004806 Int/Topo IB signature motif; other site 1316932004807 Uncharacterized protein family (UPF0150); Region: UPF0150; pfam03681 1316932004808 YcfA-like protein; Region: YcfA; pfam07927 1316932004809 Haemolysin XhlA; Region: XhlA; pfam10779 1316932004810 Predicted transcriptional regulator [Transcription]; Region: COG2932 1316932004811 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 1316932004812 Catalytic site [active] 1316932004813 Uncharacterized protein conserved in bacteria, prophage-related [Function unknown]; Region: COG4197 1316932004814 Winged helix-turn helix; Region: HTH_29; pfam13551 1316932004815 Helix-turn-helix domain; Region: HTH_28; pfam13518 1316932004816 Homeodomain-like domain; Region: HTH_32; pfam13565 1316932004817 Integrase core domain; Region: rve; pfam00665 1316932004818 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 1316932004819 Integrase core domain; Region: rve_3; pfam13683 1316932004820 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 1316932004821 non-specific DNA binding site [nucleotide binding]; other site 1316932004822 salt bridge; other site 1316932004823 sequence-specific DNA binding site [nucleotide binding]; other site 1316932004824 Phage derived protein Gp49-like (DUF891); Region: Gp49; cl01470 1316932004825 DNA polymerase I; Provisional; Region: PRK05755 1316932004826 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 1316932004827 active site 1316932004828 metal binding site 1 [ion binding]; metal-binding site 1316932004829 putative 5' ssDNA interaction site; other site 1316932004830 metal binding site 3; metal-binding site 1316932004831 metal binding site 2 [ion binding]; metal-binding site 1316932004832 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 1316932004833 putative DNA binding site [nucleotide binding]; other site 1316932004834 putative metal binding site [ion binding]; other site 1316932004835 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 1316932004836 active site 1316932004837 catalytic site [active] 1316932004838 substrate binding site [chemical binding]; other site 1316932004839 Polymerase I functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication; Region: DNA_pol_A_pol_I_C; cd08637 1316932004840 active site 1316932004841 DNA binding site [nucleotide binding] 1316932004842 catalytic site [active] 1316932004843 Outer membrane lipoprotein carrier protein LolA; Region: LolA; cl17548 1316932004844 lipoprotein chaperone; Reviewed; Region: lolA; PRK00031 1316932004845 Trp operon repressor; Provisional; Region: PRK01381 1316932004846 monofunctional biosynthetic peptidoglycan transglycosylase; Provisional; Region: mtgA; PRK00056 1316932004847 Transglycosylase; Region: Transgly; cl17702 1316932004848 This family contains NADPH-dependent flavin reductase and oxygen-insensitive nitroreductase. These enzymes are homodimeric flavoproteins that contain one FMN per monomer as a cofactor. Flavin reductase catalyzes the reduction of flavin by using NADPH as...; Region: NfsA_FRP; cd02146 1316932004849 dimer interface [polypeptide binding]; other site 1316932004850 FMN binding site [chemical binding]; other site 1316932004851 NADPH bind site [chemical binding]; other site 1316932004852 alpha-L-glutamate ligases, RimK family; Region: rimK_fam; TIGR00768 1316932004853 ATP-grasp domain; Region: ATP-grasp_4; cl17255 1316932004854 Malic enzyme [Energy production and conversion]; Region: SfcA; COG0281 1316932004855 Malic enzyme, N-terminal domain; Region: malic; pfam00390 1316932004856 NAD(P) binding domain of malic enzyme (ME), subgroup 2; Region: NAD_bind_2_malic_enz; cd05311 1316932004857 putative NAD(P) binding site [chemical binding]; other site 1316932004858 Ribosomal L25/TL5/CTC N-terminal 5S rRNA binding domain; Region: Ribosomal_L25_TL5_CTC; cd00495 1316932004859 5S rRNA interface [nucleotide binding]; other site 1316932004860 CTC domain interface [polypeptide binding]; other site 1316932004861 L16 interface [polypeptide binding]; other site 1316932004862 Bacteriophage lambda integrase, N-terminal domain; Region: Phage_integ_N; pfam09003 1316932004863 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 1316932004864 active site 1316932004865 DNA binding site [nucleotide binding] 1316932004866 Int/Topo IB signature motif; other site 1316932004867 Domain of unknown function (DUF4224); Region: DUF4224; pfam13986 1316932004868 H3TH domains of structure-specific 5' nucleases (or flap endonuclease-1-like) involved in DNA replication, repair, and recombination; Region: H3TH_StructSpec-5'-nucleases; cl14815 1316932004869 P22_AR N-terminal domain; Region: P22_AR_N; pfam10547 1316932004870 P22AR C-terminal domain; Region: P22_AR_C; pfam10548 1316932004871 LexA regulated protein; Provisional; Region: PRK11675 1316932004872 KilA-N domain; Region: KilA-N; pfam04383 1316932004873 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) MazG-like domain found in a group of uncharacterized proteins from bacteria and archaea; Region: NTP-PPase_u3; cd11540 1316932004874 putative metal binding site [ion binding]; other site 1316932004875 Protein of unknown function (DUF551); Region: DUF551; pfam04448 1316932004876 YqaJ-like viral recombinase domain; Region: YqaJ; pfam09588 1316932004877 RecT family; Region: RecT; pfam03837 1316932004878 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) MazG-like domain superfamily; Region: NTP-PPase; cl16941 1316932004879 metal binding site [ion binding]; metal-binding site 1316932004880 Plasmid maintenance system killer protein; Region: Plasmid_killer; cl01422 1316932004881 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 1316932004882 sequence-specific DNA binding site [nucleotide binding]; other site 1316932004883 salt bridge; other site 1316932004884 Winged helix-turn helix; Region: HTH_29; pfam13551 1316932004885 Helix-turn-helix domain; Region: HTH_28; pfam13518 1316932004886 Homeodomain-like domain; Region: HTH_32; pfam13565 1316932004887 Integrase core domain; Region: rve; pfam00665 1316932004888 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 1316932004889 Integrase core domain; Region: rve_3; pfam13683 1316932004890 Haemolysin XhlA; Region: XhlA; pfam10779 1316932004891 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 1316932004892 non-specific DNA binding site [nucleotide binding]; other site 1316932004893 salt bridge; other site 1316932004894 sequence-specific DNA binding site [nucleotide binding]; other site 1316932004895 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 1316932004896 Catalytic site [active] 1316932004897 Bacteriophage replication protein O; Region: Phage_rep_O; cl04545 1316932004898 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 1316932004899 replicative DNA helicase; Region: DnaB; TIGR00665 1316932004900 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 1316932004901 Walker A motif; other site 1316932004902 ATP binding site [chemical binding]; other site 1316932004903 Walker B motif; other site 1316932004904 MT-A70; Region: MT-A70; cl01947 1316932004905 Protein of unknown function (DUF1367); Region: DUF1367; pfam07105 1316932004906 Bacteriophage Lambda NinG protein; Region: NinG; pfam05766 1316932004907 Phage antitermination protein Q; Region: Phage_antitermQ; pfam06530 1316932004908 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 1316932004909 catalytic residues [active] 1316932004910 Protein of unknown function (DUF2570); Region: DUF2570; pfam10828 1316932004911 Terminase small subunit; Region: Terminase_2; pfam03592 1316932004912 Phage terminase large subunit; Region: Terminase_3; cl12054 1316932004913 Terminase-like family; Region: Terminase_6; pfam03237 1316932004914 phage-related protein, HI1409 family; Region: phge_rel_HI1409; TIGR01555 1316932004915 Phage Mu protein F like protein; Region: Phage_Mu_F; cl10072 1316932004916 Encapsulating protein for peroxidase; Region: Linocin_M18; cl17804 1316932004917 Phage major tail protein 2; Region: Phage_tail_2; cl11463 1316932004918 Uncharacterized protein family (UPF0150); Region: UPF0150; pfam03681 1316932004919 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 1316932004920 YcfA-like protein; Region: YcfA; pfam07927 1316932004921 Phage minor tail protein; Region: Phage_min_tail; cl01940 1316932004922 Phage minor tail protein L; Region: Phage_tail_L; cl01908 1316932004923 Phage-related protein [Function unknown]; Region: gp18; COG4672 1316932004924 Mpr1p, Pad1p N-terminal (MPN) domains with catalytic isopeptidase activity (metal-binding) found in proteins also containing NlpC/P60 domains; Region: MPN_NLPC_P60; cd08073 1316932004925 MPN+ (JAMM) motif; other site 1316932004926 Zinc-binding site [ion binding]; other site 1316932004927 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 1316932004928 NlpC/P60 family; Region: NLPC_P60; cl17555 1316932004929 Phage-related protein, tail component [Function unknown]; Region: COG4723 1316932004930 Phage-related protein, tail component [Function unknown]; Region: COG4733 1316932004931 Putative phage tail protein; Region: Phage-tail_3; pfam13550 1316932004932 Protein of unknown function (DUF1664); Region: DUF1664; pfam07889 1316932004933 Domain of unknown function (DUF1983); Region: DUF1983; pfam09327 1316932004934 Protein of unknown function (DUF1007); Region: DUF1007; pfam06226 1316932004935 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG2215 1316932004936 Na+/alanine symporter [Amino acid transport and metabolism]; Region: AlsT; COG1115 1316932004937 Sodium:alanine symporter family; Region: Na_Ala_symp; pfam01235 1316932004938 succinyl-CoA synthetase subunit alpha; Validated; Region: PRK05678 1316932004939 CoA binding domain; Region: CoA_binding; pfam02629 1316932004940 CoA-ligase; Region: Ligase_CoA; pfam00549 1316932004941 succinyl-CoA synthetase subunit beta; Provisional; Region: sucC; PRK00696 1316932004942 ATP-grasp domain; Region: ATP-grasp_2; pfam08442 1316932004943 CoA-ligase; Region: Ligase_CoA; pfam00549 1316932004944 dihydrolipoamide succinyltransferase; Validated; Region: PRK05704 1316932004945 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 1316932004946 E3 interaction surface; other site 1316932004947 lipoyl attachment site [posttranslational modification]; other site 1316932004948 e3 binding domain; Region: E3_binding; pfam02817 1316932004949 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 1316932004950 2-oxoglutarate dehydrogenase E1 component; Reviewed; Region: sucA; PRK09404 1316932004951 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 1316932004952 TPP-binding site [chemical binding]; other site 1316932004953 Transketolase, pyrimidine binding domain; Region: Transket_pyr; pfam02779 1316932004954 dimer interface [polypeptide binding]; other site 1316932004955 PYR/PP interface [polypeptide binding]; other site 1316932004956 TPP binding site [chemical binding]; other site 1316932004957 high-affinity zinc transporter ATPase; Reviewed; Region: znuC; PRK09544 1316932004958 ATP-binding cassette domain of the metal-type transporters; Region: ABC_Metallic_Cations; cd03235 1316932004959 putative peptidase; Provisional; Region: PRK11649 1316932004960 Peptidase family M23; Region: Peptidase_M23; pfam01551 1316932004961 protein disulfide isomerase II DsbC; Provisional; Region: PRK10877 1316932004962 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 1316932004963 dimerization domain [polypeptide binding]; other site 1316932004964 dimer interface [polypeptide binding]; other site 1316932004965 catalytic residues [active] 1316932004966 ssDNA exonuclease RecJ; Provisional; Region: PRK11070 1316932004967 DHH family; Region: DHH; pfam01368 1316932004968 DHHA1 domain; Region: DHHA1; pfam02272 1316932004969 Outer membrane lipoprotein OmlA (small protein A) [Cell envelope biogenesis, outer membrane]; Region: OlmA; COG2913 1316932004970 SmpA / OmlA family; Region: SmpA_OmlA; pfam04355 1316932004971 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 1316932004972 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 1316932004973 ligand binding site [chemical binding]; other site 1316932004974 pyridoxal phosphate (PLP) phosphatase; Provisional; Region: PRK10530 1316932004975 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 1316932004976 active site 1316932004977 motif I; other site 1316932004978 motif II; other site 1316932004979 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 1316932004980 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 1316932004981 nitrate/nitrite sensor protein NarQ; Provisional; Region: PRK10935 1316932004982 Type IV pili methyl-accepting chemotaxis transducer N-term; Region: PilJ; pfam13675 1316932004983 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 1316932004984 dimerization interface [polypeptide binding]; other site 1316932004985 Histidine kinase; Region: HisKA_3; pfam07730 1316932004986 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 1316932004987 ATP binding site [chemical binding]; other site 1316932004988 Mg2+ binding site [ion binding]; other site 1316932004989 G-X-G motif; other site 1316932004990 Sortase and related acyltransferases [Cell envelope biogenesis, outer membrane]; Region: COG1247 1316932004991 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1316932004992 Coenzyme A binding pocket [chemical binding]; other site 1316932004993 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 1316932004994 active site 1316932004995 dimerization interface [polypeptide binding]; other site 1316932004996 Putative heavy-metal-binding; Region: YbjQ_1; cl00426 1316932004997 hypothetical protein; Provisional; Region: PRK05170 1316932004998 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 1316932004999 dimer interface [polypeptide binding]; other site 1316932005000 active site 1316932005001 Transcriptional regulator of aromatic amino acids metabolism [Transcription / Amino acid transport and metabolism]; Region: TyrR; COG3283 1316932005002 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 1316932005003 Walker A motif; other site 1316932005004 ATP binding site [chemical binding]; other site 1316932005005 Walker B motif; other site 1316932005006 arginine finger; other site 1316932005007 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 1316932005008 The substrate-binding component of an ABC-type dipeptide import system contains the type 2 periplasmic binding fold; Region: PBP2_DppA_like; cd08493 1316932005009 peptide binding site [polypeptide binding]; other site 1316932005010 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 1316932005011 dimer interface [polypeptide binding]; other site 1316932005012 conserved gate region; other site 1316932005013 putative PBP binding loops; other site 1316932005014 ABC-ATPase subunit interface; other site 1316932005015 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SapC; COG4171 1316932005016 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 1316932005017 dimer interface [polypeptide binding]; other site 1316932005018 conserved gate region; other site 1316932005019 putative PBP binding loops; other site 1316932005020 ABC-ATPase subunit interface; other site 1316932005021 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SapD; COG4170 1316932005022 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1316932005023 Walker A/P-loop; other site 1316932005024 ATP binding site [chemical binding]; other site 1316932005025 Q-loop/lid; other site 1316932005026 ABC transporter signature motif; other site 1316932005027 Walker B; other site 1316932005028 D-loop; other site 1316932005029 H-loop/switch region; other site 1316932005030 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; pfam08352 1316932005031 Protein of unknown function (DUF1375); Region: DUF1375; pfam07119 1316932005032 tartrate dehydrogenase; Region: TTC; TIGR02089 1316932005033 3-isopropylmalate dehydrogenase; Provisional; Region: PRK00772 1316932005034 SelR domain; Region: SelR; pfam01641 1316932005035 methionine sulfoxide reductase B; Provisional; Region: PRK00222 1316932005036 glyceraldehyde-3-phosphate dehydrogenase A; Provisional; Region: gapA; PRK15425 1316932005037 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; smart00846 1316932005038 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 1316932005039 portal vertex protein; Provisional; Region: Q; PHA02536 1316932005040 Phage portal protein; Region: Phage_portal; pfam04860 1316932005041 terminase ATPase subunit; Provisional; Region: P; PHA02535 1316932005042 Putative ATPase subunit of terminase (gpP-like); Region: Terminase_5; pfam06056 1316932005043 Mu-like prophage FluMu protein gp28 [General function prediction only]; Region: COG4373 1316932005044 capsid-scaffolding protein; Provisional; Region: O; PHA02529 1316932005045 capsid protein; Provisional; Region: N; PHA02538 1316932005046 terminase endonuclease subunit; Provisional; Region: M; PHA02537 1316932005047 Phage small terminase subunit; Region: Phage_term_smal; pfam05944 1316932005048 Phage head completion protein (GPL); Region: Phage_GPL; pfam05926 1316932005049 Phage Tail Protein X; Region: Phage_tail_X; pfam05489 1316932005050 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 1316932005051 catalytic residues [active] 1316932005052 phage lambda Rz1-like protein; Region: PHA02047 1316932005053 DksA-like zinc finger domain containing protein; Region: PHA00080 1316932005054 P2 phage tail completion protein R (GpR); Region: P2_Phage_GpR; pfam06891 1316932005055 Phage virion morphogenesis family; Region: Phage_tail_S; pfam05069 1316932005056 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 1316932005057 Mu-like prophage protein [General function prediction only]; Region: COG3941 1316932005058 Plasmid stabilisation system protein; Region: Plasmid_stabil; cl17483 1316932005059 phage baseplate assembly protein V; Region: phage_P2_V; TIGR01644 1316932005060 Phage P2 baseplate assembly protein gpV [General function prediction only]; Region: gpV; COG4540 1316932005061 baseplate wedge subunit; Provisional; Region: W; PHA02516 1316932005062 baseplate assembly protein; Provisional; Region: J; PHA02568 1316932005063 Phage tail protein (Tail_P2_I); Region: Tail_P2_I; pfam09684 1316932005064 Phage tail-collar fibre protein; Region: DUF3751; pfam12571 1316932005065 Pectate lyase superfamily protein; Region: Pectate_lyase_3; pfam12708 1316932005066 Protein of unknown function (DUF1353); Region: DUF1353; pfam07087 1316932005067 major tail sheath protein; Provisional; Region: FI; PHA02560 1316932005068 major tail tube protein; Provisional; Region: FII; PHA02600 1316932005069 Mu-like prophage FluMu protein gp41; Region: FluMu_gp41; pfam10109 1316932005070 Phage P2 GpU; Region: Phage_P2_GpU; pfam06995 1316932005071 tail protein; Provisional; Region: D; PHA02561 1316932005072 Protein of unknown function (DUF3800); Region: DUF3800; pfam12686 1316932005073 Excalibur calcium-binding domain; Region: Excalibur; pfam05901 1316932005074 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 1316932005075 Dimer interface [polypeptide binding]; other site 1316932005076 BRCT sequence motif; other site 1316932005077 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 1316932005078 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 1316932005079 non-specific DNA binding site [nucleotide binding]; other site 1316932005080 salt bridge; other site 1316932005081 sequence-specific DNA binding site [nucleotide binding]; other site 1316932005082 Predicted transcriptional regulator [Transcription]; Region: COG2932 1316932005083 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 1316932005084 Catalytic site [active] 1316932005085 Bacteriophage replication gene A protein (GPA); Region: Phage_GPA; pfam05840 1316932005086 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 1316932005087 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 1316932005088 dimer interface [polypeptide binding]; other site 1316932005089 ssDNA binding site [nucleotide binding]; other site 1316932005090 tetramer (dimer of dimers) interface [polypeptide binding]; other site 1316932005091 Integrase [DNA replication, recombination, and repair]; Region: XerC; COG0582 1316932005092 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 1316932005093 active site 1316932005094 DNA binding site [nucleotide binding] 1316932005095 Int/Topo IB signature motif; other site 1316932005096 diadenosine tetraphosphatase; Reviewed; Region: apaH; PRK00166 1316932005097 Escherichia coli ApaH and related proteins, metallophosphatase domain; Region: MPP_ApaH; cd07422 1316932005098 active site 1316932005099 metal binding site [ion binding]; metal-binding site 1316932005100 exoribonuclease II; Provisional; Region: PRK05054 1316932005101 Ribonuclease B OB domain; Region: OB_RNB; pfam08206 1316932005102 RNB domain; Region: RNB; pfam00773 1316932005103 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 1316932005104 RNA binding site [nucleotide binding]; other site 1316932005105 Bor protein; Region: Lambda_Bor; pfam06291 1316932005106 Bor protein; Region: Lambda_Bor; pfam06291 1316932005107 Enoyl-[acyl-carrier-protein]; Region: FabI; COG0623 1316932005108 Enoyl acyl carrier protein (ACP) reductase (ENR), divergent SDR; Region: ENR_SDR; cd05372 1316932005109 NAD binding site [chemical binding]; other site 1316932005110 homotetramer interface [polypeptide binding]; other site 1316932005111 homodimer interface [polypeptide binding]; other site 1316932005112 substrate binding site [chemical binding]; other site 1316932005113 active site 1316932005114 fumarate/nitrate reduction transcriptional regulator; Provisional; Region: PRK11161 1316932005115 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 1316932005116 ligand binding site [chemical binding]; other site 1316932005117 flexible hinge region; other site 1316932005118 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 1316932005119 putative switch regulator; other site 1316932005120 non-specific DNA interactions [nucleotide binding]; other site 1316932005121 DNA binding site [nucleotide binding] 1316932005122 sequence specific DNA binding site [nucleotide binding]; other site 1316932005123 putative cAMP binding site [chemical binding]; other site 1316932005124 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 1316932005125 Ligand Binding Site [chemical binding]; other site 1316932005126 alanyl-tRNA synthetase; Reviewed; Region: alaS; PRK00252 1316932005127 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 1316932005128 motif 1; other site 1316932005129 active site 1316932005130 motif 2; other site 1316932005131 motif 3; other site 1316932005132 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 1316932005133 DHHA1 domain; Region: DHHA1; pfam02272 1316932005134 carbon storage regulator; Provisional; Region: PRK01712 1316932005135 Prokaryotic UGPase catalyses the synthesis of UDP-glucose; Region: UGPase_prokaryotic; cd02541 1316932005136 tetramer interface; other site 1316932005137 active site 1316932005138 condesin subunit F; Provisional; Region: PRK05260 1316932005139 condesin subunit E; Provisional; Region: PRK05256 1316932005140 cell division protein MukB; Provisional; Region: mukB; PRK04863 1316932005141 P-loop containing region of AAA domain; Region: AAA_29; cl17516 1316932005142 Putative exonuclease SbcCD, C subunit; Region: SbcCD_C; pfam13558 1316932005143 putative arabinose transporter; Provisional; Region: PRK03545 1316932005144 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 1316932005145 Domain of unknown function (DUF3413); Region: DUF3413; pfam11893 1316932005146 Predicted hydrolase of alkaline phosphatase superfamily [General function prediction only]; Region: COG3083 1316932005147 Sulfatase; Region: Sulfatase; cl17466 1316932005148 hypothetical protein; Provisional; Region: PRK13689 1316932005149 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1316932005150 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1316932005151 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 1316932005152 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1316932005153 HlyD family secretion protein; Region: HlyD_3; pfam13437 1316932005154 multidrug efflux protein; Reviewed; Region: PRK09579 1316932005155 inosine 5'-monophosphate dehydrogenase; Reviewed; Region: PRK05567 1316932005156 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 1316932005157 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 1316932005158 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 1316932005159 active site 1316932005160 beta-phosphoglucomutase; Region: bPGM; TIGR01990 1316932005161 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 1316932005162 motif II; other site 1316932005163 GMP synthase; Reviewed; Region: guaA; PRK00074 1316932005164 Type 1 glutamine amidotransferase (GATase1) domain found in GMP synthetase; Region: GATase1_GMP_Synthase; cd01742 1316932005165 AMP/PPi binding site [chemical binding]; other site 1316932005166 candidate oxyanion hole; other site 1316932005167 catalytic triad [active] 1316932005168 potential glutamine specificity residues [chemical binding]; other site 1316932005169 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 1316932005170 ATP Binding subdomain [chemical binding]; other site 1316932005171 Ligand Binding sites [chemical binding]; other site 1316932005172 Dimerization subdomain; other site 1316932005173 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3105 1316932005174 Protein of unknown function (DUF1043); Region: DUF1043; pfam06295 1316932005175 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 1316932005176 23S rRNA interface [nucleotide binding]; other site 1316932005177 L3 interface [polypeptide binding]; other site 1316932005178 30S ribosomal protein S9; Reviewed; Region: rpsI; PRK00132 1316932005179 N-terminal domain of reverse transcriptase; Region: RVT_N; pfam13655 1316932005180 Retron-type reverse transcriptase [DNA replication, recombination, and repair]; Region: COG3344 1316932005181 RT_G2_intron: Reverse transcriptases (RTs) with group II intron origin. RT transcribes DNA using RNA as template. Proteins in this subfamily are found in bacterial and mitochondrial group II introns. Their most probable ancestor was a retrotransposable...; Region: RT_G2_intron; cd01651 1316932005182 RT_G2_intron: Reverse transcriptases (RTs) with group II intron origin. RT transcribes DNA using RNA as template. Proteins in this subfamily are found in bacterial and mitochondrial group II introns. Their most probable ancestor was a retrotransposable...; Region: RT_G2_intron; cd01651 1316932005183 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 1316932005184 putative active site [active] 1316932005185 putative nucleic acid binding site [nucleotide binding]; other site 1316932005186 Group II intron, maturase-specific domain; Region: GIIM; pfam08388 1316932005187 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 1316932005188 active site 1316932005189 hypothetical protein; Validated; Region: PRK02101 1316932005190 Cation efflux family; Region: Cation_efflux; cl00316 1316932005191 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 1316932005192 Zn-ribbon-containing, possibly nucleic-acid-binding protein (DUF2310); Region: DUF2310; pfam10071 1316932005193 Predicted Na+/dicarboxylate symporter [General function prediction only]; Region: COG1823 1316932005194 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 1316932005195 NAD(P)H:FMN oxidoreductase family. This domain catalyzes the reduction of flavin, nitrocompound, quinones and azo compounds using NADH or NADPH as an electron donor. The enzyme is a homodimer, and each monomer binds a FMN as co-factor. This family...; Region: NfsB_like_nitroreductase; cd02149 1316932005196 dimer interface [polypeptide binding]; other site 1316932005197 FMN binding site [chemical binding]; other site 1316932005198 phenylalanyl-tRNA synthetase subunit alpha; Validated; Region: pheS; PRK00488 1316932005199 Aminoacyl tRNA synthetase class II, N-terminal domain; Region: Phe_tRNA-synt_N; pfam02912 1316932005200 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 1316932005201 dimer interface [polypeptide binding]; other site 1316932005202 motif 1; other site 1316932005203 active site 1316932005204 motif 2; other site 1316932005205 motif 3; other site 1316932005206 phenylalanyl-tRNA synthetase subunit beta; Reviewed; Region: pheT; PRK00629 1316932005207 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 1316932005208 putative tRNA-binding site [nucleotide binding]; other site 1316932005209 B3/4 domain; Region: B3_4; pfam03483 1316932005210 tRNA synthetase B5 domain; Region: B5; smart00874 1316932005211 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 1316932005212 dimer interface [polypeptide binding]; other site 1316932005213 motif 1; other site 1316932005214 motif 3; other site 1316932005215 motif 2; other site 1316932005216 Ferredoxin-fold anticodon binding domain; Region: FDX-ACB; smart00896 1316932005217 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 1316932005218 IHF dimer interface [polypeptide binding]; other site 1316932005219 IHF - DNA interface [nucleotide binding]; other site 1316932005220 NlpC/P60 family; Region: NLPC_P60; pfam00877 1316932005221 serine endoprotease; Provisional; Region: PRK10898 1316932005222 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 1316932005223 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 1316932005224 protein binding site [polypeptide binding]; other site 1316932005225 cytidylate kinase; Provisional; Region: cmk; PRK00023 1316932005226 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 1316932005227 CMP-binding site; other site 1316932005228 The sites determining sugar specificity; other site 1316932005229 30S ribosomal protein S1; Reviewed; Region: rpsA; PRK06299 1316932005230 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 1316932005231 RNA binding site [nucleotide binding]; other site 1316932005232 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 1316932005233 RNA binding site [nucleotide binding]; other site 1316932005234 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 1316932005235 RNA binding site [nucleotide binding]; other site 1316932005236 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 1316932005237 RNA binding site [nucleotide binding]; other site 1316932005238 S1_RPS1_repeat_ec5: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture consists...; Region: S1_RPS1_repeat_ec5; cd05690 1316932005239 RNA binding site [nucleotide binding]; other site 1316932005240 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 1316932005241 RNA binding site [nucleotide binding]; other site 1316932005242 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 1316932005243 IHF dimer interface [polypeptide binding]; other site 1316932005244 IHF - DNA interface [nucleotide binding]; other site 1316932005245 Protein of unknown function (DUF1049); Region: DUF1049; cl01539 1316932005246 tetratricopeptide repeat protein; Provisional; Region: PRK11788 1316932005247 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 1316932005248 binding surface 1316932005249 TPR motif; other site 1316932005250 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 1316932005251 TPR motif; other site 1316932005252 binding surface 1316932005253 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 1316932005254 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 1316932005255 active site 1316932005256 dimer interface [polypeptide binding]; other site 1316932005257 translation initiation factor Sui1; Validated; Region: PRK06824 1316932005258 Homologs of eIF1/SUI1 including Escherichia coli YciH; Region: YciH_like; cd11567 1316932005259 putative rRNA binding site [nucleotide binding]; other site 1316932005260 lytic murein transglycosylase; Provisional; Region: PRK11619 1316932005261 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 1316932005262 N-acetyl-D-glucosamine binding site [chemical binding]; other site 1316932005263 catalytic residue [active] 1316932005264 ribosome maturation protein RimP; Reviewed; Region: PRK00092 1316932005265 Sm and related proteins; Region: Sm_like; cl00259 1316932005266 Bacillus subtilis YxlS-like, C-terminal domain; Region: YlxS_C; cd01734 1316932005267 putative oligomer interface [polypeptide binding]; other site 1316932005268 putative RNA binding site [nucleotide binding]; other site 1316932005269 transcription elongation factor NusA; Validated; Region: nusA; PRK09202 1316932005270 NusA N-terminal domain; Region: NusA_N; pfam08529 1316932005271 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 1316932005272 RNA binding site [nucleotide binding]; other site 1316932005273 homodimer interface [polypeptide binding]; other site 1316932005274 NusA-like KH domain; Region: KH_5; pfam13184 1316932005275 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 1316932005276 G-X-X-G motif; other site 1316932005277 transcription termination factor NusA, C-terminal duplication; Region: nusA_Cterm_rpt; TIGR01954 1316932005278 transcription termination factor NusA, C-terminal duplication; Region: nusA_Cterm_rpt; TIGR01954 1316932005279 translation initiation factor IF-2; Region: IF-2; TIGR00487 1316932005280 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 1316932005281 Initiation Factor 2 (IF2)/ eukaryotic Initiation Factor 5B (eIF5B) family; Region: IF2_eIF5B; cd01887 1316932005282 G1 box; other site 1316932005283 putative GEF interaction site [polypeptide binding]; other site 1316932005284 GTP/Mg2+ binding site [chemical binding]; other site 1316932005285 Switch I region; other site 1316932005286 G2 box; other site 1316932005287 G3 box; other site 1316932005288 Switch II region; other site 1316932005289 G4 box; other site 1316932005290 G5 box; other site 1316932005291 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 1316932005292 Translation-initiation factor 2; Region: IF-2; pfam11987 1316932005293 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 1316932005294 ribosome-binding factor A; Validated; Region: rbfA; PRK00521 1316932005295 tRNA pseudouridine synthase B; Provisional; Region: truB; PRK05033 1316932005296 Pseudouridine synthase, Escherichia coli TruB like; Region: PseudoU_synth_EcTruB; cd02573 1316932005297 RNA binding site [nucleotide binding]; other site 1316932005298 active site 1316932005299 Pseudouridine synthase II TruB, C-terminal; Region: TruB-C_2; pfam09157 1316932005300 Transglycosylase SLT domain; Region: SLT_2; pfam13406 1316932005301 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 1316932005302 N-acetyl-D-glucosamine binding site [chemical binding]; other site 1316932005303 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 1316932005304 nucleoside/Zn binding site; other site 1316932005305 dimer interface [polypeptide binding]; other site 1316932005306 catalytic motif [active] 1316932005307 ATP-dependent RNA helicase DeaD; Provisional; Region: PRK11634 1316932005308 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 1316932005309 ATP binding site [chemical binding]; other site 1316932005310 Mg++ binding site [ion binding]; other site 1316932005311 motif III; other site 1316932005312 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 1316932005313 nucleotide binding region [chemical binding]; other site 1316932005314 ATP-binding site [chemical binding]; other site 1316932005315 RNA recognition motif in Escherichia coli cold-shock DEAD box protein A (CsdA) and similar proteins; Region: RRM_EcCsdA_like; cd12499 1316932005316 putative RNA binding site [nucleotide binding]; other site 1316932005317 lipoprotein NlpI; Provisional; Region: PRK11189 1316932005318 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 1316932005319 binding surface 1316932005320 TPR motif; other site 1316932005321 polynucleotide phosphorylase/polyadenylase; Provisional; Region: PRK11824 1316932005322 Polyribonucleotide nucleotidyltransferase, repeat 1; Region: RNase_PH_PNPase_1; cd11363 1316932005323 RNase E interface [polypeptide binding]; other site 1316932005324 trimer interface [polypeptide binding]; other site 1316932005325 Polyribonucleotide nucleotidyltransferase, RNA binding domain; Region: PNPase; pfam03726 1316932005326 Polyribonucleotide nucleotidyltransferase, repeat 2; Region: RNase_PH_PNPase_2; cd11364 1316932005327 RNase E interface [polypeptide binding]; other site 1316932005328 trimer interface [polypeptide binding]; other site 1316932005329 active site 1316932005330 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 1316932005331 putative nucleic acid binding region [nucleotide binding]; other site 1316932005332 G-X-X-G motif; other site 1316932005333 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 1316932005334 RNA binding site [nucleotide binding]; other site 1316932005335 domain interface; other site 1316932005336 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 1316932005337 PAS domain; Region: PAS; smart00091 1316932005338 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 1316932005339 dimer interface [polypeptide binding]; other site 1316932005340 phosphorylation site [posttranslational modification] 1316932005341 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 1316932005342 ATP binding site [chemical binding]; other site 1316932005343 Mg2+ binding site [ion binding]; other site 1316932005344 G-X-G motif; other site 1316932005345 phosphate regulon transcriptional regulatory protein PhoB; Region: PhoB; TIGR02154 1316932005346 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 1316932005347 active site 1316932005348 phosphorylation site [posttranslational modification] 1316932005349 intermolecular recognition site; other site 1316932005350 dimerization interface [polypeptide binding]; other site 1316932005351 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 1316932005352 DNA binding site [nucleotide binding] 1316932005353 phosphate transporter ATP-binding protein; Provisional; Region: pstB; PRK10744 1316932005354 ATP-binding cassette domain of the phosphate transport system; Region: ABC_PstB_phosphate_transporter; cd03260 1316932005355 Walker A/P-loop; other site 1316932005356 ATP binding site [chemical binding]; other site 1316932005357 Q-loop/lid; other site 1316932005358 ABC transporter signature motif; other site 1316932005359 Walker B; other site 1316932005360 D-loop; other site 1316932005361 H-loop/switch region; other site 1316932005362 phosphate transporter permease subunit PtsA; Provisional; Region: pstA; PRK11268 1316932005363 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 1316932005364 dimer interface [polypeptide binding]; other site 1316932005365 conserved gate region; other site 1316932005366 putative PBP binding loops; other site 1316932005367 ABC-ATPase subunit interface; other site 1316932005368 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 1316932005369 dimer interface [polypeptide binding]; other site 1316932005370 conserved gate region; other site 1316932005371 putative PBP binding loops; other site 1316932005372 ABC-ATPase subunit interface; other site 1316932005373 PBP superfamily domain; Region: PBP_like_2; cl17296 1316932005374 DNA topoisomerase IV subunit A; Validated; Region: PRK05561 1316932005375 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 1316932005376 CAP-like domain; other site 1316932005377 active site 1316932005378 primary dimer interface [polypeptide binding]; other site 1316932005379 aspartate kinase III; Validated; Region: PRK09084 1316932005380 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 1316932005381 nucleotide binding site [chemical binding]; other site 1316932005382 substrate binding site [chemical binding]; other site 1316932005383 ACT domains located C-terminal to the catalytic domain of the lysine-sensitive aspartokinase isoenzyme AKIII; Region: ACT_AKiii-LysC-EC_1; cd04932 1316932005384 lysine allosteric regulatory site; other site 1316932005385 dimer interface [polypeptide binding]; other site 1316932005386 ACT domains located C-terminal to the catalytic domain of the lysine-sensitive aspartokinase isoenzyme AKIII; Region: ACT_AKiii-LysC-EC_2; cd04917 1316932005387 dimer interface [polypeptide binding]; other site 1316932005388 PTS system, N-acetylglucosamine-specific IIBC component; Region: PTS-II-BC-nag; TIGR01998 1316932005389 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 1316932005390 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 1316932005391 active site turn [active] 1316932005392 phosphorylation site [posttranslational modification] 1316932005393 hypothetical protein; Provisional; Region: PRK05423 1316932005394 exopolyphosphatase; Provisional; Region: PRK10854 1316932005395 Ppx/GppA phosphatase family; Region: Ppx-GppA; pfam02541 1316932005396 Domain of unknown function (DUF386); Region: DUF386; cl01047 1316932005397 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 1316932005398 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 1316932005399 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 1316932005400 putative active site [active] 1316932005401 bifunctional UDP-sugar hydrolase/5'-nucleotidase periplasmic precursor; Reviewed; Region: ushA; PRK09558 1316932005402 Escherichia coli UshA and related proteins, N-terminal metallophosphatase domain; Region: MPP_UshA_N; cd07405 1316932005403 active site 1316932005404 metal binding site [ion binding]; metal-binding site 1316932005405 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 1316932005406 Diacylglycerol kinase [Cell envelope biogenesis, outer membrane]; Region: DgkA; COG0818 1316932005407 serine/threonine transporter SstT; Provisional; Region: PRK13628 1316932005408 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 1316932005409 Domain of unknown function (DUF4131); Region: DUF4131; pfam13567 1316932005410 DNA internalization-related competence protein ComEC/Rec2; Region: ComEC_Rec2; TIGR00361 1316932005411 Competence protein; Region: Competence; pfam03772 1316932005412 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 1316932005413 Transposase IS200 like; Region: Y1_Tnp; cl00848 1316932005414 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Provisional; Region: queA; PRK00147 1316932005415 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Region: queA; TIGR00113 1316932005416 Hemolysin activation/secretion protein [Intracellular trafficking and secretion]; Region: FhaC; COG2831 1316932005417 POTRA domain, ShlB-type; Region: POTRA_2; pfam08479 1316932005418 Haemolysin secretion/activation protein ShlB/FhaC/HecB; Region: ShlB; pfam03865 1316932005419 Extended Signal Peptide of Type V secretion system; Region: ESPR; pfam13018 1316932005420 haemagglutination activity domain; Region: Haemagg_act; pfam05860 1316932005421 adhesin HecA family 20-residue repeat (two copies); Region: fil_hemag_20aa; TIGR01731 1316932005422 Large exoproteins involved in heme utilization or adhesion [Intracellular trafficking and secretion]; Region: FhaB; COG3210 1316932005423 Haemagluttinin repeat; Region: Fil_haemagg_2; pfam13332 1316932005424 Pre-toxin domain with VENN motif; Region: PT-VENN; pfam04829 1316932005425 Hedgehog/Intein domain, found in Hedgehog proteins as well as proteins which contain inteins and undergo protein splicing (e.g. DnaB, RIR1-2, GyrA and Pol). In protein splicing an intervening polypeptide sequence - the intein - is excised from a protein; Region: Hint; cd00081 1316932005426 protein-splicing catalytic site; other site 1316932005427 thioester formation/cholesterol transfer; other site 1316932005428 Pretoxin HINT domain; Region: PT-HINT; pfam07591 1316932005429 HNH/ENDO VII superfamily nuclease with conserved GHE residues; Region: GH-E; pfam14410 1316932005430 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 1316932005431 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 1316932005432 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 1316932005433 TPR repeat; Region: TPR_11; pfam13414 1316932005434 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 1316932005435 binding surface 1316932005436 TPR motif; other site 1316932005437 Protein of unknown function (DUF560); Region: DUF560; pfam04575 1316932005438 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 1316932005439 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 1316932005440 ribonucleotide-diphosphate reductase subunit alpha; Validated; Region: PRK09103 1316932005441 ATP cone domain; Region: ATP-cone; pfam03477 1316932005442 Class I ribonucleotide reductase; Region: RNR_I; cd01679 1316932005443 active site 1316932005444 dimer interface [polypeptide binding]; other site 1316932005445 catalytic residues [active] 1316932005446 effector binding site; other site 1316932005447 R2 peptide binding site; other site 1316932005448 Ribonucleotide Reductase, R2/beta subunit, ferritin-like diiron-binding domain; Region: RNRR2; cd01049 1316932005449 dimer interface [polypeptide binding]; other site 1316932005450 putative radical transfer pathway; other site 1316932005451 diiron center [ion binding]; other site 1316932005452 tyrosyl radical; other site 1316932005453 Uncharacterized conserved protein [Function unknown]; Region: COG0327 1316932005454 NIF3 (NGG1p interacting factor 3); Region: NIF3; cl15371 1316932005455 FtsX-like permease family; Region: FtsX; pfam02687 1316932005456 Winged helix-turn helix; Region: HTH_29; pfam13551 1316932005457 Helix-turn-helix domain; Region: HTH_28; pfam13518 1316932005458 Homeodomain-like domain; Region: HTH_32; pfam13565 1316932005459 Integrase core domain; Region: rve; pfam00665 1316932005460 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 1316932005461 Integrase core domain; Region: rve_3; pfam13683 1316932005462 DNA-binding transcriptional regulator CpxR; Provisional; Region: PRK10955 1316932005463 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 1316932005464 active site 1316932005465 phosphorylation site [posttranslational modification] 1316932005466 intermolecular recognition site; other site 1316932005467 dimerization interface [polypeptide binding]; other site 1316932005468 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 1316932005469 DNA binding site [nucleotide binding] 1316932005470 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 1316932005471 homodimer interface [polypeptide binding]; other site 1316932005472 active site 1316932005473 putative chemical substrate binding site [chemical binding]; other site 1316932005474 metal binding site [ion binding]; metal-binding site 1316932005475 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 1316932005476 metal binding site [ion binding]; metal-binding site 1316932005477 homodimer interface [polypeptide binding]; other site 1316932005478 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) MazG-like domain superfamily; Region: NTP-PPase; cl16941 1316932005479 acetyl-CoA carboxylase subunit beta; Validated; Region: PRK05654 1316932005480 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189; cl17682 1316932005481 bifunctional folylpolyglutamate synthase/ dihydrofolate synthase; Provisional; Region: PRK10846 1316932005482 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 1316932005483 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cl17170 1316932005484 G4 box; other site 1316932005485 aromatic amino acid aminotransferase; Provisional; Region: PRK09257 1316932005486 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 1316932005487 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1316932005488 homodimer interface [polypeptide binding]; other site 1316932005489 catalytic residue [active] 1316932005490 Predicted P-loop ATPase fused to an acetyltransferase [General function prediction only]; Region: COG1444 1316932005491 Helicase; Region: Helicase_RecD; pfam05127 1316932005492 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1316932005493 Coenzyme A binding pocket [chemical binding]; other site 1316932005494 metal-binding heat shock protein; Provisional; Region: PRK00016 1316932005495 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 1316932005496 MoaE homodimer interface [polypeptide binding]; other site 1316932005497 MoaD interaction [polypeptide binding]; other site 1316932005498 active site residues [active] 1316932005499 Ubiquitin domain of MoaD-like proteins; Region: MoaD; cd00754 1316932005500 MoaE interaction surface [polypeptide binding]; other site 1316932005501 MoeB interaction surface [polypeptide binding]; other site 1316932005502 thiocarboxylated glycine; other site 1316932005503 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 1316932005504 trimer interface [polypeptide binding]; other site 1316932005505 dimer interface [polypeptide binding]; other site 1316932005506 putative active site [active] 1316932005507 molybdenum cofactor biosynthesis protein A; Reviewed; Region: moaA; PRK00164 1316932005508 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 1316932005509 FeS/SAM binding site; other site 1316932005510 Molybdenum Cofactor Synthesis C; Region: Mob_synth_C; pfam06463 1316932005511 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 1316932005512 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 1316932005513 DNA binding residues [nucleotide binding] 1316932005514 dimerization interface [polypeptide binding]; other site 1316932005515 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 1316932005516 Periplasmic binding domain of ATP-binding cassette transporter-like systems that belong to the type I periplasmic binding fold protein superfamily; Region: PBP1_ABC_transporter_LIVBP_like; cd06268 1316932005517 ligand binding site [chemical binding]; other site 1316932005518 trimethylamine-N-oxide reductase c-type cytochrome TorC; Region: torC; TIGR02162 1316932005519 cytochrome c-type protein NapC; Provisional; Region: PRK10617; cl17554 1316932005520 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 1316932005521 molybdopterin guanine dinucleotide-containing S/N-oxide reductases; Region: bisC_fam; TIGR00509 1316932005522 molybdopterin cofactor binding site [chemical binding]; other site 1316932005523 substrate binding site [chemical binding]; other site 1316932005524 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 1316932005525 molybdopterin cofactor binding site; other site 1316932005526 ARP2/3 complex 16 kDa subunit (p16-Arc); Region: P16-Arc; pfam04699 1316932005527 Adenine specific DNA methylase Mod [DNA replication, recombination, and repair]; Region: COG2189 1316932005528 DNA methylase; Region: N6_N4_Mtase; pfam01555 1316932005529 Adenine specific DNA methylase Mod [DNA replication, recombination, and repair]; Region: COG2189 1316932005530 DEAD-like helicases superfamily; Region: DEXDc; smart00487 1316932005531 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 1316932005532 Restriction endonuclease [Defense mechanisms]; Region: COG3587 1316932005533 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 1316932005534 Citrate synthase [Energy production and conversion]; Region: GltA; COG0372 1316932005535 dimer interface [polypeptide binding]; other site 1316932005536 active site 1316932005537 citrylCoA binding site [chemical binding]; other site 1316932005538 NADH binding [chemical binding]; other site 1316932005539 cationic pore residues; other site 1316932005540 oxalacetate/citrate binding site [chemical binding]; other site 1316932005541 coenzyme A binding site [chemical binding]; other site 1316932005542 catalytic triad [active] 1316932005543 isocitrate dehydrogenase; Reviewed; Region: PRK07006 1316932005544 isocitrate dehydrogenase; Validated; Region: PRK07362 1316932005545 bifunctional aconitate hydratase 2/2-methylisocitrate dehydratase; Validated; Region: PRK09238 1316932005546 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 1316932005547 substrate binding site [chemical binding]; other site 1316932005548 Aconitate hydratase B catalyses the formation of cis-aconitate from citrate as part of the TCA cycle; Region: AcnB; cd01581 1316932005549 substrate binding site [chemical binding]; other site 1316932005550 ligand binding site [chemical binding]; other site 1316932005551 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 1316932005552 molybdopterin guanine dinucleotide-containing S/N-oxide reductases; Region: bisC_fam; TIGR00509 1316932005553 molybdopterin cofactor binding site [chemical binding]; other site 1316932005554 substrate binding site [chemical binding]; other site 1316932005555 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 1316932005556 molybdopterin cofactor binding site; other site 1316932005557 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 1316932005558 Sulfate transporter N-terminal domain with GLY motif; Region: Sulfate_tra_GLY; pfam13792 1316932005559 Sulfate transporter family; Region: Sulfate_transp; pfam00916 1316932005560 Sulfate transporter family; Region: Sulfate_transp; pfam00916 1316932005561 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 1316932005562 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 1316932005563 Uncharacterized small membrane protein [Function unknown]; Region: COG2363 1316932005564 putative 23S rRNA C2498 ribose 2'-O-ribose methyltransferase; Provisional; Region: PRK11760 1316932005565 FtsJ-like methyltransferase; Region: FtsJ; pfam01728 1316932005566 Dihydrodipicolinate reductase [Amino acid transport and metabolism]; Region: DapB; COG0289 1316932005567 Dihydrodipicolinate reductase, N-terminus; Region: DapB_N; pfam01113 1316932005568 Dihydrodipicolinate reductase, C-terminus; Region: DapB_C; pfam05173 1316932005569 cystathionine gamma-synthase; Reviewed; Region: PRK08247 1316932005570 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 1316932005571 homodimer interface [polypeptide binding]; other site 1316932005572 substrate-cofactor binding pocket; other site 1316932005573 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1316932005574 catalytic residue [active] 1316932005575 chloroplast protein import component Toc86/159, G and M domains; Region: 3a0901s04IAP86; TIGR00993 1316932005576 ribokinase/pfkB superfamily: Kinases that accept a wide variety of substrates, including carbohydrates and aromatic small molecules, all are phosphorylated at a hydroxyl group. The superfamily includes ribokinase, fructokinase, ketohexokinase; Region: ribokinase_pfkB_like; cl00192 1316932005577 pilus (MSHA type) biogenesis protein MshL; Region: pilus_MshL; TIGR02519 1316932005578 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 1316932005579 Zonular occludens toxin (Zot); Region: Zot; cl17485 1316932005580 Zonular occludens toxin (Zot); Region: Zot; cl17485 1316932005581 Winged helix-turn helix; Region: HTH_29; pfam13551 1316932005582 Helix-turn-helix domain; Region: HTH_28; pfam13518 1316932005583 Homeodomain-like domain; Region: HTH_32; pfam13565 1316932005584 Integrase core domain; Region: rve; pfam00665 1316932005585 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 1316932005586 Integrase core domain; Region: rve_3; pfam13683 1316932005587 Phage replication protein CRI; Region: Phage_CRI; pfam05144 1316932005588 Phage X family; Region: Phage_X; cl11585 1316932005589 Integrase core domain; Region: rve_3; pfam13683 1316932005590 Integrase core domain; Region: rve; pfam00665 1316932005591 Winged helix-turn helix; Region: HTH_29; pfam13551 1316932005592 Helix-turn-helix domain; Region: HTH_28; pfam13518 1316932005593 putative nicotinate phosphoribosyltransferase; Provisional; Region: PRK09198 1316932005594 pre-B-cell colony-enhancing factor (PBEF)-like. The mammalian members of this group of nicotinate phosphoribosyltransferases (NAPRTases) were originally identified as genes whose expression is upregulated upon activation in lymphoid cells. In general; Region: PBEF_like; cd01569 1316932005595 active site 1316932005596 bifunctional 2',3'-cyclic nucleotide 2'-phosphodiesterase/3'-nucleotidase periplasmic precursor protein; Reviewed; Region: cpdB; PRK09420 1316932005597 Escherichia coli CpdB and related proteins, N-terminal metallophosphatase domain; Region: MPP_CpdB_N; cd07410 1316932005598 active site 1316932005599 metal binding site [ion binding]; metal-binding site 1316932005600 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 1316932005601 acetate kinase A/propionate kinase 2; Reviewed; Region: PRK00180 1316932005602 propionate/acetate kinase; Provisional; Region: PRK12379 1316932005603 phosphate acetyltransferase; Reviewed; Region: PRK05632 1316932005604 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 1316932005605 DRTGG domain; Region: DRTGG; pfam07085 1316932005606 phosphate acetyltransferase; Region: pta; TIGR00651 1316932005607 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 1316932005608 active site clefts [active] 1316932005609 zinc binding site [ion binding]; other site 1316932005610 dimer interface [polypeptide binding]; other site 1316932005611 acetolactate synthase 3 catalytic subunit; Validated; Region: PRK06882 1316932005612 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 1316932005613 PYR/PP interface [polypeptide binding]; other site 1316932005614 dimer interface [polypeptide binding]; other site 1316932005615 TPP binding site [chemical binding]; other site 1316932005616 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 1316932005617 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 1316932005618 TPP-binding site [chemical binding]; other site 1316932005619 dimer interface [polypeptide binding]; other site 1316932005620 acetolactate synthase 3 regulatory subunit; Reviewed; Region: ilvH; PRK11895 1316932005621 N-terminal ACT domain of the Escherichia coli IlvH-like regulatory subunit of acetohydroxyacid synthase (AHAS); Region: ACT_AHAS; cd04878 1316932005622 putative valine binding site [chemical binding]; other site 1316932005623 dimer interface [polypeptide binding]; other site 1316932005624 Small subunit of acetolactate synthase; Region: ALS_ss_C; pfam10369 1316932005625 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 1316932005626 EamA-like transporter family; Region: EamA; pfam00892 1316932005627 EamA-like transporter family; Region: EamA; pfam00892 1316932005628 Winged helix-turn helix; Region: HTH_29; pfam13551 1316932005629 Helix-turn-helix domain; Region: HTH_28; pfam13518 1316932005630 Homeodomain-like domain; Region: HTH_32; pfam13565 1316932005631 Integrase core domain; Region: rve; pfam00665 1316932005632 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 1316932005633 Integrase core domain; Region: rve_3; pfam13683 1316932005634 N-acetylglutamate synthase; Validated; Region: PRK05279 1316932005635 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 1316932005636 putative feedback inhibition sensing region; other site 1316932005637 putative nucleotide binding site [chemical binding]; other site 1316932005638 putative substrate binding site [chemical binding]; other site 1316932005639 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1316932005640 Coenzyme A binding pocket [chemical binding]; other site 1316932005641 Domain of unknown function (DUF1508); Region: DUF1508; pfam07411 1316932005642 proline aminopeptidase P II; Provisional; Region: PRK10879 1316932005643 Aminopeptidase P, N-terminal domain; Region: AMP_N; pfam05195 1316932005644 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 1316932005645 active site 1316932005646 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 1316932005647 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 1316932005648 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 1316932005649 active site 1316932005650 Protein of unknown function (DUF904); Region: DUF904; pfam06005 1316932005651 thymidine kinase; Provisional; Region: PRK04296 1316932005652 anaerobic sulfatase-maturating enzyme; Region: sulfatase_rSAM; TIGR03942 1316932005653 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 1316932005654 FeS/SAM binding site; other site 1316932005655 radical SAM additional 4Fe4S-binding SPASM domain; Region: rSAM_more_4Fe4S; TIGR04085 1316932005656 Sulfatase; Region: Sulfatase; cl17466 1316932005657 Arylsulfatase A and related enzymes [Inorganic ion transport and metabolism]; Region: AslA; COG3119 1316932005658 putative transporter; Provisional; Region: PRK10484 1316932005659 uncharacterized SLC5 subfamily, Escherichia coli YidK-like; solute binding domain; Region: SLC5sbd_YidK; cd10328 1316932005660 Na binding site [ion binding]; other site 1316932005661 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 1316932005662 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 1316932005663 ligand binding site [chemical binding]; other site 1316932005664 flexible hinge region; other site 1316932005665 Predicted permeases [General function prediction only]; Region: COG0730 1316932005666 tRNA threonylcarbamoyl adenosine modification protein YeaZ; Region: T6A_YeaZ; TIGR03725 1316932005667 Glycoprotease family; Region: Peptidase_M22; pfam00814 1316932005668 phospho-2-dehydro-3-deoxyheptonate aldolase; Validated; Region: PRK09261 1316932005669 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 1316932005670 Predicted metalloprotease [General function prediction only]; Region: COG2321 1316932005671 Putative neutral zinc metallopeptidase; Region: Zn_peptidase; pfam04228 1316932005672 DNA segregation ATPase FtsK/SpoIIIE and related proteins [Cell division and chromosome partitioning]; Region: FtsK; COG1674 1316932005673 Domain of unknown function (DUF4117); Region: DUF4117; pfam13491 1316932005674 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 1316932005675 This domain directs oriented DNA translocation and forms a winged helix structure; Region: Ftsk_gamma; smart00843 1316932005676 leucine-responsive transcriptional regulator; Provisional; Region: PRK11169 1316932005677 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 1316932005678 dimerization interface [polypeptide binding]; other site 1316932005679 putative DNA binding site [nucleotide binding]; other site 1316932005680 putative Zn2+ binding site [ion binding]; other site 1316932005681 AsnC family; Region: AsnC_trans_reg; pfam01037 1316932005682 ribonuclease D; Provisional; Region: PRK10829 1316932005683 DEDDy 3'-5' exonuclease domain of Ribonuclease D and similar proteins; Region: RNaseD_exo; cd06142 1316932005684 catalytic site [active] 1316932005685 putative active site [active] 1316932005686 putative substrate binding site [chemical binding]; other site 1316932005687 HRDC domain; Region: HRDC; pfam00570 1316932005688 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 1316932005689 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 1316932005690 dithiobiotin synthetase; Reviewed; Region: bioD; PRK00090 1316932005691 AAA domain; Region: AAA_26; pfam13500 1316932005692 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3036 1316932005693 Methyltransferase domain; Region: Methyltransf_31; pfam13847 1316932005694 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 1316932005695 S-adenosylmethionine binding site [chemical binding]; other site 1316932005696 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 1316932005697 Domain of unknown function DUF20; Region: UPF0118; pfam01594 1316932005698 conserved hypothetical protein, cofD-related; Region: CofD_related; TIGR01826 1316932005699 family of mostly uncharacterized proteins similar to B.subtilis YvcK; Region: YvcK_like; cd07187 1316932005700 putative substrate binding pocket [chemical binding]; other site 1316932005701 dimer interface [polypeptide binding]; other site 1316932005702 phosphate binding site [ion binding]; other site 1316932005703 DNA topoisomerase I subunit omega; Validated; Region: PRK07561 1316932005704 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 1316932005705 active site 1316932005706 interdomain interaction site; other site 1316932005707 putative metal-binding site [ion binding]; other site 1316932005708 nucleotide binding site [chemical binding]; other site 1316932005709 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 1316932005710 domain I; other site 1316932005711 DNA binding groove [nucleotide binding] 1316932005712 phosphate binding site [ion binding]; other site 1316932005713 domain II; other site 1316932005714 domain III; other site 1316932005715 nucleotide binding site [chemical binding]; other site 1316932005716 catalytic site [active] 1316932005717 domain IV; other site 1316932005718 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 1316932005719 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 1316932005720 Topoisomerase I zinc-ribbon-like; Region: Topo_Zn_Ribbon; pfam08272 1316932005721 Topoisomerase I zinc-ribbon-like; Region: Topo_Zn_Ribbon; pfam08272 1316932005722 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1316932005723 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1316932005724 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 1316932005725 putative effector binding pocket; other site 1316932005726 dimerization interface [polypeptide binding]; other site 1316932005727 Type I periplasmic ligand-binding domain of uncharacterized ABC-type transport systems that are predicted to be involved in the uptake of amino acids, peptides, or inorganic ions; Region: PBP1_ABC_uncharacterized_transporter; cd06325 1316932005728 zinc binding site [ion binding]; other site 1316932005729 putative ligand binding site [chemical binding]; other site 1316932005730 ClpXP protease specificity-enhancing factor; Provisional; Region: PRK11798 1316932005731 stringent starvation protein A; Provisional; Region: sspA; PRK09481 1316932005732 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 1316932005733 C-terminal domain interface [polypeptide binding]; other site 1316932005734 putative GSH binding site (G-site) [chemical binding]; other site 1316932005735 dimer interface [polypeptide binding]; other site 1316932005736 C-terminal, alpha helical domain of Stringent starvation protein A; Region: GST_C_SspA; cd03186 1316932005737 dimer interface [polypeptide binding]; other site 1316932005738 N-terminal domain interface [polypeptide binding]; other site 1316932005739 Phosphoribosylcarboxyaminoimidazole (NCAIR) mutase [Nucleotide transport and metabolism]; Region: PurE; COG0041 1316932005740 Type II (periplasmic) bacterial L-asparaginase; Region: L-asparaginase_II; cd08964 1316932005741 active site 1316932005742 homotetramer interface [polypeptide binding]; other site 1316932005743 homodimer interface [polypeptide binding]; other site 1316932005744 phosphoribosylaminoimidazole carboxylase ATPase subunit; Reviewed; Region: PRK06019 1316932005745 ATP-grasp domain; Region: ATP-grasp; pfam02222 1316932005746 excinuclease ABC subunit B; Provisional; Region: PRK05298 1316932005747 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 1316932005748 ATP binding site [chemical binding]; other site 1316932005749 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 1316932005750 nucleotide binding region [chemical binding]; other site 1316932005751 ATP-binding site [chemical binding]; other site 1316932005752 Ultra-violet resistance protein B; Region: UvrB; pfam12344 1316932005753 Uncharacterized protein family (UPF0156); Region: RHH_2; cl17383 1316932005754 Imelysin; Region: Peptidase_M75; pfam09375 1316932005755 Tat-translocated enzyme; Region: tat_substr_1; TIGR01412 1316932005756 Predicted iron-dependent peroxidase [Inorganic ion transport and metabolism]; Region: COG2837 1316932005757 Predicted metal-dependent phosphoesterases (PHP family) [General function prediction only]; Region: COG0613 1316932005758 Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase (HisPPase) AMP bound; Region: PHP_HisPPase_AMP; cd07438 1316932005759 active site 1316932005760 Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase (HisPPase) AMP bound; Region: PHP_HisPPase_AMP; cd07438 1316932005761 MUG-like Uracil-DNA glycosylase enzyme family; Region: UDG_MUG_like; cd10032 1316932005762 putative active site [active] 1316932005763 exonuclease I; Provisional; Region: sbcB; PRK11779 1316932005764 N-terminal DEDDh 3'-5' exonuclease domain of Escherichia coli exonuclease I and similar proteins; Region: ExoI_N; cd06138 1316932005765 active site 1316932005766 catalytic site [active] 1316932005767 substrate binding site [chemical binding]; other site 1316932005768 Exonuclease C-terminal; Region: Exonuc_X-T_C; pfam08411 1316932005769 asparaginyl-tRNA synthetase; Validated; Region: asnC; PRK03932 1316932005770 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 1316932005771 putative dimer interface [polypeptide binding]; other site 1316932005772 putative anticodon binding site; other site 1316932005773 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 1316932005774 homodimer interface [polypeptide binding]; other site 1316932005775 motif 1; other site 1316932005776 motif 2; other site 1316932005777 active site 1316932005778 motif 3; other site 1316932005779 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 1316932005780 FeS/SAM binding site; other site 1316932005781 Radical SAM superfamily; Region: Radical_SAM; pfam04055 1316932005782 elongation factor P; Validated; Region: PRK00529 1316932005783 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 1316932005784 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 1316932005785 RNA binding site [nucleotide binding]; other site 1316932005786 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 1316932005787 RNA binding site [nucleotide binding]; other site 1316932005788 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1316932005789 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1316932005790 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 1316932005791 putative effector binding pocket; other site 1316932005792 putative dimerization interface [polypeptide binding]; other site 1316932005793 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1316932005794 NADH(P)-binding; Region: NAD_binding_10; pfam13460 1316932005795 NAD(P) binding site [chemical binding]; other site 1316932005796 active site 1316932005797 SnoaL-like domain; Region: SnoaL_4; pfam13577 1316932005798 glutaminyl-tRNA synthetase; Provisional; Region: PRK05347 1316932005799 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 1316932005800 active site 1316932005801 HIGH motif; other site 1316932005802 nucleotide binding site [chemical binding]; other site 1316932005803 catalytic core domain of glutaminyl-tRNA synthetase; Region: GlnRS_core; cd00807 1316932005804 KMSKS motif; other site 1316932005805 tRNA synthetases class I (E and Q), anti-codon binding domain; Region: tRNA-synt_1c_C; pfam03950 1316932005806 Transcriptional regulators [Transcription]; Region: PurR; COG1609 1316932005807 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 1316932005808 DNA binding site [nucleotide binding] 1316932005809 domain linker motif; other site 1316932005810 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 1316932005811 glutamate dehydrogenase; Provisional; Region: PRK09414 1316932005812 Glu/Leu/Phe/Val dehydrogenase, dimerisation domain; Region: ELFV_dehydrog_N; pfam02812 1316932005813 NAD(P) binding domain of glutamate dehydrogenase, subgroup 2; Region: NAD_bind_2_Glu_DH; cd05313 1316932005814 NAD(P) binding site [chemical binding]; other site 1316932005815 Outer membrane lipoprotein OmlA (small protein A) [Cell envelope biogenesis, outer membrane]; Region: OlmA; COG2913 1316932005816 SmpA / OmlA family; Region: SmpA_OmlA; pfam04355 1316932005817 Nucleoid-associated protein [General function prediction only]; Region: COG3081 1316932005818 nucleoid-associated protein NdpA; Validated; Region: PRK00378 1316932005819 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 1316932005820 homotrimer interaction site [polypeptide binding]; other site 1316932005821 putative active site [active] 1316932005822 Multicopper polyphenol oxidase (laccase) [Secondary metabolites biosynthesis, transport and catabolism]; Region: yfiH; COG1496 1316932005823 Multi-copper polyphenol oxidoreductase laccase; Region: Cu-oxidase_4; cl00650 1316932005824 integrase; Provisional; Region: PRK09692 1316932005825 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 1316932005826 active site 1316932005827 Int/Topo IB signature motif; other site 1316932005828 Predicted transcriptional regulator [Transcription]; Region: AlpA; COG3311 1316932005829 Phage major capsid protein, P2 family; Region: Phage_cap_P2; cl04947 1316932005830 Prophage CP4-57 regulatory protein (AlpA); Region: Phage_AlpA; cl17523 1316932005831 Ash protein family; Region: Phage_ASH; pfam10554 1316932005832 Ash protein family; Region: Phage_ASH; pfam10554 1316932005833 silicon transporter; Region: sit; TIGR00811 1316932005834 Domain of unknown function (DUF927); Region: DUF927; cl12098 1316932005835 Domain of unknown function (DUF4102); Region: DUF4102; pfam13356 1316932005836 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 1316932005837 active site 1316932005838 Int/Topo IB signature motif; other site 1316932005839 putative addiction module killer protein; Region: upstrm_HI1419; TIGR02683 1316932005840 probable addiction module antidote protein; Region: dnstrm_HI1420; TIGR02684 1316932005841 Domain of unknown function (DUF4102); Region: DUF4102; pfam13356 1316932005842 Protein of unknown function (DUF4065); Region: DUF4065; pfam13274 1316932005843 Neuraminidase (sialidase) [Carbohydrate transport and metabolism]; Region: NanH; COG4409 1316932005844 Sialidases or neuraminidases function to bind and hydrolyze terminal sialic acid residues from various glycoconjugates as well as playing roles in pathogenesis, bacterial nutrition and cellular interactions. They have a six-bladed, beta-propeller fold...; Region: Sialidase; cd00260 1316932005845 catalytic site [active] 1316932005846 Asp-box motif; other site 1316932005847 Autotransporter beta-domain; Region: Autotransporter; cl17461 1316932005848 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1316932005849 active site 1316932005850 peptidase PmbA; Provisional; Region: PRK11040 1316932005851 hypothetical protein; Provisional; Region: PRK05255 1316932005852 Invasion gene expression up-regulator, SirB; Region: SirB; pfam04247 1316932005853 Protein of unknown function (DUF554); Region: DUF554; pfam04474 1316932005854 3-octaprenyl-4-hydroxybenzoate carboxy-lyase; Provisional; Region: PRK06029 1316932005855 Flavoprotein; Region: Flavoprotein; pfam02441 1316932005856 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3787; cl17897 1316932005857 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 1316932005858 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1316932005859 Domain of unknown function (DUF3327); Region: DUF3327; pfam11806 1316932005860 Predicted hydrolase of the alpha/beta superfamily [General function prediction only]; Region: COG2819 1316932005861 Winged helix-turn helix; Region: HTH_29; pfam13551 1316932005862 Helix-turn-helix domain; Region: HTH_28; pfam13518 1316932005863 Phage-related minor tail protein; Region: PhageMin_Tail; pfam10145 1316932005864 Predicted transcriptional regulator [Transcription]; Region: COG2932 1316932005865 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 1316932005866 Catalytic site [active] 1316932005867 SirA, YedF, and YeeD. Two-layered alpha/beta sandwich domain. SirA (also known as UvrY, and YhhP) belongs to a family of bacterial two-component response regulators that controls secondary metabolism and virulence. The other member of this...; Region: SirA_YedF_YeeD; cd00291 1316932005868 CPxP motif; other site 1316932005869 queuine tRNA-ribosyltransferase; Provisional; Region: tgt; PRK00112 1316932005870 tRNA-guanine family transglycosylase; Region: tgt_general; TIGR00449 1316932005871 Protein of unknown function (DUF1439); Region: DUF1439; pfam07273 1316932005872 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 1316932005873 DNA-binding site [nucleotide binding]; DNA binding site 1316932005874 RNA-binding motif; other site 1316932005875 EamA-like transporter family; Region: EamA; pfam00892 1316932005876 DNA-binding transcriptional regulator AraC; Provisional; Region: PRK10572 1316932005877 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 1316932005878 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1316932005879 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1316932005880 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 1316932005881 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 1316932005882 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 1316932005883 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 1316932005884 Walker A/P-loop; other site 1316932005885 ATP binding site [chemical binding]; other site 1316932005886 Q-loop/lid; other site 1316932005887 ABC transporter signature motif; other site 1316932005888 Walker B; other site 1316932005889 D-loop; other site 1316932005890 H-loop/switch region; other site 1316932005891 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 1316932005892 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 1316932005893 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1316932005894 TM-ABC transporter signature motif; other site 1316932005895 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1316932005896 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 1316932005897 TM-ABC transporter signature motif; other site 1316932005898 L-ribulokinase-like proteins; a subfamily of the FGGY family of carbohydrate kinases; Region: FGGY_L-RBK_like; cd07778 1316932005899 Sugar (pentulose and hexulose) kinases [Carbohydrate transport and metabolism]; Region: XylB; COG1070 1316932005900 putative N- and C-terminal domain interface [polypeptide binding]; other site 1316932005901 putative active site [active] 1316932005902 MgATP binding site [chemical binding]; other site 1316932005903 catalytic site [active] 1316932005904 metal binding site [ion binding]; metal-binding site 1316932005905 putative carbohydrate binding site [chemical binding]; other site 1316932005906 putative inner membrane protein; Provisional; Region: PRK11099 1316932005907 putative inner membrane protein; Provisional; Region: PRK11099 1316932005908 hypothetical protein; Provisional; Region: PRK11018 1316932005909 CPxP motif; other site 1316932005910 Dioxygenases related to 2-nitropropane dioxygenase [General function prediction only]; Region: COG2070 1316932005911 2-Nitropropane dioxygenase (NPD), one of the nitroalkane oxidizing enzyme families, catalyzes oxidative denitrification of nitroalkanes to their corresponding carbonyl compounds and nitrites. NDP is a member of the NAD(P)H-dependent flavin oxidoreductase...; Region: NPD_like; cd04730 1316932005912 FMN binding site [chemical binding]; other site 1316932005913 substrate binding site [chemical binding]; other site 1316932005914 putative catalytic residue [active] 1316932005915 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1316932005916 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1316932005917 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 1316932005918 dimerization interface [polypeptide binding]; other site 1316932005919 transcriptional regulator NrdR; Region: TIGR00244 1316932005920 ATP cone domain; Region: ATP-cone; pfam03477 1316932005921 YcgL domain; Region: YcgL; pfam05166 1316932005922 replicative DNA helicase; Validated; Region: PRK06904 1316932005923 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 1316932005924 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 1316932005925 Walker A motif; other site 1316932005926 ATP binding site [chemical binding]; other site 1316932005927 Walker B motif; other site 1316932005928 DNA binding loops [nucleotide binding] 1316932005929 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 1316932005930 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 1316932005931 putative ligand binding residues [chemical binding]; other site 1316932005932 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 1316932005933 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 1316932005934 ABC-ATPase subunit interface; other site 1316932005935 dimer interface [polypeptide binding]; other site 1316932005936 putative PBP binding regions; other site 1316932005937 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 1316932005938 dimer interface [polypeptide binding]; other site 1316932005939 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 1316932005940 ABC-type enterochelin transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CeuD; COG4604 1316932005941 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 1316932005942 Walker A/P-loop; other site 1316932005943 ATP binding site [chemical binding]; other site 1316932005944 Q-loop/lid; other site 1316932005945 ABC transporter signature motif; other site 1316932005946 Walker B; other site 1316932005947 D-loop; other site 1316932005948 H-loop/switch region; other site 1316932005949 PII uridylyl-transferase; Provisional; Region: glnD; PRK01759 1316932005950 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 1316932005951 metal binding triad; other site 1316932005952 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 1316932005953 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 1316932005954 Zn2+ binding site [ion binding]; other site 1316932005955 Mg2+ binding site [ion binding]; other site 1316932005956 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 1316932005957 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 1316932005958 putative calcium/sodium:proton antiporter; Provisional; Region: PRK10734 1316932005959 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 1316932005960 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 1316932005961 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 1316932005962 homodimer interface [polypeptide binding]; other site 1316932005963 substrate-cofactor binding pocket; other site 1316932005964 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1316932005965 catalytic residue [active] 1316932005966 Protein of unknown function DUF47; Region: PhoU_div; pfam01865 1316932005967 Phosphate/sulphate permeases [Inorganic ion transport and metabolism]; Region: PitA; COG0306 1316932005968 Phosphate/sulphate permeases [Inorganic ion transport and metabolism]; Region: PitA; COG0306 1316932005969 SH3 domain protein [Signal transduction mechanisms]; Region: COG3103 1316932005970 Bacterial SH3 domain homologues; Region: SH3b; smart00287 1316932005971 3-phosphoshikimate 1-carboxyvinyltransferase; Provisional; Region: PRK02427 1316932005972 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 1316932005973 hinge; other site 1316932005974 active site 1316932005975 histidinol-phosphate aminotransferase; Validated; Region: PRK02731 1316932005976 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 1316932005977 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1316932005978 homodimer interface [polypeptide binding]; other site 1316932005979 catalytic residue [active] 1316932005980 xanthine permease; Region: pbuX; TIGR03173 1316932005981 ATP-dependent metalloprotease; Reviewed; Region: hflB; PRK10733 1316932005982 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 1316932005983 Walker A motif; other site 1316932005984 ATP binding site [chemical binding]; other site 1316932005985 Walker B motif; other site 1316932005986 arginine finger; other site 1316932005987 Peptidase family M41; Region: Peptidase_M41; pfam01434 1316932005988 23S rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: FtsJ; COG0293 1316932005989 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 1316932005990 S-adenosylmethionine binding site [chemical binding]; other site 1316932005991 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3676 1316932005992 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3676 1316932005993 bifunctional N-acetylglucosamine-1-phosphate uridyltransferase/glucosamine-1-phosphate acetyltransferase; Provisional; Region: glmU; PRK09451 1316932005994 N-terminal domain of bacterial GlmU; Region: GT2_GlmU_N_bac; cd02540 1316932005995 Substrate binding site; other site 1316932005996 Mg++ binding site; other site 1316932005997 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 1316932005998 active site 1316932005999 substrate binding site [chemical binding]; other site 1316932006000 CoA binding site [chemical binding]; other site 1316932006001 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 1316932006002 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 1316932006003 trimer interface [polypeptide binding]; other site 1316932006004 eyelet of channel; other site 1316932006005 Primosomal replication protein priB and priC; Region: priB_priC; cl11483 1316932006006 dihydrolipoamide dehydrogenase; Reviewed; Region: PRK06467 1316932006007 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 1316932006008 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1316932006009 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 1316932006010 pyruvate dehydrogenase dihydrolipoyltransacetylase; Validated; Region: aceF; PRK11854 1316932006011 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 1316932006012 E3 interaction surface; other site 1316932006013 lipoyl attachment site [posttranslational modification]; other site 1316932006014 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 1316932006015 E3 interaction surface; other site 1316932006016 lipoyl attachment site [posttranslational modification]; other site 1316932006017 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 1316932006018 E3 interaction surface; other site 1316932006019 lipoyl attachment site [posttranslational modification]; other site 1316932006020 e3 binding domain; Region: E3_binding; pfam02817 1316932006021 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 1316932006022 pyruvate dehydrogenase subunit E1; Reviewed; Region: aceE; PRK09405 1316932006023 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 1316932006024 dimer interface [polypeptide binding]; other site 1316932006025 TPP-binding site [chemical binding]; other site 1316932006026 dihydroorotate dehydrogenase 2; Reviewed; Region: PRK05286 1316932006027 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 1316932006028 quinone interaction residues [chemical binding]; other site 1316932006029 active site 1316932006030 catalytic residues [active] 1316932006031 FMN binding site [chemical binding]; other site 1316932006032 substrate binding site [chemical binding]; other site 1316932006033 ribose-phosphate pyrophosphokinase; Provisional; Region: PRK01259 1316932006034 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 1316932006035 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1316932006036 active site 1316932006037 4-diphosphocytidyl-2-C-methyl-D-erythritol kinase; Provisional; Region: ipk; PRK00343 1316932006038 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 1316932006039 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 1316932006040 outer membrane lipoprotein LolB; Provisional; Region: lolB; PRK00022 1316932006041 Outer membrane lipoprotein LolB; Region: LolB; pfam03550 1316932006042 lipid transporter ATP-binding/permease protein; Provisional; Region: PRK11176 1316932006043 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 1316932006044 ATP-binding cassette domain of the bacterial lipid flippase and related proteins, subfamily C; Region: ABCC_MsbA; cd03251 1316932006045 Walker A/P-loop; other site 1316932006046 ATP binding site [chemical binding]; other site 1316932006047 Q-loop/lid; other site 1316932006048 ABC transporter signature motif; other site 1316932006049 Walker B; other site 1316932006050 D-loop; other site 1316932006051 H-loop/switch region; other site 1316932006052 Putative effector of murein hydrolase [Cell envelope biogenesis, outer membrane]; Region: LrgB; COG1346 1316932006053 LrgA family; Region: LrgA; cl00608 1316932006054 Rad3-related DNA helicases [Transcription / DNA replication, recombination, and repair]; Region: DinG; COG1199 1316932006055 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 1316932006056 Helicase C-terminal domain; Region: Helicase_C_2; pfam13307 1316932006057 ABC-type uncharacterized transport system, ATPase component [General function prediction only]; Region: PhnK; COG1101 1316932006058 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1316932006059 Walker A/P-loop; other site 1316932006060 ATP binding site [chemical binding]; other site 1316932006061 Q-loop/lid; other site 1316932006062 ABC transporter signature motif; other site 1316932006063 Walker B; other site 1316932006064 D-loop; other site 1316932006065 H-loop/switch region; other site 1316932006066 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1316932006067 Transmembrane subunit (TM) of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which are involved in the uptake of branched-chain amino acids (AAs), as well as TMs of transporters involved in the uptake of...; Region: TM_PBP1_branched-chain-AA_like; cd06574 1316932006068 TM-ABC transporter signature motif; other site 1316932006069 putative transporter; Provisional; Region: PRK11660 1316932006070 Sulfate transporter N-terminal domain with GLY motif; Region: Sulfate_tra_GLY; pfam13792 1316932006071 Sulfate transporter family; Region: Sulfate_transp; pfam00916 1316932006072 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 1316932006073 excinuclease ABC subunit A; Reviewed; Region: uvrA; PRK00349 1316932006074 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 1316932006075 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 1316932006076 ATP-binding cassette domain II of the excision repair protein UvrA; Region: ABC_UvrA_II; cd03271 1316932006077 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 1316932006078 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 1316932006079 dimer interface [polypeptide binding]; other site 1316932006080 ssDNA binding site [nucleotide binding]; other site 1316932006081 tetramer (dimer of dimers) interface [polypeptide binding]; other site 1316932006082 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cl17402 1316932006083 DNA binding site [nucleotide binding] 1316932006084 HipA-like N-terminal domain; Region: HipA_N; pfam07805 1316932006085 HipA-like C-terminal domain; Region: HipA_C; pfam07804 1316932006086 Winged helix-turn helix; Region: HTH_29; pfam13551 1316932006087 Helix-turn-helix domain; Region: HTH_28; pfam13518 1316932006088 Homeodomain-like domain; Region: HTH_32; pfam13565 1316932006089 Integrase core domain; Region: rve; pfam00665 1316932006090 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 1316932006091 Integrase core domain; Region: rve_3; pfam13683 1316932006092 D-lactate dehydrogenase; Provisional; Region: PRK11183 1316932006093 FAD binding domain; Region: FAD_binding_4; pfam01565 1316932006094 D-lactate dehydrogenase, membrane binding; Region: Lact-deh-memb; pfam09330 1316932006095 Winged helix-turn helix; Region: HTH_29; pfam13551 1316932006096 Helix-turn-helix domain; Region: HTH_28; pfam13518 1316932006097 Integrase core domain; Region: rve; pfam00665 1316932006098 Integrase core domain; Region: rve_3; pfam13683 1316932006099 Protein of unknown function (DUF3800); Region: DUF3800; pfam12686 1316932006100 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 1316932006101 active site 1316932006102 catalytic residues [active] 1316932006103 DNA binding site [nucleotide binding] 1316932006104 Int/Topo IB signature motif; other site 1316932006105 integrating conjugative element relaxase, PFL_4751 family; Region: ICE_TraI_Pfluor; TIGR03760 1316932006106 Putative helicase; Region: TraI_2; pfam07514 1316932006107 Protein of unknown function (DUF1528); Region: DUF1528; pfam07515 1316932006108 Antirestriction protein [DNA replication, recombination, and repair]; Region: COG4227 1316932006109 Domain of unknown function (DUF1738); Region: DUF1738; pfam08401 1316932006110 Protein of unknown function (DUF1525); Region: DUF1525; pfam07511 1316932006111 integrating conjugative element protein, PFL_4710 family; Region: conj_TIGR03756 1316932006112 integrating conjugative element protein, PFL_4711 family; Region: conj_TIGR03755 1316932006113 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 1316932006114 catalytic residue [active] 1316932006115 Protein of unknown function (DUF1778); Region: DUF1778; pfam08681 1316932006116 TraG-like protein, N-terminal region; Region: TraG_N; pfam07916 1316932006117 conjugative transfer ATPase, PFL_4706 family; Region: traC_PFL_4706; TIGR03744 1316932006118 F pilus assembly Type-IV secretion system for plasmid transfer; Region: TraC_F_IV; pfam11130 1316932006119 conjugative transfer region lipoprotein, TIGR03751 family; Region: conj_TIGR03751 1316932006120 integrating conjugative element protein, PFL_4705 family; Region: conj_TIGR03752 1316932006121 Acyl-coenzyme A:6-aminopenicillanic acid acyl-transferase; Region: AAT; pfam03417 1316932006122 Aminoglycoside 3'-phosphotransferase (APH). The APH subfamily is part of a larger superfamily that includes the catalytic domains of other kinases, such as the typical serine/threonine/tyrosine protein kinases (PKs), RIO kinases, actin-fragmin...; Region: APH; cd05150 1316932006123 Phosphotransferase enzyme family; Region: APH; pfam01636 1316932006124 active site 1316932006125 ATP binding site [chemical binding]; other site 1316932006126 antibiotic binding site [chemical binding]; other site 1316932006127 Aminoglycoside/hydroxyurea antibiotic resistance kinase; Region: APH_6_hur; pfam04655 1316932006128 Aminoglycoside 3'-phosphotransferase (APH). The APH subfamily is part of a larger superfamily that includes the catalytic domains of other kinases, such as the typical serine/threonine/tyrosine protein kinases (PKs), RIO kinases, actin-fragmin...; Region: APH; cd05150 1316932006129 Phosphotransferase enzyme family; Region: APH; pfam01636 1316932006130 active site 1316932006131 ATP binding site [chemical binding]; other site 1316932006132 antibiotic binding site [chemical binding]; other site 1316932006133 dihydropteroate synthase; Region: DHPS; TIGR01496 1316932006134 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 1316932006135 substrate binding pocket [chemical binding]; other site 1316932006136 dimer interface [polypeptide binding]; other site 1316932006137 inhibitor binding site; inhibition site 1316932006138 Helix-turn-helix domain; Region: HTH_38; pfam13936 1316932006139 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 1316932006140 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 1316932006141 Integrase core domain; Region: rve; pfam00665 1316932006142 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 1316932006143 Helix-turn-helix domain; Region: HTH_38; pfam13936 1316932006144 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 1316932006145 active site 1316932006146 catalytic residues [active] 1316932006147 DNA binding site [nucleotide binding] 1316932006148 Int/Topo IB signature motif; other site 1316932006149 integrating conjugative element relaxase, PFL_4751 family; Region: ICE_TraI_Pfluor; TIGR03760 1316932006150 Putative helicase; Region: TraI_2; pfam07514 1316932006151 Protein of unknown function (DUF1528); Region: DUF1528; pfam07515 1316932006152 Type I restriction-modification system methyltransferase subunit [Defense mechanisms]; Region: HsdM; COG0286 1316932006153 Antirestriction protein [DNA replication, recombination, and repair]; Region: COG4227 1316932006154 Domain of unknown function (DUF1738); Region: DUF1738; pfam08401 1316932006155 Protein of unknown function (DUF1525); Region: DUF1525; pfam07511 1316932006156 integrating conjugative element protein, PFL_4710 family; Region: conj_TIGR03756 1316932006157 integrating conjugative element protein, PFL_4711 family; Region: conj_TIGR03755 1316932006158 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 1316932006159 catalytic residue [active] 1316932006160 TraG-like protein, N-terminal region; Region: TraG_N; pfam07916 1316932006161 conjugative transfer ATPase, PFL_4706 family; Region: traC_PFL_4706; TIGR03744 1316932006162 F pilus assembly Type-IV secretion system for plasmid transfer; Region: TraC_F_IV; pfam11130 1316932006163 conjugative transfer region lipoprotein, TIGR03751 family; Region: conj_TIGR03751 1316932006164 integrating conjugative element protein, PFL_4705 family; Region: conj_TIGR03752 1316932006165 Protein of unknown function (DUF3438); Region: DUF3438; pfam11920 1316932006166 Protein of unknown function (DUF2895); Region: DUF2895; pfam11444 1316932006167 Protein of unknown function (DUF3487); Region: DUF3487; pfam11990 1316932006168 Protein of unknown function (DUF2976); Region: DUF2976; pfam11190 1316932006169 Protein of unknown function (DUF3262); Region: DUF3262; pfam11660 1316932006170 integrative conjugative element protein, RAQPRD family; Region: ICE_RAQPRD; TIGR01690 1316932006171 Plasmid protein of unknown function (Plasmid_RAQPRD); Region: Plasmid_RAQPRD; pfam09686 1316932006172 integrating conjugative element membrane protein, PFL_4697 family; Region: conj_TIGR03747 1316932006173 conjugative coupling factor TraD, TOL family; Region: conj_TOL_TraD; TIGR03754 1316932006174 conjugative coupling factor TraD, SXT/TOL subfamily; Region: SXT_TraD; TIGR03743 1316932006175 Protein of unknown function (DUF2859); Region: DUF2859; pfam11072 1316932006176 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 1316932006177 catalytic residue [active] 1316932006178 integrating conjugative element protein, PFL_4693 family; Region: conj_TIGR03759 1316932006179 conjugative transfer region protein, TIGR03748 family; Region: conj_PilL 1316932006180 Protein of unknown function (DUF3577); Region: DUF3577; pfam12101 1316932006181 DNA topoisomerase III; Provisional; Region: PRK07726 1316932006182 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 1316932006183 active site 1316932006184 putative interdomain interaction site [polypeptide binding]; other site 1316932006185 putative metal-binding site [ion binding]; other site 1316932006186 putative nucleotide binding site [chemical binding]; other site 1316932006187 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 1316932006188 domain I; other site 1316932006189 DNA binding groove [nucleotide binding] 1316932006190 phosphate binding site [ion binding]; other site 1316932006191 domain II; other site 1316932006192 domain III; other site 1316932006193 nucleotide binding site [chemical binding]; other site 1316932006194 catalytic site [active] 1316932006195 domain IV; other site 1316932006196 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 1316932006197 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 1316932006198 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 1316932006199 active site 1316932006200 Predicted metal-binding protein [General function prediction only]; Region: COG3019 1316932006201 Putative multicopper oxidases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: SufI; COG2132 1316932006202 Multicopper oxidase; Region: Cu-oxidase_3; pfam07732 1316932006203 Multicopper oxidase; Region: Cu-oxidase_2; pfam07731 1316932006204 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 1316932006205 NADH kinase; Region: PLN02929 1316932006206 tetracycline repressor protein TetR; Provisional; Region: PRK13756 1316932006207 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1316932006208 Tetracyclin repressor, C-terminal all-alpha domain; Region: TetR_C; pfam02909 1316932006209 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 1316932006210 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1316932006211 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 1316932006212 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 1316932006213 Transposase; Region: DDE_Tnp_ISL3; pfam01610 1316932006214 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 1316932006215 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 1316932006216 dimer interface [polypeptide binding]; other site 1316932006217 ssDNA binding site [nucleotide binding]; other site 1316932006218 tetramer (dimer of dimers) interface [polypeptide binding]; other site 1316932006219 Protein of unknown function (DUF3158); Region: DUF3158; pfam11358 1316932006220 Domain of unknown function (DUF1845); Region: DUF1845; pfam08900 1316932006221 Protein of unknown function (DUF2857); Region: DUF2857; pfam11198 1316932006222 integrating conjugative element, PFGI_1 class, ParB family protein; Region: ICE_PFGI_1_parB; TIGR03764 1316932006223 ParB-like nuclease domain; Region: ParBc; pfam02195 1316932006224 replicative DNA helicase; Region: DnaB; TIGR00665 1316932006225 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 1316932006226 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 1316932006227 Walker A motif; other site 1316932006228 ATP binding site [chemical binding]; other site 1316932006229 Walker B motif; other site 1316932006230 DNA binding loops [nucleotide binding] 1316932006231 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 1316932006232 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 1316932006233 P-loop; other site 1316932006234 Magnesium ion binding site [ion binding]; other site 1316932006235 exodeoxyribonuclease VII large subunit; Reviewed; Region: xseA; PRK00286 1316932006236 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 1316932006237 generic binding surface II; other site 1316932006238 generic binding surface I; other site 1316932006239 murein transglycosylase A; Provisional; Region: mltA; PRK11162 1316932006240 MltA specific insert domain; Region: MltA; smart00925 1316932006241 3D domain; Region: 3D; pfam06725 1316932006242 amidophosphoribosyltransferase; Provisional; Region: PRK09246 1316932006243 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 1316932006244 active site 1316932006245 tetramer interface [polypeptide binding]; other site 1316932006246 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1316932006247 active site 1316932006248 Uncharacterized membrane protein, required for colicin V production [General function prediction only]; Region: CvpA; COG1286 1316932006249 Colicin V production protein; Region: Colicin_V; cl00567 1316932006250 RNase HI family found mainly in prokaryotes; Region: RNase_HI_prokaryote_like; cd09278 1316932006251 RNA/DNA hybrid binding site [nucleotide binding]; other site 1316932006252 active site 1316932006253 argininosuccinate synthase; Validated; Region: PRK05370 1316932006254 argininosuccinate synthase; Provisional; Region: PRK13820 1316932006255 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 1316932006256 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 1316932006257 putative active site [active] 1316932006258 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 1316932006259 UDP-glucose LOS-beta-1,4 glucosyltransferase is required for biosynthesis of lipooligosaccharide; Region: Beta4Glucosyltransferase; cd02511 1316932006260 putative metal binding site; other site 1316932006261 Predicted RNA-binding protein containing KH domain, possibly ribosomal protein [Translation, ribosomal structure and biogenesis]; Region: COG1534 1316932006262 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 1316932006263 active site 1316932006264 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 1316932006265 fructokinase; Reviewed; Region: PRK09557 1316932006266 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 1316932006267 nucleotide binding site [chemical binding]; other site 1316932006268 Phosphoglycerol transferase and related proteins, alkaline phosphatase superfamily [Cell envelope biogenesis, outer membrane]; Region: MdoB; COG1368 1316932006269 Sulfatase; Region: Sulfatase; pfam00884 1316932006270 Uncharacterized Fe-S protein [General function prediction only]; Region: COG3217 1316932006271 MOSC N-terminal beta barrel domain; Region: MOSC_N; pfam03476 1316932006272 MOSC domain; Region: MOSC; pfam03473 1316932006273 exodeoxyribonuclease VII small subunit; Provisional; Region: PRK00977 1316932006274 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 1316932006275 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 1316932006276 substrate binding pocket [chemical binding]; other site 1316932006277 chain length determination region; other site 1316932006278 substrate-Mg2+ binding site; other site 1316932006279 catalytic residues [active] 1316932006280 aspartate-rich region 1; other site 1316932006281 active site lid residues [active] 1316932006282 aspartate-rich region 2; other site 1316932006283 Predicted glutamine amidotransferase [General function prediction only]; Region: COG0121 1316932006284 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 1316932006285 putative active site [active] 1316932006286 putative dimer interface [polypeptide binding]; other site 1316932006287 ABC-type Mn2+/Zn2+ transport systems, permease components [Inorganic ion transport and metabolism]; Region: ZnuB; COG1108 1316932006288 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 1316932006289 ABC-ATPase subunit interface; other site 1316932006290 dimer interface [polypeptide binding]; other site 1316932006291 putative PBP binding regions; other site 1316932006292 recombination factor protein RarA; Reviewed; Region: PRK13342 1316932006293 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 1316932006294 Walker A motif; other site 1316932006295 ATP binding site [chemical binding]; other site 1316932006296 Walker B motif; other site 1316932006297 arginine finger; other site 1316932006298 MgsA AAA+ ATPase C terminal; Region: MgsA_C; pfam12002 1316932006299 rod shape-determining protein MreD; Region: MreD; cl01087 1316932006300 rod shape-determining protein MreC; Provisional; Region: PRK13922 1316932006301 rod shape-determining protein MreC; Region: MreC; pfam04085 1316932006302 rod shape-determining protein MreB; Provisional; Region: PRK13927 1316932006303 MreB and similar proteins; Region: MreB_like; cd10225 1316932006304 nucleotide binding site [chemical binding]; other site 1316932006305 Mg binding site [ion binding]; other site 1316932006306 putative protofilament interaction site [polypeptide binding]; other site 1316932006307 RodZ interaction site [polypeptide binding]; other site 1316932006308 Lysine efflux permease [General function prediction only]; Region: COG1279 1316932006309 Uridine kinase [Nucleotide transport and metabolism]; Region: Udk; COG0572 1316932006310 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 1316932006311 Sugar specificity; other site 1316932006312 Pyrimidine base specificity; other site 1316932006313 ATP-binding site [chemical binding]; other site 1316932006314 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 1316932006315 trimer interface [polypeptide binding]; other site 1316932006316 active site 1316932006317 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 1316932006318 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 1316932006319 DNA-binding transcriptional repressor PurR; Provisional; Region: PRK10703 1316932006320 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 1316932006321 DNA binding site [nucleotide binding] 1316932006322 domain linker motif; other site 1316932006323 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 1316932006324 dimerization interface [polypeptide binding]; other site 1316932006325 ligand binding site [chemical binding]; other site 1316932006326 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 1316932006327 S-adenosylmethionine binding site [chemical binding]; other site 1316932006328 acyl-CoA esterase; Provisional; Region: PRK10673 1316932006329 PGAP1-like protein; Region: PGAP1; pfam07819 1316932006330 SeqA protein; Region: SeqA; pfam03925 1316932006331 O-succinylbenzoic acid--CoA ligase; Provisional; Region: PRK09029 1316932006332 O-succinylbenzoate-CoA ligase (also known as O-succinylbenzoate-CoA synthase, OSB-CoA synthetase, or MenE); Region: OSB_CoA_lg; cd05912 1316932006333 acyl-activating enzyme (AAE) consensus motif; other site 1316932006334 putative AMP binding site [chemical binding]; other site 1316932006335 putative active site [active] 1316932006336 putative CoA binding site [chemical binding]; other site 1316932006337 hypothetical protein; Provisional; Region: PRK11281 1316932006338 Mechanosensitive ion channel inner membrane domain 1; Region: MscS_TM; pfam12794 1316932006339 Mechanosensitive ion channel; Region: MS_channel; pfam00924 1316932006340 Chorismate synthase [Amino acid transport and metabolism]; Region: AroC; COG0082 1316932006341 Chorismase synthase, the enzyme catalyzing the final step of the shikimate pathway; Region: Chorismate_synthase; cd07304 1316932006342 Tetramer interface [polypeptide binding]; other site 1316932006343 active site 1316932006344 FMN-binding site [chemical binding]; other site 1316932006345 Murein endopeptidase [Cell envelope biogenesis, outer membrane]; Region: MepA; COG3770 1316932006346 penicillin-insensitive murein endopeptidase; Reviewed; Region: mepA; PRK09429 1316932006347 DNA topoisomerase III; Provisional; Region: PRK07726 1316932006348 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 1316932006349 active site 1316932006350 putative interdomain interaction site [polypeptide binding]; other site 1316932006351 putative metal-binding site [ion binding]; other site 1316932006352 putative nucleotide binding site [chemical binding]; other site 1316932006353 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 1316932006354 domain I; other site 1316932006355 DNA binding groove [nucleotide binding] 1316932006356 phosphate binding site [ion binding]; other site 1316932006357 domain II; other site 1316932006358 domain III; other site 1316932006359 nucleotide binding site [chemical binding]; other site 1316932006360 catalytic site [active] 1316932006361 domain IV; other site 1316932006362 Preprotein translocase subunit SecG [Intracellular trafficking and secretion]; Region: SecG; COG1314 1316932006363 integrase; Provisional; Region: PRK09692 1316932006364 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 1316932006365 active site 1316932006366 Int/Topo IB signature motif; other site 1316932006367 Predicted phage phi-C31 gp36 major capsid-like protein [General function prediction only]; Region: COG4653 1316932006368 Phage capsid family; Region: Phage_capsid; pfam05065 1316932006369 phage/plasmid primase, P4 family, C-terminal domain; Region: primase_Cterm; TIGR01613 1316932006370 Poxvirus D5 protein-like; Region: Pox_D5; pfam03288 1316932006371 Phage minor tail protein U; Region: Phage_tail_U; pfam06141 1316932006372 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG0675 1316932006373 Helix-turn-helix domain; Region: HTH_OrfB_IS605; pfam12323 1316932006374 Probable transposase; Region: OrfB_IS605; pfam01385 1316932006375 transposase, IS605 OrfB family, central region; Region: tspaseT_teng_C; TIGR01766 1316932006376 Transposase IS200 like; Region: Y1_Tnp; pfam01797 1316932006377 SIR2 superfamily of proteins includes silent information regulator 2 (Sir2) enzymes which catalyze NAD+-dependent protein/histone deacetylation, where the acetyl group from the lysine epsilon-amino group is transferred to the ADP-ribose moiety of NAD+; Region: SIR2; cl00195 1316932006378 CRISPR/Cas system-associated protein Cas3'' Region: Cas3''_I; cd09641 1316932006379 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 1316932006380 CRISPR-associated helicase Cas3; Region: cas3_core; TIGR01587 1316932006381 uncharacterized domain; Region: TIGR00702 1316932006382 YcaO-like family; Region: YcaO; pfam02624 1316932006383 Methyltransferase domain; Region: Methyltransf_23; pfam13489 1316932006384 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 1316932006385 S-adenosylmethionine binding site [chemical binding]; other site 1316932006386 DNA gyrase subunit B; Provisional; Region: gyrB; PRK14939 1316932006387 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 1316932006388 Mg2+ binding site [ion binding]; other site 1316932006389 G-X-G motif; other site 1316932006390 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 1316932006391 anchoring element; other site 1316932006392 dimer interface [polypeptide binding]; other site 1316932006393 ATP binding site [chemical binding]; other site 1316932006394 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 1316932006395 active site 1316932006396 putative metal-binding site [ion binding]; other site 1316932006397 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 1316932006398 Restriction endonuclease [Defense mechanisms]; Region: COG3587 1316932006399 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 1316932006400 ATP binding site [chemical binding]; other site 1316932006401 putative Mg++ binding site [ion binding]; other site 1316932006402 Adenine specific DNA methylase Mod [DNA replication, recombination, and repair]; Region: COG2189 1316932006403 DNA methylase; Region: N6_N4_Mtase; pfam01555 1316932006404 4-hydroxybenzoate octaprenyltransferase; Reviewed; Region: ubiA; PRK12848 1316932006405 UbiA prenyltransferase family; Region: UbiA; pfam01040 1316932006406 DNA-binding transcriptional repressor GlpR; Provisional; Region: PRK10906 1316932006407 DeoR-like helix-turn-helix domain; Region: HTH_DeoR; pfam08220 1316932006408 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 1316932006409 adenylosuccinate lyase; Provisional; Region: PRK09285 1316932006410 PurB_like adenylosuccinases (adenylsuccinate lyase, ASL); Region: PurB; cd01598 1316932006411 tetramer interface [polypeptide binding]; other site 1316932006412 active site 1316932006413 putative lysogenization regulator; Reviewed; Region: PRK00218 1316932006414 cysteine/glutathione ABC transporter membrane/ATP-binding component; Reviewed; Region: PRK11160 1316932006415 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 1316932006416 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1316932006417 Walker A/P-loop; other site 1316932006418 ATP binding site [chemical binding]; other site 1316932006419 Q-loop/lid; other site 1316932006420 ABC transporter signature motif; other site 1316932006421 Walker B; other site 1316932006422 D-loop; other site 1316932006423 H-loop/switch region; other site 1316932006424 cysteine/glutathione ABC transporter membrane/ATP-binding component; Reviewed; Region: PRK11174 1316932006425 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 1316932006426 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1316932006427 Walker A/P-loop; other site 1316932006428 ATP binding site [chemical binding]; other site 1316932006429 Q-loop/lid; other site 1316932006430 ABC transporter signature motif; other site 1316932006431 Walker B; other site 1316932006432 D-loop; other site 1316932006433 H-loop/switch region; other site 1316932006434 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2911 1316932006435 Family of unknown function (DUF490); Region: DUF490; pfam04357 1316932006436 Outer membrane protein [Cell envelope biogenesis, outer membrane]; Region: COG0729 1316932006437 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 1316932006438 Surface antigen; Region: Bac_surface_Ag; pfam01103 1316932006439 Putative catalytic domain of family 2 polysaccharide deacetylases (DACs) from bacteria; Region: CE4_DAC2; cd10936 1316932006440 NodB motif; other site 1316932006441 putative active site [active] 1316932006442 putative catalytic site [active] 1316932006443 Zn binding site [ion binding]; other site 1316932006444 AmiB activator; Provisional; Region: PRK11637 1316932006445 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; cl00240 1316932006446 Peptidase family M23; Region: Peptidase_M23; pfam01551 1316932006447 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 1316932006448 catalytic core [active] 1316932006449 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 1316932006450 ribosome recycling factor; Reviewed; Region: frr; PRK00083 1316932006451 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 1316932006452 hinge region; other site 1316932006453 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 1316932006454 putative nucleotide binding site [chemical binding]; other site 1316932006455 uridine monophosphate binding site [chemical binding]; other site 1316932006456 homohexameric interface [polypeptide binding]; other site 1316932006457 Predicted membrane-associated, metal-dependent hydrolase [General function prediction only]; Region: COG2194 1316932006458 Sulfatase; Region: Sulfatase; cl17466 1316932006459 elongation factor Ts; Provisional; Region: tsf; PRK09377 1316932006460 UBA/TS-N domain; Region: UBA; pfam00627 1316932006461 Elongation factor TS; Region: EF_TS; pfam00889 1316932006462 Elongation factor TS; Region: EF_TS; pfam00889 1316932006463 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 1316932006464 rRNA interaction site [nucleotide binding]; other site 1316932006465 S8 interaction site; other site 1316932006466 putative laminin-1 binding site; other site 1316932006467 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 1316932006468 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 1316932006469 ABC-type Fe3+ transport system, permease component [Inorganic ion transport and metabolism]; Region: ThiP; COG1178 1316932006470 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 1316932006471 dimer interface [polypeptide binding]; other site 1316932006472 conserved gate region; other site 1316932006473 putative PBP binding loops; other site 1316932006474 ABC-ATPase subunit interface; other site 1316932006475 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 1316932006476 dimer interface [polypeptide binding]; other site 1316932006477 conserved gate region; other site 1316932006478 putative PBP binding loops; other site 1316932006479 ABC-ATPase subunit interface; other site 1316932006480 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 1316932006481 ATP-binding cassette domain of the carbohydrate and solute transporters-like; Region: ABC_Carb_Solutes_like; cd03259 1316932006482 Walker A/P-loop; other site 1316932006483 ATP binding site [chemical binding]; other site 1316932006484 Q-loop/lid; other site 1316932006485 ABC transporter signature motif; other site 1316932006486 Walker B; other site 1316932006487 D-loop; other site 1316932006488 H-loop/switch region; other site 1316932006489 Predicted dithiol-disulfide isomerase involved in polyketide biosynthesis [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FrnE; COG2761 1316932006490 DsbA family, FrnE subfamily; FrnE is a DsbA-like protein containing a CXXC motif. It is presumed to be a thiol oxidoreductase involved in polyketide biosynthesis, specifically in the production of the aromatic antibiotics frenolicin and nanaomycins; Region: DsbA_FrnE; cd03024 1316932006491 catalytic residues [active] 1316932006492 Bacterial protein of unknown function (DUF853); Region: DUF853; pfam05872 1316932006493 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 1316932006494 ATP-dependent RNA helicase RhlB; Provisional; Region: PRK04837 1316932006495 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 1316932006496 ATP binding site [chemical binding]; other site 1316932006497 Mg++ binding site [ion binding]; other site 1316932006498 motif III; other site 1316932006499 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 1316932006500 nucleotide binding region [chemical binding]; other site 1316932006501 ATP-binding site [chemical binding]; other site 1316932006502 Recombination protein O N terminal; Region: RecO_N; pfam11967 1316932006503 DNA repair protein RecO; Reviewed; Region: recO; PRK00085 1316932006504 Recombination protein O C terminal; Region: RecO_C; pfam02565 1316932006505 GTPase Era; Reviewed; Region: era; PRK00089 1316932006506 E. coli Ras-like protein (Era) is a multifunctional GTPase; Region: Era; cd04163 1316932006507 G1 box; other site 1316932006508 GTP/Mg2+ binding site [chemical binding]; other site 1316932006509 Switch I region; other site 1316932006510 G2 box; other site 1316932006511 Switch II region; other site 1316932006512 G3 box; other site 1316932006513 G4 box; other site 1316932006514 G5 box; other site 1316932006515 KH domain; Region: KH_2; pfam07650 1316932006516 ribonuclease III; Reviewed; Region: rnc; PRK00102 1316932006517 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 1316932006518 dimerization interface [polypeptide binding]; other site 1316932006519 active site 1316932006520 metal binding site [ion binding]; metal-binding site 1316932006521 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 1316932006522 dsRNA binding site [nucleotide binding]; other site 1316932006523 signal peptidase I; Provisional; Region: PRK10861 1316932006524 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 1316932006525 Catalytic site [active] 1316932006526 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 1316932006527 GTP-binding protein LepA; Provisional; Region: PRK05433 1316932006528 LepA also known as Elongation Factor 4 (EF4); Region: LepA; cd01890 1316932006529 G1 box; other site 1316932006530 putative GEF interaction site [polypeptide binding]; other site 1316932006531 GTP/Mg2+ binding site [chemical binding]; other site 1316932006532 Switch I region; other site 1316932006533 G2 box; other site 1316932006534 G3 box; other site 1316932006535 Switch II region; other site 1316932006536 G4 box; other site 1316932006537 G5 box; other site 1316932006538 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 1316932006539 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 1316932006540 GTP-binding protein LepA C-terminus; Region: LepA_C; pfam06421 1316932006541 Alanine-glyoxylate aminotransferase (AGAT) family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD correspond to alanine-glyoxylate aminotransferase (AGAT); Region: AGAT_like; cd06451 1316932006542 homodimer interface [polypeptide binding]; other site 1316932006543 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1316932006544 catalytic residue [active] 1316932006545 Hep_Hag; Region: Hep_Hag; pfam05658 1316932006546 YadA-like, left-handed beta-roll; Region: LbR_YadA-like; cd12820 1316932006547 trimer interface [polypeptide binding]; other site 1316932006548 Integrase core domain; Region: rve; pfam00665 1316932006549 Integrase core domain; Region: rve_3; pfam13683 1316932006550 Winged helix-turn helix; Region: HTH_29; pfam13551 1316932006551 Helix-turn-helix domain; Region: HTH_28; pfam13518 1316932006552 Homeodomain-like domain; Region: HTH_32; pfam13565 1316932006553 Winged helix-turn helix; Region: HTH_29; pfam13551 1316932006554 Helix-turn-helix domain; Region: HTH_28; pfam13518 1316932006555 Integrase core domain; Region: rve; pfam00665 1316932006556 Predicted membrane protein [Function unknown]; Region: COG2259 1316932006557 Uncharacterized low-complexity protein [Function unknown]; Region: COG3767 1316932006558 Protein of unknown function (DUF692); Region: DUF692; pfam05114 1316932006559 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3219 1316932006560 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1316932006561 RNA polymerase sigma factor; Provisional; Region: PRK12530 1316932006562 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or...; Region: Sigma70_r4; cl17257 1316932006563 DNA binding residues [nucleotide binding] 1316932006564 Putative zinc-finger; Region: zf-HC2; pfam13490 1316932006565 Solute carrier families 5 and 6-like; solute binding domain; Region: SLC5-6-like_sbd; cl00456 1316932006566 Na binding site [ion binding]; other site 1316932006567 phosphoenolpyruvate carboxylase; Reviewed; Region: PRK00009 1316932006568 Phosphoenolpyruvate carboxylase [Energy production and conversion]; Region: Ppc; COG2352 1316932006569 LPS assembly outer membrane complex protein LptD; Provisional; Region: PRK03761 1316932006570 OstA-like protein; Region: OstA; pfam03968 1316932006571 Organic solvent tolerance protein; Region: OstA_C; pfam04453 1316932006572 coproporphyrinogen III oxidase; Provisional; Region: PRK09249 1316932006573 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 1316932006574 FeS/SAM binding site; other site 1316932006575 HemN C-terminal domain; Region: HemN_C; pfam06969 1316932006576 Protein of unknown function (DUF2489); Region: DUF2489; pfam10675 1316932006577 Der GTPase activator; Provisional; Region: PRK05244 1316932006578 Uncharacterized protein family (UPF0231); Region: UPF0231; pfam06062 1316932006579 HsdM N-terminal domain; Region: HsdM_N; pfam12161 1316932006580 N-6 DNA Methylase; Region: N6_Mtase; pfam02384 1316932006581 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 1316932006582 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 1316932006583 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 1316932006584 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 1316932006585 Type I site-specific restriction-modification system, R (restriction) subunit and related helicases [Defense mechanisms]; Region: COG0610 1316932006586 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; pfam04313 1316932006587 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 1316932006588 ATP binding site [chemical binding]; other site 1316932006589 putative Mg++ binding site [ion binding]; other site 1316932006590 Domain of unknown function (DUF3387); Region: DUF3387; pfam11867 1316932006591 bifunctional glutamine-synthetase adenylyltransferase/deadenyltransferase; Reviewed; Region: PRK11072 1316932006592 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 1316932006593 metal binding triad; other site 1316932006594 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 1316932006595 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 1316932006596 metal binding triad; other site 1316932006597 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 1316932006598 YciI-like protein; Reviewed; Region: PRK11370 1316932006599 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 1316932006600 intracellular septation protein A; Reviewed; Region: PRK00259 1316932006601 Protein of unknown function, DUF412; Region: DUF412; cl01183 1316932006602 Mu DNA-binding domain; Region: HTH_Tnp_Mu_1; pfam02316 1316932006603 Predicted transcriptional regulator [Transcription]; Region: COG2932 1316932006604 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 1316932006605 Catalytic site [active] 1316932006606 Winged helix-turn-helix DNA-binding; Region: HTH_35; cl17423 1316932006607 Mu DNA-binding domain; Region: HTH_Tnp_Mu_1; pfam02316 1316932006608 Integrase core domain; Region: rve; pfam00665 1316932006609 Mu transposase, C-terminal; Region: Mu-transpos_C; pfam09299 1316932006610 Uncharacterized ATPase, putative transposase [General function prediction only]; Region: COG2842 1316932006611 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 1316932006612 DNA binding site [nucleotide binding] 1316932006613 Protein of unknown function (DUF3164); Region: DUF3164; pfam11363 1316932006614 Protein of unknown function (DUF1018); Region: DUF1018; pfam06252 1316932006615 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 1316932006616 non-specific DNA binding site [nucleotide binding]; other site 1316932006617 salt bridge; other site 1316932006618 sequence-specific DNA binding site [nucleotide binding]; other site 1316932006619 Mor transcription activator family; Region: Mor; cl02360 1316932006620 Lysozyme family protein [General function prediction only]; Region: zliS; COG3926 1316932006621 Glycosyl hydrolase 108; Region: Glyco_hydro_108; pfam05838 1316932006622 Predicted Peptidoglycan domain; Region: PG_binding_3; pfam09374 1316932006623 Protein of unknown function (DUF2644); Region: DUF2644; pfam10841 1316932006624 Protein of unknown function (DUF2681); Region: DUF2681; pfam10883 1316932006625 Protein of unknown function (DUF1804); Region: DUF1804; pfam08822 1316932006626 Phage-related terminase [General function prediction only]; Region: COG5362; cl02216 1316932006627 Protein of unknown function (DUF935); Region: DUF935; pfam06074 1316932006628 Mu-like prophage protein gp29 [Function unknown]; Region: COG4383 1316932006629 Phage Mu protein F like protein; Region: Phage_Mu_F; pfam04233 1316932006630 Mu-like prophage protein gpG [General function prediction only]; Region: COG5005 1316932006631 Mu-like prophage I protein; Region: Mu-like_Pro; pfam10123 1316932006632 Mu-like prophage major head subunit gpT; Region: Mu-like_gpT; pfam10124 1316932006633 Protein of unknown function (DUF1320); Region: DUF1320; pfam07030 1316932006634 Domain of unknown function (DUF1834); Region: DUF1834; pfam08873 1316932006635 Protein of unknown function (DUF2635); Region: DUF2635; pfam10948 1316932006636 Mu-like prophage tail sheath protein gpL [General function prediction only]; Region: COG4386 1316932006637 Phage tail sheath protein; Region: Phage_sheath_1; pfam04984 1316932006638 Phage tail tube protein; Region: Tail_tube; pfam10618 1316932006639 Phage-related minor tail protein; Region: PhageMin_Tail; pfam10145 1316932006640 Mu-like prophage DNA circulation protein [General function prediction only]; Region: COG4228 1316932006641 DNA circulation protein N-terminus; Region: DNA_circ_N; pfam07157 1316932006642 Mu-like prophage tail protein gpP [General function prediction only]; Region: COG4379 1316932006643 Phage late control gene D protein (GPD); Region: Phage_GPD; cl15796 1316932006644 Bacteriophage Mu Gp45 protein; Region: Phage_Mu_Gp45; cl15410 1316932006645 phage baseplate assembly protein V; Region: phage_P2_V; TIGR01644 1316932006646 Phage protein GP46; Region: GP46; cl01814 1316932006647 Uncharacterized homolog of phage Mu protein gp47 [Function unknown]; Region: XkdT; COG3299 1316932006648 Uncharacterized protein conserved in bacteria (DUF2313); Region: DUF2313; pfam10076 1316932006649 Pectate lyase superfamily protein; Region: Pectate_lyase_3; pfam12708 1316932006650 molybdopterin biosynthesis protein MoeB; Provisional; Region: PRK05690 1316932006651 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 1316932006652 ATP binding site [chemical binding]; other site 1316932006653 substrate interface [chemical binding]; other site 1316932006654 molybdopterin biosynthesis protein MoeA; Provisional; Region: PRK10680 1316932006655 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 1316932006656 dimer interface [polypeptide binding]; other site 1316932006657 putative functional site; other site 1316932006658 putative MPT binding site; other site 1316932006659 Multiple antibiotic transporter [Intracellular trafficking and secretion]; Region: MarC; COG2095 1316932006660 AAA domain; Region: AAA_14; pfam13173 1316932006661 Domain of unknown function (DUF4143); Region: DUF4143; pfam13635 1316932006662 putative ABC transporter ATP-binding protein; Provisional; Region: PRK10636 1316932006663 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1316932006664 Walker A/P-loop; other site 1316932006665 ATP binding site [chemical binding]; other site 1316932006666 Q-loop/lid; other site 1316932006667 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1316932006668 ABC transporter; Region: ABC_tran_2; pfam12848 1316932006669 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1316932006670 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 1316932006671 sequence-specific DNA binding site [nucleotide binding]; other site 1316932006672 salt bridge; other site 1316932006673 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 1316932006674 GST_N family, unknown subfamily 3; composed of uncharacterized bacterial proteins with similarity to GSTs. GSTs are cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with a wide range of...; Region: GST_N_3; cd03049 1316932006675 putative C-terminal domain interface [polypeptide binding]; other site 1316932006676 putative GSH binding site (G-site) [chemical binding]; other site 1316932006677 putative dimer interface [polypeptide binding]; other site 1316932006678 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cl02776 1316932006679 N-terminal domain interface [polypeptide binding]; other site 1316932006680 dimer interface [polypeptide binding]; other site 1316932006681 substrate binding pocket (H-site) [chemical binding]; other site 1316932006682 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 1316932006683 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 1316932006684 active site 1316932006685 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 1316932006686 catalytic core [active] 1316932006687 hypothetical protein; Provisional; Region: PRK05415 1316932006688 Domain of unknown function (DUF697); Region: DUF697; cl12064 1316932006689 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 1316932006690 tRNA-dihydrouridine synthase C; Provisional; Region: PRK10550 1316932006691 FMN binding site [chemical binding]; other site 1316932006692 active site 1316932006693 catalytic residues [active] 1316932006694 substrate binding site [chemical binding]; other site 1316932006695 Predicted membrane protein (DUF2238); Region: DUF2238; cl01464 1316932006696 Dna-J like membrane chaperone protein; Provisional; Region: djlA; PRK09430 1316932006697 N-terminal tellurium resistance protein terB-like domain of heat shock DnaJ-like proteins; Region: terB_like_DjlA; cd07316 1316932006698 putative metal binding site [ion binding]; other site 1316932006699 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 1316932006700 HSP70 interaction site [polypeptide binding]; other site 1316932006701 EamA-like transporter family; Region: EamA; pfam00892 1316932006702 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 1316932006703 ligand binding site [chemical binding]; other site 1316932006704 translocation protein TolB; Provisional; Region: tolB; PRK01742 1316932006705 TolB amino-terminal domain; Region: TolB_N; pfam04052 1316932006706 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 1316932006707 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 1316932006708 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 1316932006709 TolA C-terminal; Region: TolA; pfam06519 1316932006710 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 1316932006711 colicin uptake protein TolR; Provisional; Region: PRK11024 1316932006712 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 1316932006713 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 1316932006714 active site 1316932006715 cyd operon protein YbgE; Region: cyd_oper_ybgE; TIGR02112 1316932006716 cytochrome d oxidase, subunit II (cydB); Region: cydB; TIGR00203 1316932006717 Cytochrome oxidase subunit II; Region: Cyto_ox_2; pfam02322 1316932006718 cytochrome d terminal oxidase subunit 1; Provisional; Region: PRK15097 1316932006719 Bacterial Cytochrome Ubiquinol Oxidase; Region: Bac_Ubq_Cox; cl00562 1316932006720 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 1316932006721 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 1316932006722 ring oligomerisation interface [polypeptide binding]; other site 1316932006723 ATP/Mg binding site [chemical binding]; other site 1316932006724 stacking interactions; other site 1316932006725 hinge regions; other site 1316932006726 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 1316932006727 oligomerisation interface [polypeptide binding]; other site 1316932006728 mobile loop; other site 1316932006729 roof hairpin; other site 1316932006730 Winged helix-turn helix; Region: HTH_29; pfam13551 1316932006731 Helix-turn-helix domain; Region: HTH_28; pfam13518 1316932006732 Homeodomain-like domain; Region: HTH_32; pfam13565 1316932006733 Integrase core domain; Region: rve; pfam00665 1316932006734 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 1316932006735 Integrase core domain; Region: rve_3; pfam13683 1316932006736 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 1316932006737 active site 1316932006738 8-oxo-dGMP binding site [chemical binding]; other site 1316932006739 nudix motif; other site 1316932006740 metal binding site [ion binding]; metal-binding site 1316932006741 preprotein translocase subunit SecA; Reviewed; Region: PRK12904 1316932006742 SecA preprotein cross-linking domain; Region: SecA_PP_bind; smart00958 1316932006743 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; cl17351 1316932006744 nucleotide binding region [chemical binding]; other site 1316932006745 ATP-binding site [chemical binding]; other site 1316932006746 SEC-C motif; Region: SEC-C; pfam02810 1316932006747 Protein of unknown function (DUF2547); Region: DUF2547; pfam10818 1316932006748 Protein of unknown function (DUF721); Region: DUF721; cl02324 1316932006749 NlpE N-terminal domain; Region: NlpE; pfam04170 1316932006750 BolA-like protein; Region: BolA; cl00386 1316932006751 Uncharacterized lipoprotein; Region: Lipoprotein_16; pfam03923 1316932006752 Plasmid stabilisation system protein; Region: Plasmid_stabil; pfam05016 1316932006753 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1385 1316932006754 RNA methyltransferase, RsmE family; Region: TIGR00046 1316932006755 hypothetical protein; Validated; Region: PRK00228 1316932006756 Holliday junction resolvase-like protein; Reviewed; Region: PRK00109 1316932006757 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; cl00465 1316932006758 Domain of unknown function DUF20; Region: UPF0118; pfam01594 1316932006759 Na+/alanine symporter [Amino acid transport and metabolism]; Region: AlsT; COG1115 1316932006760 amino acid carrier protein; Region: agcS; TIGR00835 1316932006761 Staphylococcal nuclease homologues; Region: SNc; smart00318 1316932006762 Staphylococcal nuclease homologues. SNase homologues are found in bacteria, archaea, and eukaryotes. They contain no disufide bonds; Region: SNc; cd00175 1316932006763 Catalytic site; other site 1316932006764 Excalibur calcium-binding domain; Region: Excalibur; cl05460 1316932006765 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1316932006766 Walker B; other site 1316932006767 D-loop; other site 1316932006768 H-loop/switch region; other site 1316932006769 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 1316932006770 ATP-binding cassette domain of multidrug resistance protein-like transporters; Region: ABCC_MRP_Like; cd03228 1316932006771 Walker A/P-loop; other site 1316932006772 ATP binding site [chemical binding]; other site 1316932006773 Q-loop/lid; other site 1316932006774 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 1316932006775 putative active site [active] 1316932006776 type I secretion membrane fusion protein, HlyD family; Region: type_I_hlyD; TIGR01843 1316932006777 HlyD family secretion protein; Region: HlyD_3; pfam13437 1316932006778 Cupin-like domain; Region: Cupin_8; pfam13621 1316932006779 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3676 1316932006780 ISXO2-like transposase domain; Region: DDE_Tnp_IS1595; cl01481 1316932006781 Cupin superfamily protein; Region: Cupin_4; pfam08007 1316932006782 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 1316932006783 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 1316932006784 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1316932006785 catalytic residue [active] 1316932006786 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 1316932006787 6-phosphofructokinase; Region: PFKA_ATP; TIGR02482 1316932006788 active site 1316932006789 ADP/pyrophosphate binding site [chemical binding]; other site 1316932006790 dimerization interface [polypeptide binding]; other site 1316932006791 allosteric effector site; other site 1316932006792 fructose-1,6-bisphosphate binding site; other site 1316932006793 YwiC-like protein; Region: YwiC; pfam14256 1316932006794 tRNA s(4)U8 sulfurtransferase; Provisional; Region: PRK01269 1316932006795 THUMP domain of thiamine biosynthesis protein ThiI; Region: THUMP_ThiI; cd11716 1316932006796 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 1316932006797 Ligand Binding Site [chemical binding]; other site 1316932006798 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 1316932006799 active site residue [active] 1316932006800 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional; Region: PRK10792 1316932006801 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 1316932006802 NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080 1316932006803 homodimer interface [polypeptide binding]; other site 1316932006804 NADP binding site [chemical binding]; other site 1316932006805 substrate binding site [chemical binding]; other site 1316932006806 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 1316932006807 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 1316932006808 dimer interface [polypeptide binding]; other site 1316932006809 ssDNA binding site [nucleotide binding]; other site 1316932006810 tetramer (dimer of dimers) interface [polypeptide binding]; other site 1316932006811 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 1316932006812 active site 1316932006813 DNA binding site [nucleotide binding] 1316932006814 Int/Topo IB signature motif; other site 1316932006815 Abi-like protein; Region: Abi_2; pfam07751 1316932006816 RNA polymerases N / 8 kDa subunit; Region: RNA_pol_N; cl00712 1316932006817 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 1316932006818 non-specific DNA binding site [nucleotide binding]; other site 1316932006819 SOS-response transcriptional repressors (RecA-mediated autopeptidases) [Transcription / Signal transduction mechanisms]; Region: LexA; COG1974 1316932006820 salt bridge; other site 1316932006821 sequence-specific DNA binding site [nucleotide binding]; other site 1316932006822 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 1316932006823 Catalytic site [active] 1316932006824 DNA-binding transcriptional regulator DicC; Provisional; Region: PRK09744 1316932006825 Phage regulatory protein Rha (Phage_pRha); Region: Phage_pRha; pfam09669 1316932006826 Phage antirepressor protein KilAC domain; Region: ANT; pfam03374 1316932006827 Conserved phage C-terminus (Phg_2220_C); Region: Phg_2220_C; cl09752 1316932006828 DNA N-6-adenine-methyltransferase (Dam); Region: Dam; cl05442 1316932006829 Protein of unknown function (DUF968); Region: DUF968; pfam06147 1316932006830 Winged helix-turn helix; Region: HTH_29; pfam13551 1316932006831 Helix-turn-helix domain; Region: HTH_28; pfam13518 1316932006832 Homeodomain-like domain; Region: HTH_32; pfam13565 1316932006833 integrase; Provisional; Region: int; PHA02601 1316932006834 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 1316932006835 Phage terminase, large subunit GpA [Replication, recombination and repair]; Region: COG5525 1316932006836 Phage minor tail protein U; Region: Phage_tail_U; pfam06141 1316932006837 Protein of unknown function (DUF4035); Region: DUF4035; pfam13227 1316932006838 RelB antitoxin; Region: RelB; cl01171 1316932006839 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3041 1316932006840 tape measure domain; Region: tape_meas_nterm; TIGR02675 1316932006841 NlpC/P60 family; Region: NLPC_P60; cl17555 1316932006842 Phage-related protein, tail component [Function unknown]; Region: COG4723 1316932006843 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 1316932006844 non-specific DNA binding site [nucleotide binding]; other site 1316932006845 salt bridge; other site 1316932006846 sequence-specific DNA binding site [nucleotide binding]; other site 1316932006847 Phage derived protein Gp49-like (DUF891); Region: Gp49; cl01470 1316932006848 Adenylosuccinate synthetase; Region: Adenylsucc_synt; smart00788 1316932006849 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 1316932006850 GDP-binding site [chemical binding]; other site 1316932006851 ACT binding site; other site 1316932006852 IMP binding site; other site 1316932006853 FtsH protease regulator HflC; Provisional; Region: PRK11029 1316932006854 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 1316932006855 Bacterial membrane protein N terminal; Region: HflK_N; pfam12221 1316932006856 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 1316932006857 HflK protein; Region: hflK; TIGR01933 1316932006858 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 1316932006859 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 1316932006860 catalytic residues [active] 1316932006861 OmpW family; Region: OmpW; cl17427 1316932006862 ATP-dependent chaperone ClpB; Region: chaperone_ClpB; TIGR03346 1316932006863 Clp amino terminal domain; Region: Clp_N; pfam02861 1316932006864 Clp amino terminal domain; Region: Clp_N; pfam02861 1316932006865 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 1316932006866 Walker A motif; other site 1316932006867 ATP binding site [chemical binding]; other site 1316932006868 Walker B motif; other site 1316932006869 arginine finger; other site 1316932006870 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 1316932006871 Walker A motif; other site 1316932006872 ATP binding site [chemical binding]; other site 1316932006873 Walker B motif; other site 1316932006874 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 1316932006875 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 1316932006876 substrate binding site [chemical binding]; other site 1316932006877 THF binding site; other site 1316932006878 zinc-binding site [ion binding]; other site 1316932006879 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 1316932006880 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 1316932006881 transmembrane helices; other site 1316932006882 cytidine deaminase; Provisional; Region: PRK09027 1316932006883 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 1316932006884 active site 1316932006885 catalytic motif [active] 1316932006886 Zn binding site [ion binding]; other site 1316932006887 Cytidine and deoxycytidylate deaminase zinc-binding region; Region: dCMP_cyt_deam_2; pfam08211 1316932006888 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 1316932006889 EamA-like transporter family; Region: EamA; pfam00892 1316932006890 EamA-like transporter family; Region: EamA; pfam00892 1316932006891 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 1316932006892 homooctamer interface [polypeptide binding]; other site 1316932006893 active site 1316932006894 putative glycerol-3-phosphate acyltransferase PlsY; Provisional; Region: PRK00220 1316932006895 DNA topoisomerase IV subunit B; Reviewed; Region: PRK05559 1316932006896 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 1316932006897 ATP binding site [chemical binding]; other site 1316932006898 Mg2+ binding site [ion binding]; other site 1316932006899 G-X-G motif; other site 1316932006900 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 1316932006901 anchoring element; other site 1316932006902 dimer interface [polypeptide binding]; other site 1316932006903 ATP binding site [chemical binding]; other site 1316932006904 TOPRIM_TopoIIA_like: topoisomerase-primase (TOPRIM) nucleotidyl transferase/hydrolase domain of the type found in proteins of the type IIA family of DNA topoisomerases similar to Saccharomyces cerevisiae Topoisomerase II. TopoIIA enzymes cut both strands...; Region: TOPRIM_TopoIIA_like; cd01030 1316932006905 active site 1316932006906 putative metal-binding site [ion binding]; other site 1316932006907 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 1316932006908 Predicted nuclease of the RNAse H fold, HicB family [General function prediction only]; Region: HicB; COG4226 1316932006909 HicB family; Region: HicB; pfam05534 1316932006910 Helix-Turn-Helix DNA binding domain of CueR-like transcription regulators; Region: HTH_CueR; cd01108 1316932006911 Cu(I)-responsive transcriptional regulator; Region: CueR; TIGR02044 1316932006912 DNA binding residues [nucleotide binding] 1316932006913 dimer interface [polypeptide binding]; other site 1316932006914 copper binding site [ion binding]; other site 1316932006915 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 1316932006916 metal-binding site [ion binding] 1316932006917 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 1316932006918 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 1316932006919 metal-binding site [ion binding] 1316932006920 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 1316932006921 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 1316932006922 motif II; other site 1316932006923 tRNA pseudouridine synthase A; Validated; Region: truA; PRK00021 1316932006924 Eukaryotic and bacterial pseudouridine synthases similar to E. coli TruA; Region: PseudoU_synth_EcTruA; cd02570 1316932006925 dimerization interface 3.5A [polypeptide binding]; other site 1316932006926 active site 1316932006927 GTP cyclohydrolase I (GTP-CH-I) catalyzes the conversion of GTP into dihydroneopterin triphosphate. The enzyme product is the precursor of tetrahydrofolate in eubacteria, fungi, and plants and of the folate analogs in methanogenic bacteria. In...; Region: GTP_cyclohydro1; cd00642 1316932006928 homodecamer interface [polypeptide binding]; other site 1316932006929 active site 1316932006930 putative catalytic site residues [active] 1316932006931 zinc binding site [ion binding]; other site 1316932006932 GTP-CH-I/GFRP interaction surface; other site 1316932006933 3-deoxy-D-manno-octulosonic-acid kinase; Reviewed; Region: PRK01723 1316932006934 Lipopolysaccharide kinase (Kdo/WaaP) family; Region: Kdo; pfam06293 1316932006935 antiporter inner membrane protein; Provisional; Region: PRK11670 1316932006936 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 1316932006937 Walker A motif; other site 1316932006938 ABC-type oligopeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: OppA; COG4166 1316932006939 The substrate-binding component of an ABC-type oligopetide import system contains the type 2 periplasmic binding fold; Region: PBP2_OppA; cd08504 1316932006940 peptide binding site [polypeptide binding]; other site 1316932006941 hypothetical protein; Provisional; Region: PRK11111 1316932006942 periplasmic folding chaperone; Provisional; Region: PRK10788 1316932006943 SurA N-terminal domain; Region: SurA_N_3; cl07813 1316932006944 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 1316932006945 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 1316932006946 16S/18S rRNA binding site [nucleotide binding]; other site 1316932006947 S13e-L30e interaction site [polypeptide binding]; other site 1316932006948 25S rRNA binding site [nucleotide binding]; other site 1316932006949 Protein of unknown function (DUF808); Region: DUF808; pfam05661 1316932006950 Uncharacterized enzyme of heme biosynthesis [Coenzyme metabolism]; Region: HemY; COG3071 1316932006951 HemY protein N-terminus; Region: HemY_N; pfam07219 1316932006952 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 1316932006953 TPR motif; other site 1316932006954 binding surface 1316932006955 putative uroporphyrinogen III C-methyltransferase; Provisional; Region: PRK10920 1316932006956 uroporphyrinogen-III synthase; Reviewed; Region: hemD; PRK05928 1316932006957 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 1316932006958 active site 1316932006959 porphobilinogen deaminase; Reviewed; Region: hemC; PRK00072 1316932006960 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 1316932006961 domain interfaces; other site 1316932006962 active site 1316932006963 bifunctional acetaldehyde-CoA/alcohol dehydrogenase; Provisional; Region: PRK13805 1316932006964 Coenzyme A acylating aldehyde dehydrogenase (ACDH), ALDH family 20-like; Region: ALDH_F20_ACDH; cd07122 1316932006965 putative catalytic cysteine [active] 1316932006966 C-terminal alcohol dehydrogenase domain of the acetaldehyde dehydrogenase-alcohol dehydrogenase bifunctional two-domain protein (AAD); Region: AAD_C; cd08178 1316932006967 putative active site [active] 1316932006968 metal binding site [ion binding]; metal-binding site 1316932006969 Methionine synthase I (cobalamin-dependent), methyltransferase domain [Amino acid transport and metabolism]; Region: MetH; cl14105 1316932006970 Homocysteine S-methyltransferase; Region: S-methyl_trans; pfam02574 1316932006971 transporter, basic amino acid/polyamine antiporter (APA) family; Region: 2A0302; TIGR00905 1316932006972 Spore germination protein; Region: Spore_permease; cl17796 1316932006973 Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL; cl09939 1316932006974 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 1316932006975 active site 1316932006976 metal binding site [ion binding]; metal-binding site 1316932006977 FOG: LysM repeat [Cell envelope biogenesis, outer membrane]; Region: LytE; COG1388 1316932006978 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 1316932006979 Uncharacterized P-loop hydrolase UPF0079; Region: UPF0079; cl00520 1316932006980 DEDDh 3'-5' exonuclease domain of oligoribonuclease and similar proteins; Region: Orn; cd06135 1316932006981 catalytic site [active] 1316932006982 putative active site [active] 1316932006983 putative substrate binding site [chemical binding]; other site 1316932006984 dimer interface [polypeptide binding]; other site 1316932006985 Phosphopantetheine adenylyltransferase; Region: PPAT; cd02163 1316932006986 phosphopantetheine adenylyltransferase; Provisional; Region: coaD; PRK00168 1316932006987 active site 1316932006988 (T/H)XGH motif; other site 1316932006989 3-deoxy-D-manno-octulosonic-acid transferase; Reviewed; Region: PRK05749 1316932006990 3-Deoxy-D-manno-octulosonic-acid transferase (kdotransferase); Region: Glycos_transf_N; pfam04413 1316932006991 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 1316932006992 putative protease; Provisional; Region: PRK15452 1316932006993 Peptidase family U32; Region: Peptidase_U32; pfam01136 1316932006994 Cytochrome b562; Region: Cytochrom_B562; pfam07361 1316932006995 DNA polymerase III subunit alpha; Validated; Region: dnaE; PRK05673 1316932006996 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III DnaE1; Region: PHP_PolIIIA_DnaE1; cd07433 1316932006997 putative active site [active] 1316932006998 putative PHP Thumb interface [polypeptide binding]; other site 1316932006999 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 1316932007000 generic binding surface II; other site 1316932007001 generic binding surface I; other site 1316932007002 lipopolysaccharide ABC transporter permease; Provisional; Region: PRK15071 1316932007003 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 1316932007004 Predicted permeases [General function prediction only]; Region: COG0795; cl12074 1316932007005 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 1316932007006 multifunctional aminopeptidase A; Provisional; Region: PRK00913 1316932007007 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 1316932007008 interface (dimer of trimers) [polypeptide binding]; other site 1316932007009 Substrate-binding/catalytic site; other site 1316932007010 Zn-binding sites [ion binding]; other site 1316932007011 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 1316932007012 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 1316932007013 dimer interface [polypeptide binding]; other site 1316932007014 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1316932007015 catalytic residue [active] 1316932007016 transcription termination factor Rho; Provisional; Region: rho; PRK09376 1316932007017 Rho termination factor, N-terminal domain; Region: Rho_N; smart00959 1316932007018 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 1316932007019 RNA binding site [nucleotide binding]; other site 1316932007020 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 1316932007021 multimer interface [polypeptide binding]; other site 1316932007022 Walker A motif; other site 1316932007023 ATP binding site [chemical binding]; other site 1316932007024 Walker B motif; other site 1316932007025 Tetratricopeptide repeat; Region: TPR_16; pfam13432 1316932007026 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 1316932007027 putative active site [active] 1316932007028 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 1316932007029 putative active site [active] 1316932007030 F0F1 ATP synthase subunit B'; Validated; Region: PRK07353 1316932007031 Autotransporter beta-domain; Region: Autotransporter; pfam03797 1316932007032 Transcriptional antiterminator [Transcription]; Region: BglG; COG3711 1316932007033 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 1316932007034 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 1316932007035 catalytic core [active] 1316932007036 Tyrosine phosphatase family; Region: Y_phosphatase3; pfam13350 1316932007037 Tyrosine phosphatase family; Region: Y_phosphatase2; pfam03162 1316932007038 Tyrosine phosphatase family C-terminal region; Region: Y_phosphatase3C; pfam13348 1316932007039 PTS system mannose/fructose/sorbose family IID component; Region: EIID-AGA; pfam03613 1316932007040 PTS system sorbose-specific iic component; Region: EII-Sor; pfam03609 1316932007041 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 1316932007042 active site 1316932007043 phosphorylation site [posttranslational modification] 1316932007044 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 1316932007045 active pocket/dimerization site; other site 1316932007046 active site 1316932007047 phosphorylation site [posttranslational modification] 1316932007048 acetylornithine aminotransferase; Provisional; Region: PRK02627 1316932007049 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 1316932007050 inhibitor-cofactor binding pocket; inhibition site 1316932007051 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1316932007052 catalytic residue [active] 1316932007053 AAK_NAGK-C: N-Acetyl-L-glutamate kinase - cyclic (NAGK-C) catalyzes the phosphorylation of the gamma-COOH group of N-acetyl-L-glutamate (NAG) by ATP in the second step of arginine biosynthesis found in some bacteria and photosynthetic organisms using the...; Region: AAK_NAGK-C; cd04250 1316932007054 nucleotide binding site [chemical binding]; other site 1316932007055 homohexameric interface [polypeptide binding]; other site 1316932007056 N-acetyl-L-glutamate binding site [chemical binding]; other site 1316932007057 N-acetyl-gamma-glutamyl-phosphate reductase; Provisional; Region: PRK11863 1316932007058 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 1316932007059 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 1316932007060 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 1316932007061 putative C-terminal domain interface [polypeptide binding]; other site 1316932007062 putative GSH binding site (G-site) [chemical binding]; other site 1316932007063 putative dimer interface [polypeptide binding]; other site 1316932007064 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cl02776 1316932007065 N-terminal domain interface [polypeptide binding]; other site 1316932007066 dimer interface [polypeptide binding]; other site 1316932007067 substrate binding pocket (H-site) [chemical binding]; other site 1316932007068 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 1316932007069 Old yellow enzyme (OYE)-related FMN binding domain, group 4. Each monomer of OYE contains FMN as a non-covalently bound cofactor, uses NADPH as a reducing agent with oxygens, quinones, and alpha,beta-unsaturated aldehydes and ketones, and can act as...; Region: OYE_like_4_FMN; cd04735 1316932007070 putative active site [active] 1316932007071 putative FMN binding site [chemical binding]; other site 1316932007072 putative substrate binding site [chemical binding]; other site 1316932007073 putative catalytic residue [active] 1316932007074 Nitroreductase family. Members of this family utilize FMN as a cofactor and catalyze reduction of a variety of nitroaromatic compounds, including nitrofurans, nitrobenzens, nitrophenol, nitrobenzoate and quinones by using either NADH or NADPH as a source...; Region: Nitroreductase; cd02136 1316932007075 putative FMN binding site [chemical binding]; other site 1316932007076 peroxiredoxin, Ohr subfamily; Region: organ_hyd_perox; TIGR03561 1316932007077 AraC-type transcriptional regulator N-terminus; Region: AraC_N; pfam06719 1316932007078 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 1316932007079 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1316932007080 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1316932007081 purine nucleoside phosphorylase; Reviewed; Region: deoD; PRK05819 1316932007082 Uridine phosphorylase [Nucleotide transport and metabolism]; Region: Udp; COG2820 1316932007083 2-deoxyribose-5-phosphate aldolase (DERA) of the DeoC family; Region: DeoC; cd00959 1316932007084 intersubunit interface [polypeptide binding]; other site 1316932007085 active site 1316932007086 catalytic residue [active] 1316932007087 Nucleoside permease [Nucleotide transport and metabolism]; Region: NupC; COG1972 1316932007088 Na+ dependent nucleoside transporter N-terminus; Region: Nucleos_tra2_N; pfam01773 1316932007089 Nucleoside recognition; Region: Gate; pfam07670 1316932007090 Na+ dependent nucleoside transporter C-terminus; Region: Nucleos_tra2_C; pfam07662 1316932007091 Peptide methionine sulfoxide reductase [Posttranslational modification, protein turnover, chaperones]; Region: MsrA; COG0225 1316932007092 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 1316932007093 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 1316932007094 active site 1316932007095 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 1316932007096 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 1316932007097 active site 1316932007098 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 1316932007099 Glycosyltransferase family 25 [lipooligosaccharide (LOS) biosynthesis protein] is a family of glycosyltransferases involved in LOS biosynthesis. The members include the beta(1,4) galactosyltransferases: Lgt2 of Moraxella catarrhalis, LgtB and LgtE of...; Region: Glyco_transf_25; cd06532 1316932007100 Glycosyltransferase family 52; Region: Glyco_transf_52; pfam07922 1316932007101 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 1316932007102 Wzx, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_Wzx_like; cd13128 1316932007103 UDP-N-acetyl-D-glucosamine 2-epimerase, UDP-hydrolysing; Region: NeuC_NnaA; TIGR03568 1316932007104 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 1316932007105 active site 1316932007106 homodimer interface [polypeptide binding]; other site 1316932007107 CMP-NeuAc_Synthase activates N-acetylneuraminic acid by adding CMP moiety; Region: CMP-NeuAc_Synthase; cd02513 1316932007108 ligand binding site; other site 1316932007109 tetramer interface; other site 1316932007110 SGNH_hydrolase, or GDSL_hydrolase, is a diverse family of lipases and esterases. The tertiary fold of the enzyme is substantially different from that of the alpha/beta hydrolase family and unique among all known hydrolases; its active site closely...; Region: SGNH_hydrolase; cl01053 1316932007111 active site 1316932007112 catalytic triad [active] 1316932007113 oxyanion hole [active] 1316932007114 N-acetylneuraminate synthase; Region: NeuB_NnaB; TIGR03569 1316932007115 NeuB family; Region: NeuB; pfam03102 1316932007116 C-terminal SAF domain of sialic acid synthetase; Region: SAF_NeuB_like; cd11615 1316932007117 NeuB binding interface [polypeptide binding]; other site 1316932007118 putative substrate binding site [chemical binding]; other site 1316932007119 Putative Acyltransferase (AT), Left-handed parallel beta-Helix (LbH) domain; This group is composed of mostly uncharacterized proteins containing an N-terminal helical subdomain followed by a LbH domain. The alignment contains 6 turns, each containing...; Region: LbH_AT_putative; cd03360 1316932007120 sugar O-acyltransferase, sialic acid O-acetyltransferase NeuD family; Region: NeuD_NnaD; TIGR03570 1316932007121 putative trimer interface [polypeptide binding]; other site 1316932007122 putative CoA binding site [chemical binding]; other site 1316932007123 Uncharacterized conserved protein [Function unknown]; Region: COG1434 1316932007124 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 1316932007125 putative active site [active] 1316932007126 primosome assembly protein PriA; Validated; Region: PRK05580 1316932007127 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 1316932007128 ATP binding site [chemical binding]; other site 1316932007129 putative Mg++ binding site [ion binding]; other site 1316932007130 helicase superfamily c-terminal domain; Region: HELICc; smart00490 1316932007131 nucleotide binding region [chemical binding]; other site 1316932007132 ATP-binding site [chemical binding]; other site 1316932007133 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 1316932007134 Predicted permeases [General function prediction only]; Region: RarD; COG2962 1316932007135 EamA-like transporter family; Region: EamA; pfam00892 1316932007136 aminotransferase AlaT; Validated; Region: PRK09265 1316932007137 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 1316932007138 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1316932007139 homodimer interface [polypeptide binding]; other site 1316932007140 catalytic residue [active] 1316932007141 Isochorismate synthase [Coenzyme metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: MenF; COG1169 1316932007142 chorismate binding enzyme; Region: Chorismate_bind; cl10555 1316932007143 ISXO2-like transposase domain; Region: DDE_Tnp_IS1595; cl01481 1316932007144 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3676 1316932007145 Integrase core domain; Region: rve; pfam00665 1316932007146 Integrase core domain; Region: rve_3; cl15866 1316932007147 Winged helix-turn helix; Region: HTH_29; pfam13551 1316932007148 Helix-turn-helix domain; Region: HTH_28; pfam13518 1316932007149 Homeodomain-like domain; Region: HTH_32; pfam13565 1316932007150 Organic radical activating enzymes [Posttranslational modification, protein turnover, chaperones]; Region: NrdG; COG0602 1316932007151 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 1316932007152 FeS/SAM binding site; other site 1316932007153 6-pyruvoyl tetrahydropterin synthase; Region: PTPS; pfam01242 1316932007154 active site 1316932007155 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 1316932007156 Ligand Binding Site [chemical binding]; other site 1316932007157 Membrane fusogenic activity; Region: BMFP; cl01115 1316932007158 glucose-6-phosphate isomerase; Reviewed; Region: pgi; PRK00179 1316932007159 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 1316932007160 active site 1316932007161 dimer interface [polypeptide binding]; other site 1316932007162 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 1316932007163 dimer interface [polypeptide binding]; other site 1316932007164 active site 1316932007165 exonuclease V subunit alpha; Provisional; Region: recD; PRK10875 1316932007166 AAA domain; Region: AAA_30; pfam13604 1316932007167 Family description; Region: UvrD_C_2; pfam13538 1316932007168 alanine racemase; Reviewed; Region: alr; PRK00053 1316932007169 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, Proteobacterial Alanine Racemases; Region: PLPDE_III_AR_proteobact; cd06827 1316932007170 active site 1316932007171 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 1316932007172 substrate binding site [chemical binding]; other site 1316932007173 catalytic residues [active] 1316932007174 dimer interface [polypeptide binding]; other site 1316932007175 superoxide dismutase; Provisional; Region: PRK10925 1316932007176 Iron/manganese superoxide dismutases, alpha-hairpin domain; Region: Sod_Fe_N; pfam00081 1316932007177 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 1316932007178 bifunctional aspartokinase I/homoserine dehydrogenase I; Provisional; Region: thrA; PRK09436 1316932007179 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 1316932007180 putative catalytic residues [active] 1316932007181 putative nucleotide binding site [chemical binding]; other site 1316932007182 putative aspartate binding site [chemical binding]; other site 1316932007183 ACT domains of the bifunctional enzyme aspartokinase (AK) - homoserine dehydrogenase (HSDH); Region: ACT_AKi-HSDH-ThrA-like_1; cd04921 1316932007184 dimer interface [polypeptide binding]; other site 1316932007185 putative threonine allosteric regulatory site; other site 1316932007186 ACT domains of the bifunctional enzyme aspartokinase (AK) - homoserine dehydrogenase (HSDH); Region: ACT_AKi-HSDH-ThrA_2; cd04922 1316932007187 putative threonine allosteric regulatory site; other site 1316932007188 Homoserine dehydrogenase, NAD binding domain; Region: NAD_binding_3; pfam03447 1316932007189 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 1316932007190 homoserine kinase; Provisional; Region: PRK01212 1316932007191 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 1316932007192 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 1316932007193 cysteinyl-tRNA synthetase; Validated; Region: cysS; PRK00260 1316932007194 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 1316932007195 active site 1316932007196 HIGH motif; other site 1316932007197 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 1316932007198 KMSKS motif; other site 1316932007199 Anticodon-binding domain of cysteinyl tRNA synthetases; Region: Anticodon_Ia_Cys; cd07963 1316932007200 tRNA binding surface [nucleotide binding]; other site 1316932007201 anticodon binding site; other site 1316932007202 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 1316932007203 substrate binding site [chemical binding]; other site 1316932007204 Membrane transport protein; Region: Mem_trans; cl09117 1316932007205 formate dehydrogenase accessory protein; Reviewed; Region: PRK00724 1316932007206 formate dehydrogenase, alpha subunit, proteobacterial-type; Region: formate-DH-alph; TIGR01553 1316932007207 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 1316932007208 [4Fe-4S] binding site [ion binding]; other site 1316932007209 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 1316932007210 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 1316932007211 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 1316932007212 molybdopterin cofactor binding site; other site 1316932007213 formate dehydrogenase, beta subunit, Fe-S containing; Region: FDH-beta; TIGR01582 1316932007214 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 1316932007215 Formate dehydrogenase N, transmembrane; Region: Form-deh_trans; pfam09163 1316932007216 Cytochrome b subunit of formate dehydrogenase [Energy production and conversion]; Region: FdnI; COG2864 1316932007217 formate dehydrogenase, gamma subunit; Region: formate-DH-gamm; TIGR01583 1316932007218 formate dehydrogenase accessory protein FdhE; Provisional; Region: PRK03564 1316932007219 formate dehydrogenase accessory protein FdhE; Region: FdhE; TIGR01562 1316932007220 glutathione reductase; Validated; Region: PRK06116 1316932007221 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 1316932007222 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1316932007223 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 1316932007224 hypothetical protein; Provisional; Region: PRK05208 1316932007225 Nitroreductase-like family 1. A subfamily of the nitroreductase family containing uncharacterized proteins that are similar to nitroreductase. Nitroreductase catalyzes the reduction of nitroaromatic compounds such as nitrotoluenes, nitrofurans and...; Region: Nitroreductase_1; cd02137 1316932007226 dimer interface [polypeptide binding]; other site 1316932007227 FMN binding site [chemical binding]; other site 1316932007228 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SapF; COG4167 1316932007229 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1316932007230 Walker A/P-loop; other site 1316932007231 ATP binding site [chemical binding]; other site 1316932007232 Q-loop/lid; other site 1316932007233 ABC transporter signature motif; other site 1316932007234 Walker B; other site 1316932007235 D-loop; other site 1316932007236 H-loop/switch region; other site 1316932007237 fructose-bisphosphate aldolase; Provisional; Region: PRK09197 1316932007238 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 1316932007239 active site 1316932007240 intersubunit interface [polypeptide binding]; other site 1316932007241 zinc binding site [ion binding]; other site 1316932007242 Na+ binding site [ion binding]; other site 1316932007243 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 1316932007244 Phosphoglycerate kinase; Region: PGK; pfam00162 1316932007245 substrate binding site [chemical binding]; other site 1316932007246 hinge regions; other site 1316932007247 ADP binding site [chemical binding]; other site 1316932007248 catalytic site [active] 1316932007249 solute carrier 6 subfamily, Fusobacterium nucleatum Tyt1-like; solute-binding domain; Region: SLC6sbd_Tyt1-Like; cd10336 1316932007250 Na2 binding site [ion binding]; other site 1316932007251 putative substrate binding site 1 [chemical binding]; other site 1316932007252 Na binding site 1 [ion binding]; other site 1316932007253 putative substrate binding site 2 [chemical binding]; other site 1316932007254 D12 class N6 adenine-specific DNA methyltransferase; Region: MethyltransfD12; cl17344 1316932007255 Dehydroquinate synthase (DHQS) catalyzes the conversion of DAHP to DHQ in shikimate pathway for aromatic compounds synthesis; Region: DHQS; cd08195 1316932007256 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 1316932007257 active site 1316932007258 dimer interface [polypeptide binding]; other site 1316932007259 metal binding site [ion binding]; metal-binding site 1316932007260 shikimate kinase; Reviewed; Region: aroK; PRK00131 1316932007261 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 1316932007262 ADP binding site [chemical binding]; other site 1316932007263 magnesium binding site [ion binding]; other site 1316932007264 putative shikimate binding site; other site 1316932007265 penicillin-binding protein 1a; Provisional; Region: mrcA; PRK11636 1316932007266 Transglycosylase; Region: Transgly; pfam00912 1316932007267 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 1316932007268 Competence protein A; Region: Competence_A; pfam11104 1316932007269 type IV pilus secretin (or competence protein) PilQ; Region: IV_pilus_PilQ; TIGR02515 1316932007270 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 1316932007271 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 1316932007272 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 1316932007273 putative RNA binding site [nucleotide binding]; other site 1316932007274 thiamine monophosphate kinase; Provisional; Region: PRK05731 1316932007275 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 1316932007276 ATP binding site [chemical binding]; other site 1316932007277 dimerization interface [polypeptide binding]; other site 1316932007278 Phosphatidylglycerophosphatase A; a bacterial membrane-associated enzyme involved in lipid metabolism; Region: PgpA; cd06971 1316932007279 tetramer interfaces [polypeptide binding]; other site 1316932007280 binuclear metal-binding site [ion binding]; other site 1316932007281 LysE type translocator; Region: LysE; cl00565 1316932007282 Holliday junction DNA helicase RuvA; Reviewed; Region: ruvA; PRK00116 1316932007283 RuvA N terminal domain; Region: RuvA_N; pfam01330 1316932007284 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cl14786 1316932007285 helix-hairpin-helix signature motif; other site 1316932007286 RuvA, C-terminal domain; Region: RuvA_C; pfam07499 1316932007287 Holliday junction DNA helicase RuvB; Reviewed; Region: ruvB; PRK00080 1316932007288 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 1316932007289 Walker A motif; other site 1316932007290 ATP binding site [chemical binding]; other site 1316932007291 Walker B motif; other site 1316932007292 arginine finger; other site 1316932007293 Holliday junction DNA helicase ruvB C-terminus; Region: RuvB_C; pfam05491 1316932007294 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 1316932007295 dimer interface [polypeptide binding]; other site 1316932007296 conserved gate region; other site 1316932007297 putative PBP binding loops; other site 1316932007298 ABC-ATPase subunit interface; other site 1316932007299 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 1316932007300 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 1316932007301 dimer interface [polypeptide binding]; other site 1316932007302 conserved gate region; other site 1316932007303 putative PBP binding loops; other site 1316932007304 ABC-ATPase subunit interface; other site 1316932007305 putative ABC transporter arginine-biding protein; Provisional; Region: PRK15007 1316932007306 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 1316932007307 substrate binding pocket [chemical binding]; other site 1316932007308 membrane-bound complex binding site; other site 1316932007309 hinge residues; other site 1316932007310 arginine transporter ATP-binding subunit; Provisional; Region: artP; PRK11124 1316932007311 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 1316932007312 Walker A/P-loop; other site 1316932007313 ATP binding site [chemical binding]; other site 1316932007314 Q-loop/lid; other site 1316932007315 ABC transporter signature motif; other site 1316932007316 Walker B; other site 1316932007317 D-loop; other site 1316932007318 H-loop/switch region; other site 1316932007319 thiol:disulfide interchange protein precursor; Provisional; Region: dipZ; PRK00293 1316932007320 Disulphide bond corrector protein DsbC; Region: DsbC; pfam11412 1316932007321 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; cl15788 1316932007322 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 1316932007323 DsbD alpha interface [polypeptide binding]; other site 1316932007324 catalytic residues [active] 1316932007325 Protein of unknown function, DUF462; Region: DUF462; cl01190 1316932007326 Long-chain acyl-CoA synthetases (AMP-forming) [Lipid metabolism]; Region: FAA1; COG1022 1316932007327 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 1316932007328 Long-chain fatty acid CoA synthetases and Bubblegum-like very long-chain fatty acid CoA synthetases; Region: VL_LC_FACS_like; cd05907 1316932007329 acyl-activating enzyme (AAE) consensus motif; other site 1316932007330 putative AMP binding site [chemical binding]; other site 1316932007331 putative active site [active] 1316932007332 putative CoA binding site [chemical binding]; other site 1316932007333 This group of proteins belong to a large family of YjgF/YER057c/UK114-like proteins present in bacteria, archaea, and eukaryotes with no definitive function. The conserved domain is similar in structure to chorismate mutase but there is no sequence...; Region: YjgF_YER057c_UK114_like_2; cd06150 1316932007334 homotrimer interaction site [polypeptide binding]; other site 1316932007335 putative active site [active] 1316932007336 branched-chain amino acid aminotransferase; Provisional; Region: PRK13357 1316932007337 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 1316932007338 homodimer interface [polypeptide binding]; other site 1316932007339 substrate-cofactor binding pocket; other site 1316932007340 catalytic residue [active] 1316932007341 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 1316932007342 putative GSH binding site [chemical binding]; other site 1316932007343 catalytic residues [active] 1316932007344 recombination protein RecR; Reviewed; Region: recR; PRK00076 1316932007345 RecR protein; Region: RecR; pfam02132 1316932007346 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 1316932007347 putative active site [active] 1316932007348 putative metal-binding site [ion binding]; other site 1316932007349 tetramer interface [polypeptide binding]; other site 1316932007350 hypothetical protein; Validated; Region: PRK00153 1316932007351 recF protein; Region: recf; TIGR00611 1316932007352 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1316932007353 Walker A/P-loop; other site 1316932007354 ATP binding site [chemical binding]; other site 1316932007355 Q-loop/lid; other site 1316932007356 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1316932007357 ABC transporter signature motif; other site 1316932007358 Walker B; other site 1316932007359 D-loop; other site 1316932007360 H-loop/switch region; other site 1316932007361 bifunctional chorismate mutase/prephenate dehydrogenase; Provisional; Region: tyrA; PRK11199 1316932007362 chorismate mutase domain of T-protein; Region: CM_T; TIGR01799 1316932007363 arogenate dehydrogenase; Region: PLN02256 1316932007364 phospho-2-dehydro-3-deoxyheptonate aldolase; Provisional; Region: PRK12755 1316932007365 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 1316932007366 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 1316932007367 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 1316932007368 putative active site [active] 1316932007369 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 1316932007370 pyruvate kinase; Provisional; Region: PRK05826 1316932007371 domain interfaces; other site 1316932007372 active site 1316932007373 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 1316932007374 catalytic core [active] 1316932007375 tRNA-dihydrouridine synthase B; Provisional; Region: PRK10415 1316932007376 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 1316932007377 FMN binding site [chemical binding]; other site 1316932007378 active site 1316932007379 catalytic residues [active] 1316932007380 substrate binding site [chemical binding]; other site 1316932007381 Factor for inversion stimulation Fis, transcriptional activator [Transcription / DNA replication, recombination, and repair]; Region: Fis; COG2901 1316932007382 global DNA-binding transcriptional dual regulator Fis; Provisional; Region: fis; PRK00430 1316932007383 TonB-dependent lactoferrin and transferrin receptors; Region: TonB-tbp-lbp; TIGR01776 1316932007384 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 1316932007385 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 1316932007386 ligand-binding site [chemical binding]; other site 1316932007387 Transferrin binding protein-like solute binding protein; Region: Lipoprotein_5; pfam01298 1316932007388 DNA polymerase III, epsilon subunit and related 3'-5' exonucleases [DNA replication, recombination, and repair]; Region: DnaQ; COG0847 1316932007389 DEDDh 3'-5' exonuclease domain of RNase T; Region: RNaseT; cd06134 1316932007390 dimer interface [polypeptide binding]; other site 1316932007391 catalytic site [active] 1316932007392 putative active site [active] 1316932007393 putative substrate binding site [chemical binding]; other site 1316932007394 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 1316932007395 Glyoxalase I catalyzes the isomerization of the hemithioacetal, formed by a 2-oxoaldehyde and glutathione, to S-D-lactoylglutathione; Region: Glyoxalase_I; cd07233 1316932007396 dimer interface [polypeptide binding]; other site 1316932007397 active site 1316932007398 metal binding site [ion binding]; metal-binding site 1316932007399 glutathione binding site [chemical binding]; other site 1316932007400 Dicarboxylate transport; Region: DctA-YdbH; cl14674 1316932007401 Dicarboxylate transport; Region: DctA-YdbH; cl14674 1316932007402 YnbE-like lipoprotein; Region: Lipoprotein_19; pfam13617 1316932007403 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 1316932007404 catalytic center binding site [active] 1316932007405 ATP binding site [chemical binding]; other site 1316932007406 poly(A) polymerase; Region: pcnB; TIGR01942 1316932007407 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 1316932007408 active site 1316932007409 NTP binding site [chemical binding]; other site 1316932007410 metal binding triad [ion binding]; metal-binding site 1316932007411 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 1316932007412 Polymerase A arginine-rich C-terminus; Region: PolyA_pol_arg_C; pfam12626 1316932007413 Prokaryotic dksA/traR C4-type zinc finger; Region: zf-dskA_traR; cl00755 1316932007414 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 1316932007415 ABC-type thiamine transport system, periplasmic component [Coenzyme metabolism]; Region: TbpA; COG4143 1316932007416 hypothetical protein; Validated; Region: PRK06886 1316932007417 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 1316932007418 active site 1316932007419 Bacterial protein of unknown function (DUF937); Region: DUF937; cl01528 1316932007420 3-deoxy-manno-octulosonate cytidylyltransferase; Provisional; Region: PRK05450 1316932007421 CMP-KDO synthetase catalyzes the activation of KDO which is an essential component of the lipopolysaccharide; Region: CMP-KDO-Synthetase; cd02517 1316932007422 Ligand binding site; other site 1316932007423 oligomer interface; other site 1316932007424 thioredoxin reductase; Provisional; Region: PRK10262 1316932007425 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 1316932007426 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1316932007427 dihydroxyacetone kinase subunit DhaK; Provisional; Region: PRK11468 1316932007428 Dak1 domain; Region: Dak1; pfam02733 1316932007429 dihydroxyacetone kinase subunit DhaL; Provisional; Region: PRK10005 1316932007430 phosphotransferase mannnose-specific family component IIA; Provisional; Region: PRK14484 1316932007431 Thioredoxin domain-containing protein [Posttranslational modification, protein turnover, chaperones]; Region: COG3118 1316932007432 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 1316932007433 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 1316932007434 active site residue [active] 1316932007435 tonB-system energizer ExbB, group 2; Region: exbB2; TIGR02805 1316932007436 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 1316932007437 Biopolymer transport protein ExbD/TolR; Region: ExbD; cl00537 1316932007438 Gram-negative bacterial tonB protein; Region: TonB; pfam03544 1316932007439 putative sulfate transport protein CysZ; Validated; Region: PRK04949 1316932007440 cell division protein ZipA; Provisional; Region: PRK01741 1316932007441 ZipA, C-terminal FtsZ-binding domain; Region: ZipA_C; pfam04354 1316932007442 FtsZ protein binding site [polypeptide binding]; other site 1316932007443 NAD-dependent DNA ligase LigA; Validated; Region: ligA; PRK07956 1316932007444 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 1316932007445 nucleotide binding pocket [chemical binding]; other site 1316932007446 K-X-D-G motif; other site 1316932007447 catalytic site [active] 1316932007448 NAD-dependent DNA ligase OB-fold domain; Region: DNA_ligase_OB; pfam03120 1316932007449 NAD-dependent DNA ligase C4 zinc finger domain; Region: DNA_ligase_ZBD; pfam03119 1316932007450 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 1316932007451 Dimer interface [polypeptide binding]; other site 1316932007452 Mn2+ and Fe2+ transporters of the NRAMP family [Inorganic ion transport and metabolism]; Region: MntH; COG1914 1316932007453 Domain of unknown function (DUF4189); Region: DUF4189; pfam13827 1316932007454 3-oxoacyl-(acyl carrier protein) synthase I; Reviewed; Region: PRK07967 1316932007455 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 1316932007456 dimer interface [polypeptide binding]; other site 1316932007457 active site 1316932007458 Adenylate cyclase NT domain; Region: Adenyl_cycl_N; pfam12633 1316932007459 adenylate cyclase; Provisional; Region: cyaA; PRK09450 1316932007460 Adenylate cyclase, class-I; Region: Adenylate_cycl; pfam01295 1316932007461 glutathione-regulated potassium-efflux system protein KefB; Provisional; Region: PRK03659 1316932007462 transporter, monovalent cation:proton antiporter-2 (CPA2) family; Region: 2a37; TIGR00932 1316932007463 TrkA-N domain; Region: TrkA_N; pfam02254 1316932007464 maltose regulon periplasmic protein; Provisional; Region: PRK10564 1316932007465 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 1316932007466 trimer interface; other site 1316932007467 sugar binding site [chemical binding]; other site 1316932007468 maltose/maltodextrin transporter ATP-binding protein; Provisional; Region: PRK11000 1316932007469 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 1316932007470 Walker A/P-loop; other site 1316932007471 ATP binding site [chemical binding]; other site 1316932007472 Q-loop/lid; other site 1316932007473 ABC transporter signature motif; other site 1316932007474 Walker B; other site 1316932007475 D-loop; other site 1316932007476 H-loop/switch region; other site 1316932007477 TOBE domain; Region: TOBE_2; pfam08402 1316932007478 maltose ABC transporter periplasmic protein; Reviewed; Region: malE; PRK09474 1316932007479 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 1316932007480 HGTP anticodon binding domain, as found at the C-terminus of histidyl, glycyl, threonyl and prolyl tRNA synthetases, which are classified as a group of class II aminoacyl-tRNA synthetases (aaRS). In aaRSs, the anticodon binding domain is responsible for...; Region: HGTP_anticodon; cl00266 1316932007481 anticodon binding site; other site 1316932007482 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 1316932007483 dimer interface [polypeptide binding]; other site 1316932007484 conserved gate region; other site 1316932007485 putative PBP binding loops; other site 1316932007486 ABC-ATPase subunit interface; other site 1316932007487 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 1316932007488 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 1316932007489 dimer interface [polypeptide binding]; other site 1316932007490 conserved gate region; other site 1316932007491 putative PBP binding loops; other site 1316932007492 ABC-ATPase subunit interface; other site 1316932007493 alpha-amylase; Reviewed; Region: malS; PRK09505 1316932007494 Alpha amylase catalytic domain family; Region: AmyAc_family; cl07893 1316932007495 active site 1316932007496 catalytic site [active] 1316932007497 transcriptional regulator MalT; Provisional; Region: PRK04841 1316932007498 AAA ATPase domain; Region: AAA_16; pfam13191 1316932007499 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 1316932007500 DNA binding residues [nucleotide binding] 1316932007501 dimerization interface [polypeptide binding]; other site 1316932007502 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 1316932007503 homodimer interface [polypeptide binding]; other site 1316932007504 maltodextrin phosphorylase; Provisional; Region: PRK14985 1316932007505 active site pocket [active] 1316932007506 4-alpha-glucanotransferase; Provisional; Region: malQ; PRK11052 1316932007507 4-alpha-glucanotransferase [Carbohydrate transport and metabolism]; Region: MalQ; COG1640 1316932007508 putative transporter; Validated; Region: PRK03818 1316932007509 Predicted Permease Membrane Region; Region: Asp-Al_Ex; pfam06826 1316932007510 TrkA-C domain; Region: TrkA_C; pfam02080 1316932007511 TrkA-C domain; Region: TrkA_C; pfam02080 1316932007512 Predicted Permease Membrane Region; Region: Asp-Al_Ex; pfam06826 1316932007513 Predicted permease [General function prediction only]; Region: COG2056 1316932007514 Na+-H+ antiporter family; Region: Na_H_antiport_2; pfam13726 1316932007515 Predicted membrane protein [Function unknown]; Region: COG1288; cl17886 1316932007516 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 1316932007517 putative catalytic site [active] 1316932007518 putative phosphate binding site [ion binding]; other site 1316932007519 active site 1316932007520 metal binding site A [ion binding]; metal-binding site 1316932007521 DNA binding site [nucleotide binding] 1316932007522 putative AP binding site [nucleotide binding]; other site 1316932007523 putative metal binding site B [ion binding]; other site 1316932007524 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3117 1316932007525 Lipopolysaccharide-assembly, LptC-related; Region: LptC; pfam06835 1316932007526 OstA-like protein; Region: OstA; cl00844 1316932007527 lipopolysaccharide transport periplasmic protein LptA; Region: outer_YhbN_LptA; TIGR03002 1316932007528 ABC-type (unclassified) transport system, ATPase component [General function prediction only]; Region: YhbG; COG1137 1316932007529 ATP-binding cassette component of YhbG transport system; Region: ABC_YhbG; cd03218 1316932007530 Walker A/P-loop; other site 1316932007531 ATP binding site [chemical binding]; other site 1316932007532 Q-loop/lid; other site 1316932007533 ABC transporter signature motif; other site 1316932007534 Walker B; other site 1316932007535 D-loop; other site 1316932007536 H-loop/switch region; other site 1316932007537 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 1316932007538 active site 1316932007539 phosphorylation site [posttranslational modification] 1316932007540 glmZ(sRNA)-inactivating NTPase; Provisional; Region: PRK05416 1316932007541 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 1316932007542 Ubiquinone biosynthesis hydroxylase, UbiH/UbiF/VisC/COQ6 family; Region: Ubi-OHases; TIGR01988 1316932007543 cell division ABC transporter subunit FtsX; Provisional; Region: ftsX; PRK11026 1316932007544 putative protein insertion permease FtsX; Region: ftsX; TIGR00439 1316932007545 Predicted ATPase involved in cell division [Cell division and chromosome partitioning]; Region: FtsE; COG2884 1316932007546 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1316932007547 Walker A/P-loop; other site 1316932007548 ATP binding site [chemical binding]; other site 1316932007549 Q-loop/lid; other site 1316932007550 ABC transporter signature motif; other site 1316932007551 Walker B; other site 1316932007552 D-loop; other site 1316932007553 H-loop/switch region; other site 1316932007554 signal recognition particle-docking protein FtsY; Provisional; Region: PRK10416 1316932007555 SRP54-type protein, helical bundle domain; Region: SRP54_N; pfam02881 1316932007556 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 1316932007557 P loop; other site 1316932007558 GTP binding site [chemical binding]; other site 1316932007559 Conserved hypothetical protein 95; Region: Cons_hypoth95; pfam03602 1316932007560 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 1316932007561 S-adenosylmethionine binding site [chemical binding]; other site 1316932007562 dsDNA-mimic protein; Reviewed; Region: PRK05094 1316932007563 Flavin Reductases; Region: FlaRed; cl00801 1316932007564 tellurite resistance protein TehB; Provisional; Region: PRK12335 1316932007565 Uncharacterized protein/domain, possibly involved in tellurite resistance [Inorganic ion transport and metabolism]; Region: TehB; COG3615 1316932007566 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 1316932007567 S-adenosylmethionine binding site [chemical binding]; other site 1316932007568 phosphoribosylaminoimidazole synthetase; Provisional; Region: PRK05385 1316932007569 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 1316932007570 dimerization interface [polypeptide binding]; other site 1316932007571 putative ATP binding site [chemical binding]; other site 1316932007572 Protein of unknown function (DUF1294); Region: DUF1294; pfam06961 1316932007573 aspartate ammonia-lyase; Provisional; Region: aspA; PRK12273 1316932007574 Aspartase; Region: Aspartase; cd01357 1316932007575 active sites [active] 1316932007576 tetramer interface [polypeptide binding]; other site 1316932007577 ATP-dependent DNA helicase Rep; Region: rep; TIGR01074 1316932007578 Part of AAA domain; Region: AAA_19; pfam13245 1316932007579 Family description; Region: UvrD_C_2; pfam13538 1316932007580 putrescine/spermidine ABC transporter ATPase protein; Reviewed; Region: potA; PRK09452 1316932007581 ATP-binding cassette domain of the polyamine transporter; Region: ABC_PotA_N; cd03300 1316932007582 Walker A/P-loop; other site 1316932007583 ATP binding site [chemical binding]; other site 1316932007584 Q-loop/lid; other site 1316932007585 ABC transporter signature motif; other site 1316932007586 Walker B; other site 1316932007587 D-loop; other site 1316932007588 H-loop/switch region; other site 1316932007589 TOBE domain; Region: TOBE_2; pfam08402 1316932007590 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 1316932007591 dimer interface [polypeptide binding]; other site 1316932007592 conserved gate region; other site 1316932007593 putative PBP binding loops; other site 1316932007594 ABC-ATPase subunit interface; other site 1316932007595 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 1316932007596 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 1316932007597 dimer interface [polypeptide binding]; other site 1316932007598 conserved gate region; other site 1316932007599 putative PBP binding loops; other site 1316932007600 ABC-ATPase subunit interface; other site 1316932007601 oligopeptide transporter permease; Reviewed; Region: oppB; PRK09471 1316932007602 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 1316932007603 dimer interface [polypeptide binding]; other site 1316932007604 conserved gate region; other site 1316932007605 putative PBP binding loops; other site 1316932007606 ABC-ATPase subunit interface; other site 1316932007607 oligopeptide ABC transporter permease OppC; Provisional; Region: PRK15406 1316932007608 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 1316932007609 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 1316932007610 dimer interface [polypeptide binding]; other site 1316932007611 conserved gate region; other site 1316932007612 ABC-ATPase subunit interface; other site 1316932007613 ABC-type uncharacterized transport system, duplicated ATPase component [General function prediction only]; Region: COG4172 1316932007614 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1316932007615 Walker A/P-loop; other site 1316932007616 ATP binding site [chemical binding]; other site 1316932007617 Q-loop/lid; other site 1316932007618 ABC transporter signature motif; other site 1316932007619 Walker B; other site 1316932007620 D-loop; other site 1316932007621 H-loop/switch region; other site 1316932007622 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 1316932007623 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1316932007624 Walker A/P-loop; other site 1316932007625 ATP binding site [chemical binding]; other site 1316932007626 Q-loop/lid; other site 1316932007627 ABC transporter signature motif; other site 1316932007628 Walker B; other site 1316932007629 D-loop; other site 1316932007630 H-loop/switch region; other site 1316932007631 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 1316932007632 ABC-type hemin transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: ChuT; COG4558 1316932007633 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 1316932007634 intersubunit interface [polypeptide binding]; other site 1316932007635 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 1316932007636 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 1316932007637 ABC-ATPase subunit interface; other site 1316932007638 dimer interface [polypeptide binding]; other site 1316932007639 putative PBP binding regions; other site 1316932007640 ABC-type hemin transport system, ATPase component [Inorganic ion transport and metabolism]; Region: COG4559 1316932007641 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 1316932007642 Walker A/P-loop; other site 1316932007643 ATP binding site [chemical binding]; other site 1316932007644 Q-loop/lid; other site 1316932007645 ABC transporter signature motif; other site 1316932007646 Walker B; other site 1316932007647 D-loop; other site 1316932007648 H-loop/switch region; other site 1316932007649 phosphoribosylglycinamide formyltransferase; Reviewed; Region: purN; PRK05647 1316932007650 Phosphoribosylglycinamide formyltransferase (GAR transformylase, GART); Region: FMT_core_GART; cd08645 1316932007651 active site 1316932007652 substrate binding site [chemical binding]; other site 1316932007653 cosubstrate binding site; other site 1316932007654 catalytic site [active] 1316932007655 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 1316932007656 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 1316932007657 Protein of unknown function, DUF399; Region: DUF399; pfam04187 1316932007658 serine hydroxymethyltransferase; Reviewed; Region: glyA; PRK00011 1316932007659 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 1316932007660 dimer interface [polypeptide binding]; other site 1316932007661 active site 1316932007662 glycine-pyridoxal phosphate binding site [chemical binding]; other site 1316932007663 folate binding site [chemical binding]; other site 1316932007664 methionine synthase; Provisional; Region: PRK01207 1316932007665 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 1316932007666 substrate binding site [chemical binding]; other site 1316932007667 THF binding site; other site 1316932007668 zinc-binding site [ion binding]; other site 1316932007669 Domain of unknown function (DUF1852); Region: DUF1852; pfam08908 1316932007670 NAD kinase [Coenzyme metabolism]; Region: nadF; cl01255 1316932007671 inorganic polyphosphate/ATP-NAD kinase; Provisional; Region: ppnK; PRK02231 1316932007672 putative methyltransferase; Provisional; Region: PRK10864 1316932007673 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; smart00967 1316932007674 SpoU rRNA Methylase family; Region: SpoU_methylase; cl17307 1316932007675 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 1316932007676 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 1316932007677 active site 1316932007678 dimerization interface [polypeptide binding]; other site 1316932007679 1-deoxy-D-xylulose-5-phosphate synthase; Provisional; Region: PRK05444 1316932007680 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 1316932007681 TPP-binding site; other site 1316932007682 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 1316932007683 PYR/PP interface [polypeptide binding]; other site 1316932007684 dimer interface [polypeptide binding]; other site 1316932007685 TPP binding site [chemical binding]; other site 1316932007686 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 1316932007687 Carbon starvation protein, predicted membrane protein [Signal transduction mechanisms]; Region: CstA; COG1966 1316932007688 Carbon starvation protein CstA; Region: CstA; pfam02554 1316932007689 C-terminal domain on CstA (DUF4161); Region: DUF4161; pfam13722 1316932007690 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 1316932007691 active site 1316932007692 Type 1 glutamine amidotransferase (GATase1)-like domain found in proteins similar to Saccharomyces cerevisiae biotin-apoprotein ligase (ScBLP); Region: GATase1_ScBLP_like; cd03144 1316932007693 conserved cys residue [active] 1316932007694 BioY family; Region: BioY; pfam02632 1316932007695 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 1316932007696 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1316932007697 putative substrate translocation pore; other site 1316932007698 threonyl-tRNA synthetase; Reviewed; Region: thrS; PRK00413 1316932007699 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 1316932007700 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; pfam07973 1316932007701 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 1316932007702 active site 1316932007703 dimer interface [polypeptide binding]; other site 1316932007704 motif 1; other site 1316932007705 motif 2; other site 1316932007706 motif 3; other site 1316932007707 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 1316932007708 anticodon binding site; other site 1316932007709 outer membrane-specific lipoprotein transporter subunit LolE; Provisional; Region: PRK11146 1316932007710 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 1316932007711 FtsX-like permease family; Region: FtsX; pfam02687 1316932007712 lipoprotein releasing system, ATP-binding protein; Region: LolD_lipo_ex; TIGR02211 1316932007713 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 1316932007714 Walker A/P-loop; other site 1316932007715 ATP binding site [chemical binding]; other site 1316932007716 Q-loop/lid; other site 1316932007717 ABC transporter signature motif; other site 1316932007718 Walker B; other site 1316932007719 D-loop; other site 1316932007720 H-loop/switch region; other site 1316932007721 outer membrane-specific lipoprotein transporter subunit LolC; Provisional; Region: PRK10814 1316932007722 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 1316932007723 FtsX-like permease family; Region: FtsX; pfam02687 1316932007724 glycerate dehydrogenase; Provisional; Region: PRK06932 1316932007725 Putative D-isomer specific 2-hydroxyacid dehydrogenases; Region: 2-Hacid_dh_4; cd12162 1316932007726 putative ligand binding site [chemical binding]; other site 1316932007727 putative NAD binding site [chemical binding]; other site 1316932007728 catalytic site [active] 1316932007729 2-dehydro-3-deoxyphosphooctonate aldolase; Provisional; Region: PRK05198 1316932007730 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 1316932007731 Uncharacterized conserved protein [Function unknown]; Region: COG2912 1316932007732 Transglutaminase-like superfamily; Region: Transglut_core2; pfam13369 1316932007733 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 1316932007734 binding surface 1316932007735 TPR motif; other site 1316932007736 N5-glutamine S-adenosyl-L-methionine-dependent methyltransferase; Provisional; Region: PRK09328 1316932007737 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 1316932007738 Lipocalin-like domain; Region: Lipocalin_4; pfam13648 1316932007739 peptide chain release factor 1; Validated; Region: prfA; PRK00591 1316932007740 This domain is found in peptide chain release factors; Region: PCRF; smart00937 1316932007741 RF-1 domain; Region: RF-1; pfam00472 1316932007742 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 1316932007743 Glutamine amidotransferase class-I; Region: GATase; pfam00117 1316932007744 glutamine binding [chemical binding]; other site 1316932007745 catalytic triad [active] 1316932007746 Predicted nuclease of restriction endonuclease-like fold, RmuC family [General function prediction only]; Region: COG1322 1316932007747 RmuC family; Region: RmuC; pfam02646 1316932007748 para-aminobenzoate synthase component I; Validated; Region: PRK07093 1316932007749 hypothetical protein; Provisional; Region: PRK07101 1316932007750 recombinase A; Provisional; Region: recA; PRK09354 1316932007751 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 1316932007752 hexamer interface [polypeptide binding]; other site 1316932007753 Walker A motif; other site 1316932007754 ATP binding site [chemical binding]; other site 1316932007755 Walker B motif; other site 1316932007756 recombination regulator RecX; Reviewed; Region: recX; PRK00117 1316932007757 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 1316932007758 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 1316932007759 Zn-finger domain associated with topoisomerase type I [DNA replication, recombination, and repair]; Region: TopA; COG0551 1316932007760 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 1316932007761 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 1316932007762 Telomere recombination; Region: Sua5_yciO_yrdC; cl00305 1316932007763 shikimate 5-dehydrogenase; Reviewed; Region: aroE; PRK00258 1316932007764 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 1316932007765 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 1316932007766 shikimate binding site; other site 1316932007767 NAD(P) binding site [chemical binding]; other site 1316932007768 DNA-dependent helicase II; Provisional; Region: uvrD; PRK11773 1316932007769 Part of AAA domain; Region: AAA_19; pfam13245 1316932007770 Family description; Region: UvrD_C_2; pfam13538 1316932007771 Predicted nucleoside-diphosphate sugar epimerase [General function prediction only]; Region: COG1090 1316932007772 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1316932007773 NAD(P) binding site [chemical binding]; other site 1316932007774 active site 1316932007775 arginine repressor; Provisional; Region: PRK05066 1316932007776 Arginine repressor, DNA binding domain; Region: Arg_repressor; pfam01316 1316932007777 Arginine repressor, C-terminal domain; Region: Arg_repressor_C; pfam02863 1316932007778 malate dehydrogenase; Provisional; Region: PRK05086 1316932007779 Glyoxysomal and mitochondrial malate dehydrogenases; Region: MDH_glyoxysomal_mitochondrial; cd01337 1316932007780 NAD binding site [chemical binding]; other site 1316932007781 dimerization interface [polypeptide binding]; other site 1316932007782 Substrate binding site [chemical binding]; other site 1316932007783 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1666 1316932007784 Proteins similar to Escherichia coli YajQ; Region: YajQ_like; cd11740 1316932007785 phosphoserine phosphatase SerB; Region: serB; TIGR00338 1316932007786 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 1316932007787 motif I; other site 1316932007788 motif II; other site 1316932007789 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 1316932007790 Uncharacterized membrane protein affecting hemolysin expression [General function prediction only]; Region: AhpA; COG3726 1316932007791 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 1316932007792 rRNA binding site [nucleotide binding]; other site 1316932007793 predicted 30S ribosome binding site; other site 1316932007794 Predicted flavoproteins [General function prediction only]; Region: COG2081 1316932007795 putative FAD-binding dehydrogenase; Reviewed; Region: PRK12834 1316932007796 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 1316932007797 Uncharacterized conserved protein involved in intracellular sulfur reduction [Inorganic ion transport and metabolism]; Region: DsrE; COG1553 1316932007798 Xanthine/uracil/vitamin C permease [Nucleotide transport and metabolism]; Region: COG2252 1316932007799 Protein of unknown function (DUF3464); Region: DUF3464; pfam11947 1316932007800 aspartate-semialdehyde dehydrogenase; Provisional; Region: PRK06901 1316932007801 LexA regulated protein; Provisional; Region: PRK11675 1316932007802 flavodoxin FldA; Validated; Region: PRK09267 1316932007803 ferric uptake regulator; Provisional; Region: fur; PRK09462 1316932007804 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 1316932007805 metal binding site 2 [ion binding]; metal-binding site 1316932007806 putative DNA binding helix; other site 1316932007807 metal binding site 1 [ion binding]; metal-binding site 1316932007808 dimer interface [polypeptide binding]; other site 1316932007809 structural Zn2+ binding site [ion binding]; other site 1316932007810 Paraquat-inducible protein B [General function prediction only]; Region: PqiB; COG3008 1316932007811 mce related protein; Region: MCE; pfam02470 1316932007812 mce related protein; Region: MCE; pfam02470 1316932007813 Paraquat-inducible protein B [General function prediction only]; Region: PqiB; COG3008 1316932007814 mce related protein; Region: MCE; pfam02470 1316932007815 mce related protein; Region: MCE; pfam02470 1316932007816 mce related protein; Region: MCE; pfam02470 1316932007817 S-ribosylhomocysteinase; Provisional; Region: PRK02260 1316932007818 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 1316932007819 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 1316932007820 ATP-binding cassette domain of the bacterial lipid flippase and related proteins, subfamily C; Region: ABCC_MsbA; cd03251 1316932007821 Walker A/P-loop; other site 1316932007822 ATP binding site [chemical binding]; other site 1316932007823 Q-loop/lid; other site 1316932007824 ABC transporter signature motif; other site 1316932007825 Walker B; other site 1316932007826 D-loop; other site 1316932007827 H-loop/switch region; other site