-- dump date 20140619_082632 -- class Genbank::misc_feature -- table misc_feature_note -- id note 316385000001 bifunctional aspartokinase I/homoserine dehydrogenase I; Provisional; Region: thrA; PRK09436 316385000002 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 316385000003 putative catalytic residues [active] 316385000004 putative nucleotide binding site [chemical binding]; other site 316385000005 putative aspartate binding site [chemical binding]; other site 316385000006 ACT domains of the bifunctional enzyme aspartokinase (AK) - homoserine dehydrogenase (HSDH); Region: ACT_AKi-HSDH-ThrA-like_1; cd04921 316385000007 dimer interface [polypeptide binding]; other site 316385000008 putative threonine allosteric regulatory site; other site 316385000009 ACT domains of the bifunctional enzyme aspartokinase (AK) - homoserine dehydrogenase (HSDH); Region: ACT_AKi-HSDH-ThrA_2; cd04922 316385000010 putative threonine allosteric regulatory site; other site 316385000011 Homoserine dehydrogenase, NAD binding domain; Region: NAD_binding_3; pfam03447 316385000012 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 316385000013 homoserine kinase; Region: thrB; TIGR00191 316385000014 Protein of unknown function; Region: YhfT; pfam10797 316385000015 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 316385000016 Threonine synthase [Amino acid transport and metabolism]; Region: ThrC; COG0498 316385000017 Threonine synthase catalyzes the final step of threonine biosynthesis. The conversion of O-phosphohomoserine into threonine and inorganic phosphate is pyridoxal 5'-phosphate dependent. The Thr-synth_1 CD includes members from higher plants; Region: Thr-synth_2; cd01560 316385000018 pyridoxal 5'-phosphate binding site [chemical binding]; other site 316385000019 catalytic residue [active] 316385000020 Protein of unknown function (DUF2502); Region: DUF2502; pfam10697 316385000021 hypothetical protein; Validated; Region: PRK02101 316385000022 Na+/alanine symporter [Amino acid transport and metabolism]; Region: AlsT; COG1115 316385000023 Sodium:alanine symporter family; Region: Na_Ala_symp; pfam01235 316385000024 transaldolase-like protein; Provisional; Region: PTZ00411 316385000025 Transaldolases including both TalA and TalB; Region: Transaldolase_TalAB; cd00957 316385000026 active site 316385000027 dimer interface [polypeptide binding]; other site 316385000028 catalytic residue [active] 316385000029 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 316385000030 MPT binding site; other site 316385000031 trimer interface [polypeptide binding]; other site 316385000032 hypothetical protein; Provisional; Region: PRK10659 316385000033 hypothetical protein; Provisional; Region: PRK10236 316385000034 Domain of unknown function (DUF3944); Region: DUF3944; pfam13099 316385000035 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4735 316385000036 hypothetical protein; Provisional; Region: PRK10154 316385000037 molecular chaperone DnaK; Provisional; Region: dnaK; PRK00290 316385000038 Nucleotide-binding domain of human HSPA9, Escherichia coli DnaK, and similar proteins; Region: HSPA9-like_NBD; cd11733 316385000039 nucleotide binding site [chemical binding]; other site 316385000040 NEF interaction site [polypeptide binding]; other site 316385000041 SBD interface [polypeptide binding]; other site 316385000042 chaperone protein DnaJ; Provisional; Region: PRK10767 316385000043 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 316385000044 HSP70 interaction site [polypeptide binding]; other site 316385000045 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cl03262 316385000046 substrate binding site [polypeptide binding]; other site 316385000047 Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cd10719 316385000048 Zn binding sites [ion binding]; other site 316385000049 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 316385000050 dimer interface [polypeptide binding]; other site 316385000051 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 316385000052 FOG: Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3385 316385000053 Hok/gef family; Region: HOK_GEF; pfam01848 316385000054 Hok/gef family; Region: HOK_GEF; pfam01848 316385000055 pH-dependent sodium/proton antiporter; Reviewed; Region: nhaA; PRK09561 316385000056 transcriptional activator NhaR; Provisional; Region: nhaR; PRK11062 316385000057 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 316385000058 The C-terminal substrate binding domain of LysR-type transcriptional activator of the nhaA gene, encoding Na+/H+ antiporter, contains the type 2 periplasmic binding fold; Region: PBP2_NhaR; cd08429 316385000059 putative dimerization interface [polypeptide binding]; other site 316385000060 IS1 transposase; Region: DDE_Tnp_IS1; pfam03400 316385000061 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3677 316385000062 InsA N-terminal domain; Region: Zn_Tnp_IS1; pfam03811 316385000063 InsA C-terminal domain; Region: HTH_Tnp_IS1; pfam12759 316385000064 30S ribosomal protein S20; Reviewed; Region: rpsT; PRK00239 316385000065 Protein of unknown function (DUF2575); Region: DUF2575; pfam10837 316385000066 bifunctional riboflavin kinase/FMN adenylyltransferase; Reviewed; Region: PRK05627 316385000067 FAD synthetase, N-terminal domain of the bifunctional enzyme; Region: FAD_synthetase_N; cd02064 316385000068 active site 316385000069 Riboflavin kinase; Region: Flavokinase; smart00904 316385000070 isoleucyl-tRNA synthetase; Reviewed; Region: ileS; PRK05743 316385000071 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 316385000072 HIGH motif; other site 316385000073 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 316385000074 active site 316385000075 KMSKS motif; other site 316385000076 Anticodon-binding domain of bacterial and eukaryotic mitochondrial isoleucyl tRNA synthetases; Region: Anticodon_Ia_Ile_BEm; cd07960 316385000077 tRNA binding surface [nucleotide binding]; other site 316385000078 anticodon binding site; other site 316385000079 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 316385000080 lipoprotein signal peptidase; Reviewed; Region: lspA; PRK00376 316385000081 FKBP-type peptidyl-prolyl cis-trans isomerase; Provisional; Region: PRK15095 316385000082 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 316385000083 4-hydroxy-3-methylbut-2-enyl diphosphate reductase; Reviewed; Region: ispH; PRK01045 316385000084 4-Hydroxy-3-methylbut-2-enyl diphosphate reductase IspH [Lipid metabolism]; Region: lytB; COG0761 316385000085 nuc_hydro_IU_UC_XIUA: inosine-uridine preferring, xanthosine-inosine-uridine-adenosine-preferring and, uridine-cytidine preferring nucleoside hydrolases. Nucleoside hydrolases cleave the N-glycosidic bond in nucleosides generating ribose and the...; Region: nuc_hydro_IU_UC_XIUA; cd02651 316385000086 active site 316385000087 tetramer interface [polypeptide binding]; other site 316385000088 Dihydrodipicolinate reductase [Amino acid transport and metabolism]; Region: DapB; COG0289 316385000089 Dihydrodipicolinate reductase, N-terminus; Region: DapB_N; pfam01113 316385000090 Dihydrodipicolinate reductase, C-terminus; Region: DapB_C; pfam05173 316385000091 carbamoyl phosphate synthase small subunit; Reviewed; Region: PRK12564 316385000092 Carbamoyl-phosphate synthase small chain, CPSase domain; Region: CPSase_sm_chain; smart01097 316385000093 Small chain of the glutamine-dependent form of carbamoyl phosphate synthase, CPSase II; Region: GATase1_CPSase; cd01744 316385000094 catalytic site [active] 316385000095 subunit interface [polypeptide binding]; other site 316385000096 carbamoyl phosphate synthase large subunit; Reviewed; Region: carB; PRK05294 316385000097 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 316385000098 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 316385000099 Carbamoyl-phosphate synthetase large chain, oligomerisation domain; Region: CPSase_L_D3; pfam02787 316385000100 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 316385000101 ATP-grasp domain; Region: ATP-grasp_4; cl17255 316385000102 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 316385000103 IMP binding site; other site 316385000104 dimer interface [polypeptide binding]; other site 316385000105 interdomain contacts; other site 316385000106 partial ornithine binding site; other site 316385000107 DNA-binding transcriptional activator CaiF; Provisional; Region: PRK11476 316385000108 carnitine operon protein CaiE; Provisional; Region: PRK13627 316385000109 paaY-like: This group is composed by uncharacterized proteins with similarity to the protein product of the E. coli paaY gene, which is part of the paa gene cluster responsible for phenylacetic acid degradation. Proteins in this group are expected to...; Region: LbH_paaY_like; cd04745 316385000110 putative trimer interface [polypeptide binding]; other site 316385000111 putative metal binding site [ion binding]; other site 316385000112 carnitinyl-CoA dehydratase; Provisional; Region: PRK03580 316385000113 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 316385000114 substrate binding site [chemical binding]; other site 316385000115 oxyanion hole (OAH) forming residues; other site 316385000116 trimer interface [polypeptide binding]; other site 316385000117 putative crotonobetaine/carnitine-CoA ligase; Validated; Region: caiC; PRK08008 316385000118 Uncharacterized subfamily of fatty acid CoA ligase (FACL); Region: FACL_DitJ_like; cd05934 316385000119 acyl-activating enzyme (AAE) consensus motif; other site 316385000120 putative AMP binding site [chemical binding]; other site 316385000121 putative active site [active] 316385000122 putative CoA binding site [chemical binding]; other site 316385000123 crotonobetainyl-CoA:carnitine CoA-transferase; Provisional; Region: PRK03525 316385000124 CoA-transferase family III; Region: CoA_transf_3; pfam02515 316385000125 crotonobetainyl-CoA dehydrogenase; Validated; Region: PRK03354 316385000126 Acyl-CoA dehydrogenase; Region: ACAD; cd00567 316385000127 active site 316385000128 L-carnitine/gamma-butyrobetaine antiporter; Provisional; Region: PRK03356 316385000129 The electron transfer flavoprotein (ETF) serves as a specific electron acceptor for various mitochondrial dehydrogenases. ETF transfers electrons to the main respiratory chain via ETF-ubiquinone oxidoreductase. ETF is an heterodimer that consists of an...; Region: ETF_beta; cd01714 316385000130 Ligand binding site [chemical binding]; other site 316385000131 Electron transfer flavoprotein domain; Region: ETF; pfam01012 316385000132 putative electron transfer flavoprotein FixB; Provisional; Region: fixB; PRK03363 316385000133 The electron transfer flavoprotein (ETF) serves as a specific electron acceptor for various mitochondrial dehydrogenases. ETF transfers electrons to the main respiratory chain via ETF-ubiquinone oxidoreductase. ETF is an heterodimer that consists of an...; Region: ETF; cd01985 316385000134 Ligand binding site [chemical binding]; other site 316385000135 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 316385000136 putative oxidoreductase FixC; Provisional; Region: PRK10157 316385000137 ferredoxin-like protein FixX; Provisional; Region: PRK15449 316385000138 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 316385000139 Sugar (and other) transporter; Region: Sugar_tr; pfam00083 316385000140 putative substrate translocation pore; other site 316385000141 glutathione-regulated potassium-efflux system ancillary protein KefF; Provisional; Region: PRK00871 316385000142 glutathione-regulated potassium-efflux system protein KefC; Provisional; Region: PRK03562 316385000143 transporter, monovalent cation:proton antiporter-2 (CPA2) family; Region: 2a37; TIGR00932 316385000144 TrkA-N domain; Region: TrkA_N; pfam02254 316385000145 Dihydrofolate reductase [Coenzyme metabolism]; Region: FolA; COG0262 316385000146 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 316385000147 folate binding site [chemical binding]; other site 316385000148 NADP+ binding site [chemical binding]; other site 316385000149 bis(5'-nucleosyl)-tetraphosphatase (symmetrical); Region: apaH; TIGR00668 316385000150 Escherichia coli ApaH and related proteins, metallophosphatase domain; Region: MPP_ApaH; cd07422 316385000151 active site 316385000152 metal binding site [ion binding]; metal-binding site 316385000153 CO2+/MG2+ efflux protein ApaG; Reviewed; Region: apaG; PRK05461 316385000154 16S ribosomal RNA methyltransferase KsgA/Dim1 family protein; Reviewed; Region: ksgA; PRK00274 316385000155 Dimethyladenosine transferase (rRNA methylation) [Translation, ribosomal structure and biogenesis]; Region: KsgA; COG0030 316385000156 4-hydroxythreonine-4-phosphate dehydrogenase; Reviewed; Region: pdxA; PRK00232 316385000157 4-hydroxythreonine-4-phosphate dehydrogenase; Validated; Region: pdxA; PRK03743 316385000158 peptidyl-prolyl cis-trans isomerase SurA; Provisional; Region: PRK10770 316385000159 SurA N-terminal domain; Region: SurA_N; pfam09312 316385000160 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 316385000161 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 316385000162 LPS assembly outer membrane complex protein LptD; Provisional; Region: PRK03761 316385000163 OstA-like protein; Region: OstA; pfam03968 316385000164 Organic solvent tolerance protein; Region: OstA_C; pfam04453 316385000165 Dna-J like membrane chaperone protein; Provisional; Region: djlA; PRK09430 316385000166 N-terminal tellurium resistance protein terB-like domain of heat shock DnaJ-like proteins; Region: terB_like_DjlA; cd07316 316385000167 putative metal binding site [ion binding]; other site 316385000168 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 316385000169 HSP70 interaction site [polypeptide binding]; other site 316385000170 predicted protein (pseudogene) 316385000171 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 316385000172 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 316385000173 active site 316385000174 RNA polymerase-associated helicase protein (pseudogene); this gene is disrupted by del(araA-leu)7697 between codons 295 and 296, deleting the N-terminal 886 nucleotides 316385000175 these residues flank a 25896 bp region of the E. coli K-12 genome deleted in this allele; the deleted residues correspond to 62379..88274 in MG1655 version m56 316385000176 DNA-binding transcriptional dual regulator (pseudogene); this gene is disrupted by del(araA-leu)7697 between codons 82 and 83, deleting the N-terminal 247 nucleotides 316385000177 mraZ protein; Region: TIGR00242 316385000178 MraZ protein; Region: MraZ; pfam02381 316385000179 MraZ protein; Region: MraZ; pfam02381 316385000180 16S rRNA (cytosine(1402)-N(4))-methyltransferase; Region: TIGR00006 316385000181 16S rRNA m(4)C1402 methyltranserfase; Provisional; Region: PRK00050 316385000182 cell division protein FtsL; Provisional; Region: PRK10772 316385000183 peptidoglycan synthase FtsI; Provisional; Region: PRK15105 316385000184 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 316385000185 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 316385000186 UDP-N-acetylmuramoylalanyl-D-glutamate--2, 6-diaminopimelate ligase; Provisional; Region: murE; PRK00139 316385000187 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 316385000188 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 316385000189 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 316385000190 UDP-N-acetylmuramoyl-tripeptide--D-alanyl-D-alanine ligase; Reviewed; Region: murF; PRK10773 316385000191 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 316385000192 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 316385000193 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 316385000194 phospho-N-acetylmuramoyl-pentapeptide-transferase; Provisional; Region: mraY; PRK00108 316385000195 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 316385000196 Mg++ binding site [ion binding]; other site 316385000197 putative catalytic motif [active] 316385000198 putative substrate binding site [chemical binding]; other site 316385000199 UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase; Provisional; Region: murD; PRK03806 316385000200 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 316385000201 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 316385000202 cell division protein FtsW; Provisional; Region: PRK10774 316385000203 undecaprenyldiphospho-muramoylpentapeptide beta-N- acetylglucosaminyltransferase; Provisional; Region: murG; PRK00726 316385000204 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 316385000205 active site 316385000206 homodimer interface [polypeptide binding]; other site 316385000207 UDP-N-acetylmuramate--L-alanine ligase; Provisional; Region: murC; PRK00421 316385000208 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 316385000209 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 316385000210 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 316385000211 D-alanine--D-alanine ligase; Reviewed; Region: ddl; PRK01372 316385000212 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 316385000213 D-ala D-ala ligase C-terminus; Region: Dala_Dala_lig_C; pfam07478 316385000214 cell division protein FtsQ; Provisional; Region: PRK10775 316385000215 POTRA domain, FtsQ-type; Region: POTRA_1; pfam08478 316385000216 Cell division protein FtsQ; Region: FtsQ; pfam03799 316385000217 cell division protein FtsA; Reviewed; Region: ftsA; PRK09472 316385000218 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 316385000219 Cell division protein FtsA; Region: FtsA; pfam14450 316385000220 cell division protein FtsZ; Validated; Region: PRK09330 316385000221 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 316385000222 nucleotide binding site [chemical binding]; other site 316385000223 SulA interaction site; other site 316385000224 UDP-3-O-[3-hydroxymyristoyl] N-acetylglucosamine deacetylase; Reviewed; Region: lpxC; PRK13186 316385000225 UDP-3-O-acyl N-acetylglycosamine deacetylase; Region: LpxC; pfam03331 316385000226 SecA regulator SecM; Provisional; Region: PRK02943 316385000227 preprotein translocase subunit SecA; Reviewed; Region: PRK12904 316385000228 SecA preprotein cross-linking domain; Region: SecA_PP_bind; smart00958 316385000229 SEC-C motif; Region: SEC-C; pfam02810 316385000230 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 316385000231 active site 316385000232 8-oxo-dGMP binding site [chemical binding]; other site 316385000233 nudix motif; other site 316385000234 metal binding site [ion binding]; metal-binding site 316385000235 DNA gyrase inhibitor; Reviewed; Region: PRK00418 316385000236 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4582 316385000237 Dephospho-CoA kinase [Coenzyme metabolism]; Region: CoaE; COG0237 316385000238 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 316385000239 CoA-binding site [chemical binding]; other site 316385000240 ATP-binding [chemical binding]; other site 316385000241 guanosine 5'-monophosphate oxidoreductase; Provisional; Region: PRK05096 316385000242 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 316385000243 active site 316385000244 type IV pilin biogenesis protein; Provisional; Region: PRK10573 316385000245 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 316385000246 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 316385000247 hypothetical protein; Provisional; Region: PRK10436 316385000248 PulE/GspE The type II secretory pathway is the main terminal branch of the general secretory pathway (GSP). It is responsible for the export the majority of Gram-negative bacterial exoenzymes and toxins. PulE is a cytoplasmic protein of the GSP, which...; Region: PulE-GspE; cd01129 316385000249 Walker A motif; other site 316385000250 ATP binding site [chemical binding]; other site 316385000251 Walker B motif; other site 316385000252 putative major pilin subunit; Provisional; Region: PRK10574 316385000253 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; pfam13544 316385000254 Pilin (bacterial filament); Region: Pilin; pfam00114 316385000255 quinolinate phosphoribosyltransferase; Validated; Region: PRK09016 316385000256 Quinolinate phosphoribosyl transferase (QAPRTase or QPRTase), also called nicotinate-nucleotide pyrophosphorylase, is involved in the de novo synthesis of NAD in both prokaryotes and eukaryotes. It catalyses the reaction of quinolinic acid (QA) with...; Region: QPRTase; cd01572 316385000257 dimerization interface [polypeptide binding]; other site 316385000258 active site 316385000259 N-acetyl-anhydromuramyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: ampD; COG3023 316385000260 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 316385000261 amidase catalytic site [active] 316385000262 Zn binding residues [ion binding]; other site 316385000263 substrate binding site [chemical binding]; other site 316385000264 regulatory protein AmpE; Provisional; Region: PRK10987 316385000265 aromatic amino acid transporter; Provisional; Region: PRK10238 316385000266 Transcriptional regulators [Transcription]; Region: FadR; COG2186 316385000267 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 316385000268 DNA-binding site [nucleotide binding]; DNA binding site 316385000269 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 316385000270 pyruvate dehydrogenase subunit E1; Reviewed; Region: aceE; PRK09405 316385000271 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 316385000272 dimer interface [polypeptide binding]; other site 316385000273 TPP-binding site [chemical binding]; other site 316385000274 pyruvate dehydrogenase dihydrolipoyltransacetylase; Validated; Region: aceF; PRK11854 316385000275 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 316385000276 E3 interaction surface; other site 316385000277 lipoyl attachment site [posttranslational modification]; other site 316385000278 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 316385000279 E3 interaction surface; other site 316385000280 lipoyl attachment site [posttranslational modification]; other site 316385000281 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 316385000282 E3 interaction surface; other site 316385000283 lipoyl attachment site [posttranslational modification]; other site 316385000284 e3 binding domain; Region: E3_binding; pfam02817 316385000285 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 316385000286 dihydrolipoamide dehydrogenase; Reviewed; Region: PRK06467 316385000287 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 316385000288 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 316385000289 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 316385000290 Protein of unknown function (DUF3300); Region: DUF3300; pfam11737 316385000291 Protein of unknown function (DUF3106); Region: DUF3106; pfam11304 316385000292 CpxP component of the bacterial Cpx-two-component system and related proteins; Region: CpxP_like; cl01482 316385000293 bifunctional aconitate hydratase 2/2-methylisocitrate dehydratase; Validated; Region: PRK09238 316385000294 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 316385000295 substrate binding site [chemical binding]; other site 316385000296 Aconitate hydratase B catalyses the formation of cis-aconitate from citrate as part of the TCA cycle; Region: AcnB; cd01581 316385000297 substrate binding site [chemical binding]; other site 316385000298 ligand binding site [chemical binding]; other site 316385000299 hypothetical protein; Provisional; Region: PRK05248 316385000300 S-adenosylmethionine decarboxylase; Provisional; Region: PRK05462 316385000301 spermidine synthase; Provisional; Region: PRK00811 316385000302 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 316385000303 S-adenosylmethionine binding site [chemical binding]; other site 316385000304 Bacterial chaperone lipoprotein (PulS_OutS); Region: PulS_OutS; cl09898 316385000305 multicopper oxidase; Provisional; Region: PRK10965 316385000306 Multicopper oxidase; Region: Cu-oxidase_3; pfam07732 316385000307 Multicopper oxidase; Region: Cu-oxidase; pfam00394 316385000308 Multicopper oxidase; Region: Cu-oxidase_2; pfam07731 316385000309 membrane-bound PQQ-dependent dehydrogenase, glucose/quinate/shikimate family; Region: PQQ_membr_DH; TIGR03074 316385000310 Membrane-bound PQQ-dependent glucose dehydrogenase; Region: PQQ_mGDH; cd10280 316385000311 Trp docking motif [polypeptide binding]; other site 316385000312 putative active site [active] 316385000313 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 316385000314 active site 316385000315 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 316385000316 active site clefts [active] 316385000317 zinc binding site [ion binding]; other site 316385000318 dimer interface [polypeptide binding]; other site 316385000319 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 316385000320 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 316385000321 Walker A/P-loop; other site 316385000322 ATP binding site [chemical binding]; other site 316385000323 Q-loop/lid; other site 316385000324 ABC transporter signature motif; other site 316385000325 Walker B; other site 316385000326 D-loop; other site 316385000327 H-loop/switch region; other site 316385000328 inner membrane transport permease; Provisional; Region: PRK15066 316385000329 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 316385000330 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 316385000331 active pocket/dimerization site; other site 316385000332 active site 316385000333 phosphorylation site [posttranslational modification] 316385000334 Putative catalytic polysaccharide deacetylase domain of uncharacterized protein yadE and similar proteins; Region: CE4_yadE_5s; cd10966 316385000335 putative active site [active] 316385000336 putative metal binding site [ion binding]; other site 316385000337 Aspartate alpha-decarboxylase or L-aspartate 1-decarboxylase, a pyruvoyl group-dependent decarboxylase in beta-alanine production; Region: Asp_decarbox; cd06919 316385000338 tetramerization interface [polypeptide binding]; other site 316385000339 active site 316385000340 Uncharacterized conserved protein [Function unknown]; Region: COG5464 316385000341 Putative transposase, YhgA-like; Region: Transposase_31; pfam04754 316385000342 pantoate--beta-alanine ligase; Region: panC; TIGR00018 316385000343 Pantoate-beta-alanine ligase; Region: PanC; cd00560 316385000344 active site 316385000345 ATP-binding site [chemical binding]; other site 316385000346 pantoate-binding site; other site 316385000347 HXXH motif; other site 316385000348 Ketopantoate hydroxymethyltransferase (KPHMT) is the first enzyme in the pantothenate biosynthesis pathway. Ketopantoate hydroxymethyltransferase (KPHMT) catalyzes the first committed step in the biosynthesis of pantothenate (vitamin B5), which is a...; Region: KPHMT-like; cd06557 316385000349 oligomerization interface [polypeptide binding]; other site 316385000350 active site 316385000351 metal binding site [ion binding]; metal-binding site 316385000352 putative fimbrial-like adhesin protein; Provisional; Region: PRK09723 316385000353 putative fimbrial protein StaF; Provisional; Region: PRK15262 316385000354 putative fimbrial protein StaE; Provisional; Region: PRK15263 316385000355 Fimbrial protein; Region: Fimbrial; cl01416 316385000356 putative fimbrial outer membrane usher protein; Provisional; Region: PRK09828 316385000357 PapC N-terminal domain; Region: PapC_N; pfam13954 316385000358 Type VII secretion system (T7SS), usher protein; Region: Usher; pfam00577 316385000359 PapC C-terminal domain; Region: PapC_C; pfam13953 316385000360 putative chaperone protein EcpD; Provisional; Region: PRK09926 316385000361 Gram-negative pili assembly chaperone, N-terminal domain; Region: Pili_assembly_N; pfam00345 316385000362 Gram-negative pili assembly chaperone, C-terminal domain; Region: Pili_assembly_C; pfam02753 316385000363 Fimbrial protein; Region: Fimbrial; cl01416 316385000364 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 316385000365 catalytic center binding site [active] 316385000366 ATP binding site [chemical binding]; other site 316385000367 poly(A) polymerase I; Provisional; Region: pcnB; PRK11623 316385000368 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 316385000369 active site 316385000370 NTP binding site [chemical binding]; other site 316385000371 metal binding triad [ion binding]; metal-binding site 316385000372 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 316385000373 Polymerase A arginine-rich C-terminus; Region: PolyA_pol_arg_C; pfam12626 316385000374 glutamyl-Q tRNA(Asp) synthetase; Reviewed; Region: PRK05710 316385000375 tRNA synthetases class I (E and Q), catalytic domain; Region: tRNA-synt_1c; pfam00749 316385000376 active site 316385000377 nucleotide binding site [chemical binding]; other site 316385000378 HIGH motif; other site 316385000379 KMSKS motif; other site 316385000380 RNA polymerase-binding transcription factor; Provisional; Region: dksA; PRK10778 316385000381 putative DNA-binding transcriptional regulator; Reviewed; Region: PRK00347 316385000382 2'-5' RNA ligase; Provisional; Region: PRK15124 316385000383 LigT like Phosphoesterase; Region: LigT_PEase; pfam02834 316385000384 LigT like Phosphoesterase; Region: LigT_PEase; pfam02834 316385000385 ATP-dependent RNA helicase HrpB; Provisional; Region: PRK11664 316385000386 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 316385000387 ATP binding site [chemical binding]; other site 316385000388 putative Mg++ binding site [ion binding]; other site 316385000389 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 316385000390 nucleotide binding region [chemical binding]; other site 316385000391 ATP-binding site [chemical binding]; other site 316385000392 Helicase associated domain (HA2) Add an annotation; Region: HA2; smart00847 316385000393 ATP-dependent helicase C-terminal; Region: HrpB_C; pfam08482 316385000394 bifunctional glycosyl transferase/transpeptidase; Reviewed; Region: mrcB; PRK09506 316385000395 Transglycosylase; Region: Transgly; pfam00912 316385000396 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 316385000397 ferrichrome outer membrane transporter; Provisional; Region: PRK10044 316385000398 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 316385000399 N-terminal plug; other site 316385000400 ligand-binding site [chemical binding]; other site 316385000401 iron-hydroxamate transporter ATP-binding subunit; Provisional; Region: PRK10575 316385000402 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 316385000403 Walker A/P-loop; other site 316385000404 ATP binding site [chemical binding]; other site 316385000405 Q-loop/lid; other site 316385000406 ABC transporter signature motif; other site 316385000407 Walker B; other site 316385000408 D-loop; other site 316385000409 H-loop/switch region; other site 316385000410 Fe3+-siderophore binding domain FhuD. These proteins have been shown to function as initial receptors in ABC transport of Fe3+-siderophores in many eubacterial species. They belong to the TroA-like superfamily of helical backbone metal receptor proteins...; Region: FhuD; cd01146 316385000411 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 316385000412 siderophore binding site; other site 316385000413 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 316385000414 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 316385000415 ABC-ATPase subunit interface; other site 316385000416 dimer interface [polypeptide binding]; other site 316385000417 putative PBP binding regions; other site 316385000418 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 316385000419 ABC-ATPase subunit interface; other site 316385000420 dimer interface [polypeptide binding]; other site 316385000421 putative PBP binding regions; other site 316385000422 glutamate-1-semialdehyde aminotransferase; Provisional; Region: PRK00062 316385000423 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 316385000424 inhibitor-cofactor binding pocket; inhibition site 316385000425 pyridoxal 5'-phosphate binding site [chemical binding]; other site 316385000426 catalytic residue [active] 316385000427 Chloride channel protein EriC [Inorganic ion transport and metabolism]; Region: EriC; COG0038 316385000428 ClC chloride channel EriC. This domain is found in the EriC chloride transporters that mediate the extreme acid resistance response in eubacteria and archaea. This response allows bacteria to survive in the acidic environments by decarboxylation-linked...; Region: EriC; cd01031 316385000429 Cl- selectivity filter; other site 316385000430 Cl- binding residues [ion binding]; other site 316385000431 pore gating glutamate residue; other site 316385000432 dimer interface [polypeptide binding]; other site 316385000433 H+/Cl- coupling transport residue; other site 316385000434 iron-sulfur cluster insertion protein ErpA; Provisional; Region: PRK13623 316385000435 hypothetical protein; Provisional; Region: PRK10578 316385000436 UPF0126 domain; Region: UPF0126; pfam03458 316385000437 UPF0126 domain; Region: UPF0126; pfam03458 316385000438 vitamin B12-transporter protein BtuF; Provisional; Region: PRK03379 316385000439 Cobalamin binding protein BtuF. These proteins have been shown to function as initial receptors in ABC transport of vitamin B12 (cobalamin) in eubacterial and some archaeal species. They belong to the TroA superfamily of helical backbone metal receptor...; Region: BtuF; cd01144 316385000440 cobalamin binding residues [chemical binding]; other site 316385000441 putative BtuC binding residues; other site 316385000442 dimer interface [polypeptide binding]; other site 316385000443 5'-methylthioadenosine/S-adenosylhomocysteine nucleosidase; Validated; Region: PRK05584 316385000444 5'-methylthioadenosine/S-adenosylhomocysteine nucleosidase; Region: MTA/SAH-Nsdase; TIGR01704 316385000445 deoxyguanosinetriphosphate triphosphohydrolase; Provisional; Region: dgt; PRK04926 316385000446 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 316385000447 Zn2+ binding site [ion binding]; other site 316385000448 Mg2+ binding site [ion binding]; other site 316385000449 Phosphohydrolase-associated domain; Region: HD_assoc; pfam13286 316385000450 serine endoprotease; Provisional; Region: PRK10942 316385000451 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 316385000452 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 316385000453 protein binding site [polypeptide binding]; other site 316385000454 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 316385000455 carbohydrate diacid transcriptional activator CdaR; Provisional; Region: PRK11477 316385000456 Putative sugar diacid recognition; Region: Diacid_rec; pfam05651 316385000457 PucR C-terminal helix-turn-helix domain; Region: HTH_30; pfam13556 316385000458 hypothetical protein; Provisional; Region: PRK13677 316385000459 phosphodiesterase YaeI; Provisional; Region: PRK11340 316385000460 Bacillus subtilis YkuE and related proteins, C-terminal metallophosphatase domain; Region: MPP_YkuE_C; cd07385 316385000461 putative active site [active] 316385000462 putative metal binding site [ion binding]; other site 316385000463 2,3,4,5-tetrahydropyridine-2,6-carboxylate N-succinyltransferase; Provisional; Region: dapD; PRK11830 316385000464 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 316385000465 trimer interface [polypeptide binding]; other site 316385000466 active site 316385000467 substrate binding site [chemical binding]; other site 316385000468 CoA binding site [chemical binding]; other site 316385000469 PII uridylyl-transferase; Provisional; Region: PRK05007 316385000470 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 316385000471 metal binding triad; other site 316385000472 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 316385000473 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 316385000474 Zn2+ binding site [ion binding]; other site 316385000475 Mg2+ binding site [ion binding]; other site 316385000476 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 316385000477 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 316385000478 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 316385000479 active site 316385000480 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 316385000481 rRNA interaction site [nucleotide binding]; other site 316385000482 S8 interaction site; other site 316385000483 putative laminin-1 binding site; other site 316385000484 elongation factor Ts; Provisional; Region: tsf; PRK09377 316385000485 UBA/TS-N domain; Region: UBA; pfam00627 316385000486 Elongation factor TS; Region: EF_TS; pfam00889 316385000487 Elongation factor TS; Region: EF_TS; pfam00889 316385000488 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 316385000489 putative nucleotide binding site [chemical binding]; other site 316385000490 uridine monophosphate binding site [chemical binding]; other site 316385000491 homohexameric interface [polypeptide binding]; other site 316385000492 ribosome recycling factor; Reviewed; Region: frr; PRK00083 316385000493 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 316385000494 hinge region; other site 316385000495 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Provisional; Region: PRK05447 316385000496 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Region: DXP_reductoisom; pfam02670 316385000497 1-deoxy-D-xylulose 5-phosphate reductoisomerase C-terminal; Region: DXP_redisom_C; pfam08436 316385000498 DXP reductoisomerase C-terminal domain; Region: DXPR_C; pfam13288 316385000499 Undecaprenyl pyrophosphate synthase [Lipid metabolism]; Region: UppS; COG0020 316385000500 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 316385000501 catalytic residue [active] 316385000502 putative FPP diphosphate binding site; other site 316385000503 putative FPP binding hydrophobic cleft; other site 316385000504 dimer interface [polypeptide binding]; other site 316385000505 putative IPP diphosphate binding site; other site 316385000506 CDP-diglyceride synthase; Provisional; Region: cdsA; PRK11624 316385000507 CDP-diglyceride synthetase [Lipid metabolism]; Region: CdsA; COG0575 316385000508 zinc metallopeptidase RseP; Provisional; Region: PRK10779 316385000509 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 316385000510 active site 316385000511 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 316385000512 protein binding site [polypeptide binding]; other site 316385000513 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 316385000514 putative substrate binding region [chemical binding]; other site 316385000515 outer membrane protein assembly factor YaeT; Provisional; Region: PRK11067 316385000516 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 316385000517 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 316385000518 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 316385000519 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 316385000520 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 316385000521 Surface antigen; Region: Bac_surface_Ag; pfam01103 316385000522 periplasmic chaperone; Provisional; Region: PRK10780 316385000523 Outer membrane protein (OmpH-like); Region: OmpH; smart00935 316385000524 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase; Provisional; Region: lpxD; PRK00892 316385000525 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase, LpxD; Region: LpxD; pfam04613 316385000526 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 316385000527 trimer interface [polypeptide binding]; other site 316385000528 active site 316385000529 UDP-GlcNAc binding site [chemical binding]; other site 316385000530 lipid binding site [chemical binding]; lipid-binding site 316385000531 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 316385000532 UDP-N-acetylglucosamine acyltransferase; Provisional; Region: PRK05289 316385000533 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 316385000534 active site 316385000535 lipid-A-disaccharide synthase; Reviewed; Region: lpxB; PRK00025 316385000536 ipid-A-disaccharide synthase; Provisional; Region: PRK14089 316385000537 bacterial Ribonuclease HII-like; Region: RNase_HII_bacteria_HII_like; cd07182 316385000538 RNA/DNA hybrid binding site [nucleotide binding]; other site 316385000539 active site 316385000540 DNA polymerase III subunit alpha; Validated; Region: dnaE; PRK05673 316385000541 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III DnaE1; Region: PHP_PolIIIA_DnaE1; cd07433 316385000542 putative active site [active] 316385000543 putative PHP Thumb interface [polypeptide binding]; other site 316385000544 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 316385000545 generic binding surface II; other site 316385000546 generic binding surface I; other site 316385000547 acetyl-CoA carboxylase carboxyltransferase subunit alpha; Validated; Region: PRK05724 316385000548 acetyl-CoA carboxylase carboxyltransferase alpha subunit; Provisional; Region: accA; CHL00198 316385000549 lysine decarboxylase LdcC; Provisional; Region: PRK15399 316385000550 Orn/Lys/Arg decarboxylase, N-terminal domain; Region: OKR_DC_1_N; pfam03709 316385000551 Ornithine decarboxylase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD corresponds to ornithine decarboxylase (ODC), arginine decarboxylase (ADC) and lysine...; Region: Orn_deC_like; cd00615 316385000552 homodimer interface [polypeptide binding]; other site 316385000553 pyridoxal 5'-phosphate binding site [chemical binding]; other site 316385000554 catalytic residue [active] 316385000555 Orn/Lys/Arg decarboxylase, C-terminal domain; Region: OKR_DC_1_C; pfam03711 316385000556 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 316385000557 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 316385000558 putative metal binding site [ion binding]; other site 316385000559 tRNA(Ile)-lysidine synthetase; Provisional; Region: tilS; PRK10660 316385000560 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 316385000561 Ligand Binding Site [chemical binding]; other site 316385000562 TilS substrate binding domain; Region: TilS; pfam09179 316385000563 TilS substrate C-terminal domain; Region: TilS_C; pfam11734 316385000564 Rho-binding antiterminator; Provisional; Region: PRK11625 316385000565 hypothetical protein; Provisional; Region: PRK04964 316385000566 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4681 316385000567 hypothetical protein; Provisional; Region: PRK09256 316385000568 Protein chain release factor B [Translation, ribosomal structure and biogenesis]; Region: PrfB; COG1186 316385000569 lipoprotein involved with copper homeostasis and adhesion; Provisional; Region: PRK10523 316385000570 NlpE N-terminal domain; Region: NlpE; pfam04170 316385000571 hypothetical protein; Provisional; Region: PRK11479 316385000572 Orthopoxvirus protein of unknown function (DUF830); Region: DUF830; cl13998 316385000573 prolyl-tRNA synthetase; Provisional; Region: PRK09194 316385000574 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 316385000575 dimer interface [polypeptide binding]; other site 316385000576 motif 1; other site 316385000577 active site 316385000578 motif 2; other site 316385000579 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 316385000580 putative deacylase active site [active] 316385000581 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 316385000582 active site 316385000583 motif 3; other site 316385000584 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 316385000585 anticodon binding site; other site 316385000586 Escherichia coli YaeB and related proteins; Region: UPF0066; cd09281 316385000587 homodimer interaction site [polypeptide binding]; other site 316385000588 cofactor binding site; other site 316385000589 outer membrane lipoprotein; Reviewed; Region: rcsF; PRK10781 316385000590 DL-methionine transporter substrate-binding subunit; Provisional; Region: metQ; PRK11063 316385000591 lipoprotein, YaeC family; Region: TIGR00363 316385000592 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 316385000593 dimer interface [polypeptide binding]; other site 316385000594 conserved gate region; other site 316385000595 ABC-ATPase subunit interface; other site 316385000596 DL-methionine transporter ATP-binding subunit; Provisional; Region: metN; PRK11153 316385000597 ATP-binding cassette domain of methionine transporter; Region: ABC_MetN_methionine_transporter; cd03258 316385000598 Walker A/P-loop; other site 316385000599 ATP binding site [chemical binding]; other site 316385000600 Q-loop/lid; other site 316385000601 ABC transporter signature motif; other site 316385000602 Walker B; other site 316385000603 D-loop; other site 316385000604 H-loop/switch region; other site 316385000605 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 316385000606 D,D-heptose 1,7-bisphosphate phosphatase; Region: GmhB_yaeD; TIGR00213 316385000607 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 316385000608 active site 316385000609 motif I; other site 316385000610 motif II; other site 316385000611 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 316385000612 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 316385000613 active site 316385000614 catalytic tetrad [active] 316385000615 Transcriptional regulator [Transcription]; Region: LysR; COG0583 316385000616 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 316385000617 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA; cd08478 316385000618 putative effector binding pocket; other site 316385000619 dimerization interface [polypeptide binding]; other site 316385000620 hypothetical protein; Provisional; Region: PRK05421 316385000621 putative catalytic site [active] 316385000622 putative metal binding site [ion binding]; other site 316385000623 putative phosphate binding site [ion binding]; other site 316385000624 putative catalytic site [active] 316385000625 putative phosphate binding site [ion binding]; other site 316385000626 putative metal binding site [ion binding]; other site 316385000627 Methyltransferase domain; Region: Methyltransf_31; pfam13847 316385000628 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 316385000629 S-adenosylmethionine binding site [chemical binding]; other site 316385000630 membrane-bound lytic murein transglycosylase D; Provisional; Region: mltD; PRK10783 316385000631 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 316385000632 N-acetyl-D-glucosamine binding site [chemical binding]; other site 316385000633 catalytic residue [active] 316385000634 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 316385000635 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 316385000636 hydroxyacylglutathione hydrolase; Provisional; Region: PRK10241 316385000637 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 316385000638 RNase HI family found mainly in prokaryotes; Region: RNase_HI_prokaryote_like; cd09278 316385000639 RNA/DNA hybrid binding site [nucleotide binding]; other site 316385000640 active site 316385000641 DNA polymerase III, epsilon subunit, Proteobacterial; Region: dnaQ_proteo; TIGR01406 316385000642 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 316385000643 active site 316385000644 catalytic site [active] 316385000645 substrate binding site [chemical binding]; other site 316385000646 predicted inner membrane protein (pseudogene); N-terminal deletion of codons 1-186 relative to yafU in Escherichia coli 101-1 (EAEC) (ASAP:BAB-0004423) 316385000647 conserved protein 316385000648 C-N hydrolase family amidase; Provisional; Region: PRK10438 316385000649 Xanthomonas campestris XC1258 and related proteins, members of the nitrilase superfamily (putative class 13 nitrilases); Region: Xc-1258_like; cd07575 316385000650 putative active site [active] 316385000651 catalytic triad [active] 316385000652 dimer interface [polypeptide binding]; other site 316385000653 multimer interface [polypeptide binding]; other site 316385000654 C-lysozyme inhibitor; Provisional; Region: PRK09993 316385000655 acyl-CoA dehydrogenase; Reviewed; Region: fadE; PRK09463 316385000656 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 316385000657 active site 316385000658 Domain of unknown function (DUF1974); Region: DUF1974; pfam09317 316385000659 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 316385000660 dimer interface [polypeptide binding]; other site 316385000661 active site 316385000662 Predicted glutamine amidotransferase [General function prediction only]; Region: COG0121 316385000663 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 316385000664 putative active site [active] 316385000665 putative dimer interface [polypeptide binding]; other site 316385000666 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3034 316385000667 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 316385000668 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3041 316385000669 RelB antitoxin; Region: RelB; pfam04221 316385000670 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 316385000671 NlpC/P60 family; Region: NLPC_P60; pfam00877 316385000672 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG1943 316385000673 flagellar system protein, promoterless fragment (pseudogene) 316385000674 flagellar system protein, promoterless fragment (pseudogene) 316385000675 DNA Polymerase IV/Kappa; Region: PolY_Pol_IV_kappa; cd03586 316385000676 active site 316385000677 DNA polymerase IV; Validated; Region: PRK02406 316385000678 DNA binding site [nucleotide binding] 316385000679 putative antitoxin of the YafO-YafN toxin-antitoxin system; Provisional; Region: PRK09778 316385000680 putative toxin YafO; Provisional; Region: PRK09885 316385000681 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 316385000682 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 316385000683 Coenzyme A binding pocket [chemical binding]; other site 316385000684 conserved protein (pseudogene) 316385000685 predicted peptide chain release factor (pseudogene) 316385000686 Xaa-His dipeptidase; Region: aa-his-dipept; TIGR01893 316385000687 M20 Peptidase D has specificity for beta-alanyl-L-histidine dipeptide; Region: M20_pepD; cd03890 316385000688 metal binding site [ion binding]; metal-binding site 316385000689 dimer interface [polypeptide binding]; other site 316385000690 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 316385000691 active site 316385000692 fermentation/respiration switch protein; Reviewed; Region: frsA; PRK05077 316385000693 DNA-binding transcriptional regulator Crl; Provisional; Region: PRK10984 316385000694 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 316385000695 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 316385000696 trimer interface [polypeptide binding]; other site 316385000697 eyelet of channel; other site 316385000698 gamma-glutamyl kinase; Provisional; Region: PRK05429 316385000699 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 316385000700 nucleotide binding site [chemical binding]; other site 316385000701 homotetrameric interface [polypeptide binding]; other site 316385000702 putative phosphate binding site [ion binding]; other site 316385000703 putative allosteric binding site; other site 316385000704 PUA domain; Region: PUA; pfam01472 316385000705 Gamma-glutamyl phosphate reductase (GPR), aldehyde dehydrogenase families 18 and 19; Region: ALDH_F18-19_ProA-GPR; cd07079 316385000706 gamma-glutamyl phosphate reductase; Region: proA; TIGR00407 316385000707 putative catalytic cysteine [active] 316385000708 Protein of unknown function (DUF1219); Region: DUF1219; pfam06755 316385000709 YagB/YeeU/YfjZ family; Region: YagB_YeeU_YfjZ; pfam06154 316385000710 Protein of unknown function (DUF987); Region: DUF987; pfam06174 316385000711 DNA repair proteins [DNA replication, recombination, and repair]; Region: RadC; COG2003 316385000712 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 316385000713 MPN+ (JAMM) motif; other site 316385000714 Zinc-binding site [ion binding]; other site 316385000715 Antirestriction protein; Region: Antirestrict; pfam03230 316385000716 Bacterial protein of unknown function (DUF905); Region: DUF905; pfam06006 316385000717 Predicted transcriptional regulator [Transcription]; Region: COG2378 316385000718 CP4-6 prophage; predicted inner membrane protein (pseudogene) 316385000719 CP4-6 prophage; predicted transcriptional regulator (pseudogene) 316385000720 Domain of unknown function (DUF932); Region: DUF932; pfam06067 316385000721 Predicted GTPase [General function prediction only]; Region: COG3596 316385000722 YfjP GTPase; Region: YfjP; cd11383 316385000723 G1 box; other site 316385000724 GTP/Mg2+ binding site [chemical binding]; other site 316385000725 Switch I region; other site 316385000726 G2 box; other site 316385000727 Switch II region; other site 316385000728 G3 box; other site 316385000729 G4 box; other site 316385000730 G5 box; other site 316385000731 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 316385000732 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 316385000733 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 316385000734 dimerization interface [polypeptide binding]; other site 316385000735 substrate binding pocket [chemical binding]; other site 316385000736 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 316385000737 Transposase; Region: HTH_Tnp_1; pfam01527 316385000738 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 316385000739 Helix-turn-helix domain; Region: HTH_38; pfam13936 316385000740 Integrase core domain; Region: rve; pfam00665 316385000741 HTH-like domain; Region: HTH_21; pfam13276 316385000742 CP4-6 prophage; putative retron-type reverse transcriptase (pseudogene); N-terminal fragment 316385000743 Transposase domain (DUF772); Region: DUF772; pfam05598 316385000744 Transposase and inactivated derivatives, IS5 family [DNA replication, recombination, and repair]; Region: COG3039 316385000745 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 316385000746 S-methylmethionine transporter; Provisional; Region: PRK11387 316385000747 homocysteine methyltransferase; Provisional; Region: mmuM; PRK09485 316385000748 Homocysteine S-methyltransferase; Region: S-methyl_trans; pfam02574 316385000749 ferric transporter ATP-binding subunit; Provisional; Region: fbpC; PRK11432 316385000750 ATP-binding cassette domain of the carbohydrate and solute transporters-like; Region: ABC_Carb_Solutes_like; cd03259 316385000751 Walker A/P-loop; other site 316385000752 ATP binding site [chemical binding]; other site 316385000753 Q-loop/lid; other site 316385000754 ABC transporter signature motif; other site 316385000755 Walker B; other site 316385000756 D-loop; other site 316385000757 H-loop/switch region; other site 316385000758 TOBE domain; Region: TOBE_2; pfam08402 316385000759 ABC-type Fe3+ transport system, permease component [Inorganic ion transport and metabolism]; Region: ThiP; COG1178 316385000760 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 316385000761 ABC-ATPase subunit interface; other site 316385000762 putative PBP binding loops; other site 316385000763 IS1 transposase; Region: DDE_Tnp_IS1; pfam03400 316385000764 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3677 316385000765 InsA N-terminal domain; Region: Zn_Tnp_IS1; pfam03811 316385000766 InsA C-terminal domain; Region: HTH_Tnp_IS1; pfam12759 316385000767 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 316385000768 Transposase; Region: HTH_Tnp_1; pfam01527 316385000769 YagB/YeeU/YfjZ family; Region: YagB_YeeU_YfjZ; pfam06154 316385000770 Helix-turn-helix domain; Region: HTH_28; pfam13518 316385000771 Homeodomain-like domain; Region: HTH_32; pfam13565 316385000772 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 316385000773 Integrase core domain; Region: rve; pfam00665 316385000774 Integrase core domain; Region: rve_3; pfam13683 316385000775 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 316385000776 Dihydrodipicolinate synthase family; Region: DHDPS-like; cd00408 316385000777 inhibitor site; inhibition site 316385000778 active site 316385000779 dimer interface [polypeptide binding]; other site 316385000780 catalytic residue [active] 316385000781 putative dehydratase; Provisional; Region: PRK08211 316385000782 Dihydroxyacid dehydratase/phosphogluconate dehydratase [Amino acid transport and metabolism / Carbohydrate transport and metabolism]; Region: IlvD; COG0129 316385000783 putative symporter YagG; Provisional; Region: PRK09669 316385000784 melibiose:sodium symporter; Provisional; Region: PRK10429; cl15392 316385000785 Beta-xylosidase [Carbohydrate transport and metabolism]; Region: XynB; COG3507 316385000786 Glycosyl hydrolase family 43, beta-D-xylosidase; Region: GH43_XYL_1; cd09000 316385000787 inhibitor binding site; inhibition site 316385000788 active site 316385000789 Protein of unknown function (DUF1349); Region: DUF1349; cl01397 316385000790 CP4-6 prophage; predicted DNA-binding transcriptional regulator (pseudogene); disrupted by IS150 insertion 316385000791 ornithine carbamoyltransferase subunit I; Provisional; Region: PRK03515 316385000792 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 316385000793 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 316385000794 IS1 transposase; Region: DDE_Tnp_IS1; pfam03400 316385000795 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3677 316385000796 InsA N-terminal domain; Region: Zn_Tnp_IS1; pfam03811 316385000797 InsA C-terminal domain; Region: HTH_Tnp_IS1; pfam12759 316385000798 Protein of unknown function (DUF3296); Region: DUF3296; pfam11726 316385000799 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 316385000800 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cl17315 316385000801 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 316385000802 active site 316385000803 DNA binding site [nucleotide binding] 316385000804 Int/Topo IB signature motif; other site 316385000805 Transcriptional regulator [Transcription]; Region: LysR; COG0583 316385000806 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 316385000807 Xanthine and CO dehydrogenases maturation factor, XdhC/CoxF family [Posttranslational modification, protein turnover, chaperones]; Region: XdhC; COG1975 316385000808 XdhC and CoxI family; Region: XdhC_CoxI; pfam02625 316385000809 XdhC Rossmann domain; Region: XdhC_C; pfam13478 316385000810 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 316385000811 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; pfam01315 316385000812 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 316385000813 Aerobic-type carbon monoxide dehydrogenase, middle subunit CoxM/CutM homologs [Energy production and conversion]; Region: CoxM; COG1319 316385000814 CO dehydrogenase flavoprotein C-terminal domain; Region: CO_deh_flav_C; smart01092 316385000815 aldehyde oxidoreductase 2Fe-2S subunit; Provisional; Region: PRK11433 316385000816 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2; pfam00111 316385000817 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_3; pfam13085 316385000818 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 316385000819 Predicted periplasmic/secreted protein [Function unknown]; Region: COG3477 316385000820 Predicted Fe-S-cluster oxidoreductase [General function prediction only]; Region: COG0727 316385000821 Type VII secretion system (T7SS), usher protein; Region: Usher; pfam00577 316385000822 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl17499 316385000823 putative fimbrial protein TcfA; Provisional; Region: PRK15308 316385000824 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 316385000825 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 316385000826 DNA binding residues [nucleotide binding] 316385000827 50S ribosomal protein L36; Validated; Region: rpmJ; PRK00831 316385000828 50S ribosomal protein L31 type B; Reviewed; Region: rpmE2; PRK01678 316385000829 Protein of unknown function (DUF3442); Region: DUF3442; pfam11924 316385000830 Transposase; Region: HTH_Tnp_1; cl17663 316385000831 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 316385000832 putative transposase OrfB; Reviewed; Region: PHA02517 316385000833 HTH-like domain; Region: HTH_21; pfam13276 316385000834 Integrase core domain; Region: rve; pfam00665 316385000835 Integrase core domain; Region: rve_2; pfam13333 316385000836 DNA-binding transcriptional regulator SoxS; Provisional; Region: PRK10219 316385000837 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 316385000838 Predicted membrane protein [Function unknown]; Region: COG3059 316385000839 Protein of unknown function (DUF1471); Region: DUF1471; pfam07338 316385000840 pyridine nucleotide-disulfide oxidoreductase; Provisional; Region: PRK08010 316385000841 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 316385000842 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 316385000843 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 316385000844 Cupin; Region: Cupin_6; pfam12852 316385000845 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 316385000846 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 316385000847 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 316385000848 Cysteine-rich domain; Region: CCG; pfam02754 316385000849 Cysteine-rich domain; Region: CCG; pfam02754 316385000850 iron-sulfur cluster-binding protein; Region: TIGR00273 316385000851 Uncharacterized ACR, YkgG family COG1556; Region: DUF162; pfam02589 316385000852 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 316385000853 Domain of unknown function (DUF3390); Region: DUF3390; pfam11870 316385000854 Uncharacterized conserved protein [Function unknown]; Region: COG1556 316385000855 G-rich domain on putative tyrosine kinase; Region: GNVR; pfam13807 316385000856 choline dehydrogenase; Validated; Region: PRK02106 316385000857 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 316385000858 betaine aldehyde dehydrogenase; Provisional; Region: PRK13252 316385000859 NAD+-dependent 4-trimethylaminobutyraldehyde dehydrogenase, ALDH family 9A1; Region: ALDH_F9_TMBADH; cd07090 316385000860 tetrameric interface [polypeptide binding]; other site 316385000861 NAD binding site [chemical binding]; other site 316385000862 catalytic residues [active] 316385000863 transcriptional regulator BetI; Validated; Region: PRK00767 316385000864 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 316385000865 Bacterial transcriptional repressor; Region: TetR_C_6; pfam13977 316385000866 choline transport protein BetT; Provisional; Region: PRK09928 316385000867 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 316385000868 DNA binding residues [nucleotide binding] 316385000869 dimerization interface [polypeptide binding]; other site 316385000870 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 316385000871 DNA-binding transcriptional activator AllS; Provisional; Region: PRK10094 316385000872 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 316385000873 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 316385000874 dimerization interface [polypeptide binding]; other site 316385000875 Protein of unknown function (DUF1097); Region: DUF1097; pfam06496 316385000876 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 316385000877 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 316385000878 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 316385000879 Protein of unknown function (DUF2877); Region: DUF2877; pfam11392 316385000880 Succinyl-CoA synthetase, alpha subunit [Energy production and conversion]; Region: SucD; COG0074 316385000881 CoA binding domain; Region: CoA_binding; pfam02629 316385000882 CoA-ligase; Region: Ligase_CoA; pfam00549 316385000883 these residues flank a 36219 bp region of the E. coli K-12 genome deleted in this allele; the deleted residues correspond to 338423..374641 in MG1655 version m56 316385000884 putative 3-hydroxyphenylpropionic transporter MhpT; Provisional; Region: PRK11551 316385000885 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 316385000886 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 316385000887 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3122 316385000888 S-formylglutathione hydrolase; Region: fghA_ester_D; TIGR02821 316385000889 S-formylglutathione hydrolase; Region: PLN02442 316385000890 class III alcohol dehydrogenases; Region: alcohol_DH_class_III; cd08300 316385000891 S-(hydroxymethyl)glutathione dehydrogenase/class III alcohol dehydrogenase; Region: adh_III_F_hyde; TIGR02818 316385000892 substrate binding site [chemical binding]; other site 316385000893 catalytic Zn binding site [ion binding]; other site 316385000894 NAD binding site [chemical binding]; other site 316385000895 structural Zn binding site [ion binding]; other site 316385000896 dimer interface [polypeptide binding]; other site 316385000897 Transcriptional regulators RcnR and FrmR, and related domains; this domain family was previously known as part of DUF156; Region: RcnR-FrmR-like_DUF156; cd10153 316385000898 putative metal binding site [ion binding]; other site 316385000899 putative homodimer interface [polypeptide binding]; other site 316385000900 putative homotetramer interface [polypeptide binding]; other site 316385000901 putative homodimer-homodimer interface [polypeptide binding]; other site 316385000902 putative allosteric switch controlling residues; other site 316385000903 predicted acyl transferase (pseudogene); interrupted by IS2 316385000904 IS2 repressor TnpA; Reviewed; Region: PRK09413 316385000905 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 316385000906 IS2 transposase TnpB; Reviewed; Region: PRK09409 316385000907 HTH-like domain; Region: HTH_21; pfam13276 316385000908 Integrase core domain; Region: rve; pfam00665 316385000909 Integrase core domain; Region: rve_3; pfam13683 316385000910 Glycosyltransferases, probably involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: COG1215 316385000911 CESA_like is the cellulose synthase superfamily; Region: CESA_like; cd06423 316385000912 DXD motif; other site 316385000913 Uncharacterized proteins, LmbE homologs [Function unknown]; Region: COG2120 316385000914 ABC-type taurine transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: TauA; COG4521 316385000915 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 316385000916 substrate binding pocket [chemical binding]; other site 316385000917 membrane-bound complex binding site; other site 316385000918 hinge residues; other site 316385000919 taurine transporter ATP-binding subunit; Provisional; Region: tauB; PRK11248 316385000920 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 316385000921 Walker A/P-loop; other site 316385000922 ATP binding site [chemical binding]; other site 316385000923 Q-loop/lid; other site 316385000924 ABC transporter signature motif; other site 316385000925 Walker B; other site 316385000926 D-loop; other site 316385000927 H-loop/switch region; other site 316385000928 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 316385000929 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 316385000930 dimer interface [polypeptide binding]; other site 316385000931 conserved gate region; other site 316385000932 putative PBP binding loops; other site 316385000933 ABC-ATPase subunit interface; other site 316385000934 Probable taurine catabolism dioxygenase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: TauD; COG2175 316385000935 taurine dioxygenase; Reviewed; Region: tauD; PRK09553 316385000936 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; cd00384 316385000937 dimer interface [polypeptide binding]; other site 316385000938 active site 316385000939 Schiff base residues; other site 316385000940 predicted autotransporter exported protein (pseudogene); interrupted by IS3 316385000941 putative transposase OrfB; Reviewed; Region: PHA02517 316385000942 HTH-like domain; Region: HTH_21; pfam13276 316385000943 Integrase core domain; Region: rve; pfam00665 316385000944 Integrase core domain; Region: rve_2; pfam13333 316385000945 Transposase; Region: HTH_Tnp_1; cl17663 316385000946 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 316385000947 putative DNA-binding transcriptional regulator; Provisional; Region: PRK11832 316385000948 beta-lactam binding protein AmpH; Provisional; Region: PRK10662 316385000949 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 316385000950 microcin B17 transporter; Reviewed; Region: PRK11098 316385000951 Protein of unknown function (DUF1615); Region: DUF1615; pfam07759 316385000952 Protein of unknown function (DUF2755); Region: DUF2755; pfam10954 316385000953 Protein of unknown function (DUF2754); Region: DUF2754; pfam10953 316385000954 D-alanyl-alanine synthetase A; Reviewed; Region: ddl; PRK01966 316385000955 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 316385000956 D-ala D-ala ligase C-terminus; Region: Dala_Dala_lig_C; pfam07478 316385000957 anti-RssB factor; Provisional; Region: PRK10244 316385000958 alkaline phosphatase; Provisional; Region: PRK10518 316385000959 Alkaline phosphatase homologues; alkaline phosphatases are non-specific phosphomonoesterases that catalyze the hydrolysis reaction via a phosphoseryl intermediate to produce inorganic phosphate and the corresponding alcohol, optimally at high pH; Region: alkPPc; cd00016 316385000960 dimer interface [polypeptide binding]; other site 316385000961 active site 316385000962 hypothetical protein; Provisional; Region: PRK11505 316385000963 psiF repeat; Region: PsiF_repeat; pfam07769 316385000964 psiF repeat; Region: PsiF_repeat; pfam07769 316385000965 diguanylate cyclase AdrA; Provisional; Region: adrA; PRK10245 316385000966 MASE2 domain; Region: MASE2; pfam05230 316385000967 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 316385000968 metal binding site [ion binding]; metal-binding site 316385000969 active site 316385000970 I-site; other site 316385000971 pyrroline-5-carboxylate reductase; Reviewed; Region: PRK11880 316385000972 pyrroline-5-carboxylate reductase; Region: PLN02688 316385000973 hypothetical protein; Validated; Region: PRK00124 316385000974 Shikimate kinase [Amino acid transport and metabolism]; Region: AroK; COG0703 316385000975 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 316385000976 ADP binding site [chemical binding]; other site 316385000977 magnesium binding site [ion binding]; other site 316385000978 putative shikimate binding site; other site 316385000979 hypothetical protein; Provisional; Region: PRK10380 316385000980 hypothetical protein; Provisional; Region: PRK10481 316385000981 hypothetical protein; Provisional; Region: PRK10579 316385000982 Protein of unknown function (DUF2773); Region: DUF2773; pfam10971 316385000983 DNA recombination-dependent growth factor C [DNA replication, recombination, and repair]; Region: RdgC; COG2974 316385000984 fructokinase; Reviewed; Region: PRK09557 316385000985 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 316385000986 nucleotide binding site [chemical binding]; other site 316385000987 MFS transport protein AraJ; Provisional; Region: PRK10091 316385000988 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 316385000989 putative substrate translocation pore; other site 316385000990 exonuclease subunit SbcC; Provisional; Region: PRK10246 316385000991 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 316385000992 Walker A/P-loop; other site 316385000993 ATP binding site [chemical binding]; other site 316385000994 Q-loop/lid; other site 316385000995 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 316385000996 ABC transporter signature motif; other site 316385000997 Walker B; other site 316385000998 D-loop; other site 316385000999 H-loop/switch region; other site 316385001000 exonuclease subunit SbcD; Provisional; Region: PRK10966 316385001001 Mre11 nuclease, N-terminal metallophosphatase domain; Region: MPP_Mre11_N; cd00840 316385001002 active site 316385001003 metal binding site [ion binding]; metal-binding site 316385001004 DNA binding site [nucleotide binding] 316385001005 Type 5 capsule protein repressor C-terminal domain; Region: SbcD_C; pfam12320 316385001006 transcriptional regulator PhoB; Provisional; Region: PRK10161 316385001007 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 316385001008 active site 316385001009 phosphorylation site [posttranslational modification] 316385001010 intermolecular recognition site; other site 316385001011 dimerization interface [polypeptide binding]; other site 316385001012 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 316385001013 DNA binding site [nucleotide binding] 316385001014 phosphate regulon sensor protein; Provisional; Region: phoR; PRK11006 316385001015 Domain of unknown function (DUF3329); Region: DUF3329; pfam11808 316385001016 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 316385001017 putative active site [active] 316385001018 heme pocket [chemical binding]; other site 316385001019 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 316385001020 dimer interface [polypeptide binding]; other site 316385001021 phosphorylation site [posttranslational modification] 316385001022 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 316385001023 ATP binding site [chemical binding]; other site 316385001024 Mg2+ binding site [ion binding]; other site 316385001025 G-X-G motif; other site 316385001026 branched-chain amino acid transport system 2 carrier protein BrnQ; Provisional; Region: PRK15433 316385001027 putative proline-specific permease; Provisional; Region: proY; PRK10580 316385001028 Spore germination protein; Region: Spore_permease; cl17796 316385001029 maltodextrin glucosidase; Provisional; Region: PRK10785 316385001030 N-terminal Early set domain associated with the catalytic domain of cyclomaltodextrinase and pullulan-degrading enzymes; Region: E_set_CDase_PDE_N; cd02857 316385001031 homodimer interface [polypeptide binding]; other site 316385001032 Alpha amylase catalytic domain found in cyclomaltodextrinases and related proteins; Region: AmyAc_CMD; cd11338 316385001033 active site 316385001034 homodimer interface [polypeptide binding]; other site 316385001035 catalytic site [active] 316385001036 acyl carrier protein phosphodiesterase; Provisional; Region: PRK10045 316385001037 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Provisional; Region: queA; PRK00147 316385001038 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Region: queA; TIGR00113 316385001039 queuine tRNA-ribosyltransferase; Provisional; Region: tgt; PRK00112 316385001040 tRNA-guanine family transglycosylase; Region: tgt_general; TIGR00449 316385001041 preprotein translocase subunit YajC; Validated; Region: yajC; PRK05585 316385001042 SecD export protein N-terminal TM region; Region: SecD-TM1; pfam13721 316385001043 preprotein translocase subunit SecD; Reviewed; Region: secD; PRK05812 316385001044 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 316385001045 protein-export membrane protein, SecD/SecF family; Region: 2A0604s01; TIGR00916 316385001046 preprotein translocase subunit SecF; Reviewed; Region: secF; PRK13022 316385001047 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 316385001048 Protein export membrane protein; Region: SecD_SecF; pfam02355 316385001049 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 316385001050 active site 316385001051 nucleoside-specific channel-forming protein Tsx; Provisional; Region: PRK15106 316385001052 hypothetical protein; Provisional; Region: PRK11530 316385001053 transcriptional regulator NrdR; Validated; Region: nrdR; PRK00464 316385001054 ATP cone domain; Region: ATP-cone; pfam03477 316385001055 bifunctional diaminohydroxyphosphoribosylaminopyrimidine deaminase/5-amino-6-(5-phosphoribosylamino)uracil reductase; Provisional; Region: ribD; PRK10786 316385001056 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 316385001057 catalytic motif [active] 316385001058 Zn binding site [ion binding]; other site 316385001059 riboflavin-specific deaminase C-terminal domain; Region: ribD_Cterm; TIGR00227 316385001060 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 316385001061 homopentamer interface [polypeptide binding]; other site 316385001062 active site 316385001063 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 316385001064 putative RNA binding site [nucleotide binding]; other site 316385001065 thiamine monophosphate kinase; Provisional; Region: PRK05731 316385001066 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 316385001067 ATP binding site [chemical binding]; other site 316385001068 dimerization interface [polypeptide binding]; other site 316385001069 Phosphatidylglycerophosphatase A; a bacterial membrane-associated enzyme involved in lipid metabolism; Region: PgpA; cd06971 316385001070 tetramer interfaces [polypeptide binding]; other site 316385001071 binuclear metal-binding site [ion binding]; other site 316385001072 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 316385001073 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 316385001074 active site 316385001075 catalytic tetrad [active] 316385001076 1-deoxy-D-xylulose-5-phosphate synthase; Region: dxs; TIGR00204 316385001077 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 316385001078 TPP-binding site; other site 316385001079 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 316385001080 PYR/PP interface [polypeptide binding]; other site 316385001081 dimer interface [polypeptide binding]; other site 316385001082 TPP binding site [chemical binding]; other site 316385001083 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 316385001084 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 316385001085 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 316385001086 substrate binding pocket [chemical binding]; other site 316385001087 chain length determination region; other site 316385001088 substrate-Mg2+ binding site; other site 316385001089 catalytic residues [active] 316385001090 aspartate-rich region 1; other site 316385001091 active site lid residues [active] 316385001092 aspartate-rich region 2; other site 316385001093 exodeoxyribonuclease VII small subunit; Provisional; Region: PRK00977 316385001094 tRNA s(4)U8 sulfurtransferase; Provisional; Region: PRK01269 316385001095 THUMP domain of thiamine biosynthesis protein ThiI; Region: THUMP_ThiI; cd11716 316385001096 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 316385001097 Ligand Binding Site [chemical binding]; other site 316385001098 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 316385001099 active site residue [active] 316385001100 oxidative-stress-resistance chaperone; Provisional; Region: PRK11574 316385001101 Type 1 glutamine amidotransferase (GATase1)-like domain found in Human DJ-1; Region: GATase1_DJ-1; cd03135 316385001102 conserved cys residue [active] 316385001103 2-dehydropantoate 2-reductase; Reviewed; Region: PRK06522 316385001104 Ketopantoate reductase PanE/ApbA; Region: ApbA; pfam02558 316385001105 Ketopantoate reductase PanE/ApbA C terminal; Region: ApbA_C; pfam08546 316385001106 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1666 316385001107 Proteins similar to Escherichia coli YajQ; Region: YajQ_like; cd11740 316385001108 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 316385001109 Major Facilitator Superfamily; Region: MFS_1; pfam07690 316385001110 putative substrate translocation pore; other site 316385001111 protoheme IX farnesyltransferase; Provisional; Region: PRK13362 316385001112 UbiA prenyltransferase family; Region: UbiA; pfam01040 316385001113 cytochrome o ubiquinol oxidase subunit IV; Provisional; Region: PRK10582 316385001114 Ubiquinol oxidase subunit III subfamily. Ubiquinol oxidase, the terminal oxidase in the respiratory chains of aerobic bacteria, is a multi-chain transmembrane protein located in the cell membrane. It catalyzes the reduction of O2 and simultaneously...; Region: Ubiquinol_oxidase_III; cd02863 316385001115 Subunit I/III interface [polypeptide binding]; other site 316385001116 Subunit III/IV interface [polypeptide binding]; other site 316385001117 Heme/copper-type cytochrome/quinol oxidases, subunit 1 [Energy production and conversion]; Region: CyoB; COG0843 316385001118 Ubiquinol oxidase subunit I. Ubiquinol oxidase, the terminal oxidase in the respiratory chains of aerobic bacteria, is a multi-chain transmembrane protein located in the cell membrane. It catalyzes the reduction of O2 and simultaneously pumps protons...; Region: Ubiquinol_Oxidase_I; cd01662 316385001119 D-pathway; other site 316385001120 Putative ubiquinol binding site [chemical binding]; other site 316385001121 Low-spin heme (heme b) binding site [chemical binding]; other site 316385001122 Putative water exit pathway; other site 316385001123 Binuclear center (heme o3/CuB) [ion binding]; other site 316385001124 K-pathway; other site 316385001125 Putative proton exit pathway; other site 316385001126 cytochrome o ubiquinol oxidase subunit II; Provisional; Region: PRK10525 316385001127 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; pfam00116 316385001128 COX Aromatic Rich Motif; Region: COX_ARM; pfam06481 316385001129 muropeptide transporter; Reviewed; Region: ampG; PRK11902 316385001130 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 316385001131 putative substrate translocation pore; other site 316385001132 hypothetical protein; Provisional; Region: PRK11627 316385001133 Uncharacterized lipoprotein; Region: Lipoprotein_16; pfam03923 316385001134 transcriptional regulator BolA; Provisional; Region: PRK11628 316385001135 trigger factor; Provisional; Region: tig; PRK01490 316385001136 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 316385001137 Bacterial trigger factor protein (TF) C-terminus; Region: Trigger_C; pfam05698 316385001138 Protease subunit of ATP-dependent Clp proteases [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: ClpP; COG0740 316385001139 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 316385001140 oligomer interface [polypeptide binding]; other site 316385001141 active site residues [active] 316385001142 ATP-dependent protease ATP-binding subunit ClpX; Provisional; Region: clpX; PRK05342 316385001143 ClpX C4-type zinc finger; Region: zf-C4_ClpX; pfam06689 316385001144 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 316385001145 Walker A motif; other site 316385001146 ATP binding site [chemical binding]; other site 316385001147 Walker B motif; other site 316385001148 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 316385001149 DNA-binding ATP-dependent protease La; Provisional; Region: PRK10787 316385001150 Found in ATP-dependent protease La (LON); Region: LON; smart00464 316385001151 Found in ATP-dependent protease La (LON); Region: LON; smart00464 316385001152 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 316385001153 Walker A motif; other site 316385001154 ATP binding site [chemical binding]; other site 316385001155 Walker B motif; other site 316385001156 arginine finger; other site 316385001157 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 316385001158 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 316385001159 IHF dimer interface [polypeptide binding]; other site 316385001160 IHF - DNA interface [nucleotide binding]; other site 316385001161 periplasmic folding chaperone; Provisional; Region: PRK10788 316385001162 SurA N-terminal domain; Region: SurA_N_3; cl07813 316385001163 PPIC-type PPIASE domain; Region: Rotamase_2; pfam13145 316385001164 competence protein ComEA helix-hairpin-helix repeat region; Region: TIGR00426 316385001165 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 316385001166 active site 316385001167 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 316385001168 Ligand Binding Site [chemical binding]; other site 316385001169 ABC-type uncharacterized transport system, periplasmic component [General function prediction only]; Region: COG4533 316385001170 Sugar transport-related sRNA regulator N-term; Region: SgrR_N; pfam12793 316385001171 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 316385001172 thiamin pyrimidine pyrophosphate hydrolase; Provisional; Region: PRK15126 316385001173 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 316385001174 active site 316385001175 motif I; other site 316385001176 motif II; other site 316385001177 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 316385001178 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 316385001179 putative DNA binding site [nucleotide binding]; other site 316385001180 putative Zn2+ binding site [ion binding]; other site 316385001181 AsnC family; Region: AsnC_trans_reg; pfam01037 316385001182 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 316385001183 putative multidrug transporter membrane\ATP-binding components; Provisional; Region: PRK10789 316385001184 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 316385001185 Walker A/P-loop; other site 316385001186 ATP binding site [chemical binding]; other site 316385001187 Q-loop/lid; other site 316385001188 ABC transporter signature motif; other site 316385001189 Walker B; other site 316385001190 D-loop; other site 316385001191 H-loop/switch region; other site 316385001192 putative multidrug transporter membrane\ATP-binding components; Provisional; Region: PRK10790 316385001193 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 316385001194 ATP-binding cassette domain of glucan transporter and related proteins, subfamily C; Region: ABCC_Glucan_exporter_like; cd03254 316385001195 Walker A/P-loop; other site 316385001196 ATP binding site [chemical binding]; other site 316385001197 Q-loop/lid; other site 316385001198 ABC transporter signature motif; other site 316385001199 Walker B; other site 316385001200 D-loop; other site 316385001201 H-loop/switch region; other site 316385001202 nitrogen regulatory protein P-II 2; Provisional; Region: PRK10665 316385001203 Nitrogen regulatory protein P-II; Region: P-II; smart00938 316385001204 ammonium transporter; Provisional; Region: PRK10666 316385001205 acyl-CoA thioesterase II; Provisional; Region: PRK10526 316385001206 Thioesterase II (TEII) is thought to regenerate misprimed nonribosomal peptide synthetases (NRPSs) as well as modular polyketide synthases (PKSs) by hydrolyzing acetyl groups bound to the peptidyl carrier protein (PCP) and acyl carrier protein (ACP)...; Region: Thioesterase_II_repeat2; cd03445 316385001207 active site 316385001208 Thioesterase II (TEII) is thought to regenerate misprimed nonribosomal peptide synthetases (NRPSs) as well as modular polyketide synthases (PKSs) by hydrolyzing acetyl groups bound to the peptidyl carrier protein (PCP) and acyl carrier protein (ACP)...; Region: Thioesterase_II_repeat1; cd03444 316385001209 catalytic triad [active] 316385001210 dimer interface [polypeptide binding]; other site 316385001211 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3126 316385001212 Methylated DNA-protein cysteine methyltransferase [DNA replication, recombination, and repair]; Region: Ada; COG0350 316385001213 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 316385001214 DNA binding site [nucleotide binding] 316385001215 active site 316385001216 Uncharacterized conserved protein [Function unknown]; Region: COG5507 316385001217 Predicted signal transduction protein containing sensor and EAL domains [Signal transduction mechanisms]; Region: COG4943 316385001218 CSS motif domain associated with EAL; Region: CSS-motif; pfam12792 316385001219 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 316385001220 sigma70 family sigma factor YlaC; Region: YlaC; pfam10777 316385001221 maltose O-acetyltransferase; Provisional; Region: PRK10092 316385001222 Maltose O-acetyltransferase (MAT) and Galactoside O-acetyltransferase (GAT): MAT and GAT catalyze the CoA-dependent acetylation of the 6-hydroxyl group of their respective sugar substrates. MAT acetylates maltose and glucose exclusively at the C6...; Region: LbH_MAT_GAT; cd03357 316385001223 active site 316385001224 substrate binding site [chemical binding]; other site 316385001225 trimer interface [polypeptide binding]; other site 316385001226 CoA binding site [chemical binding]; other site 316385001227 gene expression modulator; Provisional; Region: PRK10945 316385001228 Biofilm formation regulator YbaJ; Region: YbaJ; pfam10757 316385001229 multidrug efflux system protein AcrB; Provisional; Region: PRK15127 316385001230 Protein export membrane protein; Region: SecD_SecF; cl14618 316385001231 Protein export membrane protein; Region: SecD_SecF; cl14618 316385001232 multidrug efflux system transporter AcrA; Provisional; Region: PRK15030 316385001233 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 316385001234 HlyD family secretion protein; Region: HlyD_3; pfam13437 316385001235 DNA-binding transcriptional repressor AcrR; Provisional; Region: PRK10668 316385001236 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 316385001237 MAATS-type transcriptional repressor, C-terminal region; Region: TetR_C_2; pfam08361 316385001238 hypothetical protein; Provisional; Region: PRK11281 316385001239 Mechanosensitive ion channel inner membrane domain 1; Region: MscS_TM; pfam12794 316385001240 Transmembrane subunit (TM) of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which are involved in the uptake of branched-chain amino acids (AAs), as well as TMs of transporters involved in the uptake of...; Region: TM_PBP1_branched-chain-AA_like; cl00454 316385001241 Mechanosensitive ion channel; Region: MS_channel; pfam00924 316385001242 hypothetical protein; Provisional; Region: PRK11038 316385001243 primosomal replication protein N''; Provisional; Region: PRK10093 316385001244 hypothetical protein; Provisional; Region: PRK10527 316385001245 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 316385001246 active site 316385001247 DNA polymerase III subunits gamma and tau; Validated; Region: PRK07994 316385001248 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 316385001249 Walker A motif; other site 316385001250 ATP binding site [chemical binding]; other site 316385001251 Walker B motif; other site 316385001252 DNA polymerase III subunit delta'; Validated; Region: PRK08485 316385001253 arginine finger; other site 316385001254 DNA polymerase III subunits gamma and tau domain III; Region: DNA_pol3_gamma3; pfam12169 316385001255 DNA polymerase III subunits tau domain IV DnaB-binding; Region: DNA_pol3_tau_4; pfam12168 316385001256 DNA polymerase III tau subunit V interacting with alpha; Region: DNA_pol3_tau_5; pfam12170 316385001257 hypothetical protein; Validated; Region: PRK00153 316385001258 Recombinational DNA repair protein (RecF pathway) [DNA replication, recombination, and repair]; Region: RecR; COG0353 316385001259 RecR protein; Region: RecR; pfam02132 316385001260 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 316385001261 putative active site [active] 316385001262 putative metal-binding site [ion binding]; other site 316385001263 tetramer interface [polypeptide binding]; other site 316385001264 heat shock protein 90; Provisional; Region: PRK05218 316385001265 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 316385001266 ATP binding site [chemical binding]; other site 316385001267 Mg2+ binding site [ion binding]; other site 316385001268 G-X-G motif; other site 316385001269 adenylate kinase; Reviewed; Region: adk; PRK00279 316385001270 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 316385001271 AMP-binding site [chemical binding]; other site 316385001272 ATP-AMP (Ap5A)-binding site [chemical binding]; other site 316385001273 ferrochelatase; Region: hemH; TIGR00109 316385001274 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 316385001275 C-terminal domain interface [polypeptide binding]; other site 316385001276 active site 316385001277 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 316385001278 active site 316385001279 N-terminal domain interface [polypeptide binding]; other site 316385001280 acetyl esterase; Provisional; Region: PRK10162 316385001281 inosine/guanosine kinase; Provisional; Region: PRK15074 316385001282 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 316385001283 putative cation:proton antiport protein; Provisional; Region: PRK10669 316385001284 Kef-type K+ transport system, predicted NAD-binding component [Inorganic ion transport and metabolism]; Region: RosB; COG4651 316385001285 TrkA-N domain; Region: TrkA_N; pfam02254 316385001286 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 316385001287 Major Facilitator Superfamily; Region: MFS_1; pfam07690 316385001288 putative substrate translocation pore; other site 316385001289 bifunctional UDP-sugar hydrolase/5'-nucleotidase periplasmic precursor; Reviewed; Region: ushA; PRK09558 316385001290 Escherichia coli UshA and related proteins, N-terminal metallophosphatase domain; Region: MPP_UshA_N; cd07405 316385001291 active site 316385001292 metal binding site [ion binding]; metal-binding site 316385001293 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 316385001294 This CD includes cysteinyl-tRNA(Pro) deacylases from Haemophilus influenzae and Escherichia coli and other related bacterial proteins. These trans-acting, single-domain proteins are homologs of ProX and also the cis-acting prolyl-tRNA synthetase (ProRS)...; Region: YbaK_deacylase; cd00002 316385001295 putative deacylase active site [active] 316385001296 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3735 316385001297 Plasmid maintenance system antidote protein [General function prediction only]; Region: VapI; COG3093 316385001298 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 316385001299 non-specific DNA binding site [nucleotide binding]; other site 316385001300 salt bridge; other site 316385001301 sequence-specific DNA binding site [nucleotide binding]; other site 316385001302 copper exporting ATPase; Provisional; Region: copA; PRK10671 316385001303 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 316385001304 metal-binding site [ion binding] 316385001305 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 316385001306 metal-binding site [ion binding] 316385001307 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 316385001308 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 316385001309 motif II; other site 316385001310 glutaminase; Reviewed; Region: PRK12356 316385001311 Glutaminase [Amino acid transport and metabolism]; Region: GlsA; COG2066 316385001312 amino acid transporter; Region: 2A0306; TIGR00909 316385001313 DNA-binding transcriptional regulator CueR; Provisional; Region: PRK10227 316385001314 Helix-Turn-Helix DNA binding domain of CueR-like transcription regulators; Region: HTH_CueR; cd01108 316385001315 DNA binding residues [nucleotide binding] 316385001316 dimer interface [polypeptide binding]; other site 316385001317 copper binding site [ion binding]; other site 316385001318 Membrane protein implicated in regulation of membrane protease activity [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: COG1585 316385001319 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 316385001320 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 316385001321 putative ABC transporter ATP-binding protein YbbL; Provisional; Region: PRK10247 316385001322 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 316385001323 Walker A/P-loop; other site 316385001324 ATP binding site [chemical binding]; other site 316385001325 Q-loop/lid; other site 316385001326 ABC transporter signature motif; other site 316385001327 Walker B; other site 316385001328 D-loop; other site 316385001329 H-loop/switch region; other site 316385001330 Uncharacterized protein family (UPF0014); Region: UPF0014; pfam03649 316385001331 Thioredoxin domain-containing protein [Posttranslational modification, protein turnover, chaperones]; Region: COG3118 316385001332 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 316385001333 oxidoreductase; Provisional; Region: PRK08017 316385001334 17beta hydroxysteroid dehydrogenase-like, classical (c) SDRs; Region: 17beta-HSD-like_SDR_c; cd05374 316385001335 NADP binding site [chemical binding]; other site 316385001336 active site 316385001337 steroid binding site; other site 316385001338 Lysophospholipase L1-like subgroup of SGNH-hydrolases. The best characterized member in this family is TesA, an E. coli periplasmic protein with thioesterase, esterase, arylesterase, protease and lysophospholipase activity; Region: Lysophospholipase_L1_like; cd01822 316385001339 active site 316385001340 catalytic triad [active] 316385001341 oxyanion hole [active] 316385001342 switch loop; other site 316385001343 putative ABC transporter ATP-binding protein YbbA; Provisional; Region: PRK10584 316385001344 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 316385001345 Walker A/P-loop; other site 316385001346 ATP binding site [chemical binding]; other site 316385001347 Q-loop/lid; other site 316385001348 ABC transporter signature motif; other site 316385001349 Walker B; other site 316385001350 D-loop; other site 316385001351 H-loop/switch region; other site 316385001352 Predicted ABC-type transport system involved in lysophospholipase L1 biosynthesis, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3127 316385001353 FtsX-like permease family; Region: FtsX; pfam02687 316385001354 FtsX-like permease family; Region: FtsX; pfam02687 316385001355 PAAR motif; Region: PAAR_motif; cl15808 316385001356 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 316385001357 RHS Repeat; Region: RHS_repeat; pfam05593 316385001358 RHS Repeat; Region: RHS_repeat; pfam05593 316385001359 RHS Repeat; Region: RHS_repeat; pfam05593 316385001360 RHS Repeat; Region: RHS_repeat; pfam05593 316385001361 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 316385001362 RHS Repeat; Region: RHS_repeat; pfam05593 316385001363 RHS Repeat; Region: RHS_repeat; pfam05593 316385001364 RHS protein; Region: RHS; pfam03527 316385001365 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 316385001366 Domain of unknown function (DUF4329); Region: DUF4329; pfam14220 316385001367 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 316385001368 RHS protein; Region: RHS; pfam03527 316385001369 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 316385001370 predicted protein 316385001371 Winged helix-turn helix; Region: HTH_29; pfam13551 316385001372 Helix-turn-helix domain; Region: HTH_28; pfam13518 316385001373 Predicted ATPase [General function prediction only]; Region: COG2603 316385001374 Member of the Rhodanese Homology Domain superfamily. This CD includes several putative ATP /GTP binding proteins including E. coli YbbB; Region: RHOD_YbbB; cd01520 316385001375 active site residue [active] 316385001376 DNA-binding transcriptional activator AllS; Provisional; Region: PRK10094 316385001377 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 316385001378 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 316385001379 dimerization interface [polypeptide binding]; other site 316385001380 Ureidoglycolate hydrolase [Nucleotide transport and metabolism]; Region: DAL3; COG3194 316385001381 ureidoglycolate hydrolase; Provisional; Region: PRK03606 316385001382 DNA-binding transcriptional repressor AllR; Provisional; Region: PRK10163 316385001383 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 316385001384 Bacterial transcriptional regulator; Region: IclR; pfam01614 316385001385 glyoxylate carboligase; Provisional; Region: PRK11269 316385001386 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 316385001387 PYR/PP interface [polypeptide binding]; other site 316385001388 dimer interface [polypeptide binding]; other site 316385001389 TPP binding site [chemical binding]; other site 316385001390 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 316385001391 Thiamine pyrophosphate (TPP) family, Gcl subfamily, TPP-binding module; composed of proteins similar to Escherichia coli glyoxylate carboligase (Gcl). E. coli glyoxylate carboligase, plays a key role in glyoxylate metabolism where it catalyzes the...; Region: TPP_Gcl; cd02006 316385001392 TPP-binding site [chemical binding]; other site 316385001393 hydroxypyruvate isomerase; Provisional; Region: PRK09997 316385001394 tartronate semialdehyde reductase; Provisional; Region: PRK15059 316385001395 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 316385001396 nucleobase-cation-symport-1 (NCS1) transporters; solute-binding domain; Region: SLC-NCS1sbd; cd10323 316385001397 Permease for cytosine/purines, uracil, thiamine, allantoin; Region: Transp_cyt_pur; pfam02133 316385001398 Na binding site [ion binding]; other site 316385001399 substrate binding site [chemical binding]; other site 316385001400 allantoinase; Provisional; Region: PRK08044 316385001401 L-Hydantoinases (L-HYDs) and Allantoinase (ALN); L-Hydantoinases are a member of the dihydropyrimidinase family, which catalyzes the reversible hydrolytic ring opening of dihydropyrimidines and hydantoins (five-membered cyclic diamides used in...; Region: L-HYD_ALN; cd01315 316385001402 active site 316385001403 putative uracil/xanthine transporter; Provisional; Region: PRK11412 316385001404 glycerate kinase II; Provisional; Region: PRK09932 316385001405 putative allantoin catabolism protein; Region: ura-cupin; TIGR03214 316385001406 Protein of unknown function (DUF861); Region: Cupin_3; pfam05899 316385001407 Cupin domain; Region: Cupin_2; cl17218 316385001408 allantoate amidohydrolase; Region: AllC; TIGR03176 316385001409 M20 Peptidase beta-alanine synthase, an amidohydrolase; Region: M20_bAS; cd03884 316385001410 active site 316385001411 metal binding site [ion binding]; metal-binding site 316385001412 dimer interface [polypeptide binding]; other site 316385001413 ureidoglycolate dehydrogenase; Provisional; Region: PRK15025 316385001414 membrane protein FdrA; Validated; Region: PRK06091 316385001415 CoA binding domain; Region: CoA_binding; pfam02629 316385001416 CoA-ligase; Region: Ligase_CoA; pfam00549 316385001417 Protein of unknown function (DUF1116); Region: DUF1116; pfam06545 316385001418 Protein of unknown function (DUF2877); Region: DUF2877; pfam11392 316385001419 carbamate kinase-like carbamoyl phosphate synthetase; Reviewed; Region: PRK12454 316385001420 AAK_CK: Carbamate kinase (CK) catalyzes both the ATP-phosphorylation of carbamate and carbamoyl phosphate (CP) utilization with the production of ATP from ADP and CP. Both CK (this CD) and nonhomologous CP synthetase synthesize carbamoyl phosphate, an...; Region: AAK_CK; cd04235 316385001421 putative substrate binding site [chemical binding]; other site 316385001422 nucleotide binding site [chemical binding]; other site 316385001423 nucleotide binding site [chemical binding]; other site 316385001424 homodimer interface [polypeptide binding]; other site 316385001425 phosphoribosylaminoimidazole carboxylase ATPase subunit; Reviewed; Region: PRK06019 316385001426 ATP-grasp domain; Region: ATP-grasp; pfam02222 316385001427 Phosphoribosylcarboxyaminoimidazole (NCAIR) mutase [Nucleotide transport and metabolism]; Region: PurE; COG0041 316385001428 Escherichia coli YbbF/LpxH and related proteins, metallophosphatase domain; Region: MPP_YbbF-LpxH; cd07398 316385001429 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 316385001430 putative active site [active] 316385001431 putative metal binding site [ion binding]; other site 316385001432 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 316385001433 substrate binding site [chemical binding]; other site 316385001434 cysteinyl-tRNA synthetase; Validated; Region: cysS; PRK00260 316385001435 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 316385001436 active site 316385001437 HIGH motif; other site 316385001438 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 316385001439 KMSKS motif; other site 316385001440 Anticodon-binding domain of cysteinyl tRNA synthetases; Region: Anticodon_Ia_Cys; cd07963 316385001441 tRNA binding surface [nucleotide binding]; other site 316385001442 anticodon binding site; other site 316385001443 Predicted membrane-bound metal-dependent hydrolases [General function prediction only]; Region: COG1988 316385001444 ribosome-associated protein; Provisional; Region: PRK11507 316385001445 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional; Region: PRK10792 316385001446 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 316385001447 NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080 316385001448 homodimer interface [polypeptide binding]; other site 316385001449 NADP binding site [chemical binding]; other site 316385001450 substrate binding site [chemical binding]; other site 316385001451 type-1 fimbrial protein subunit A; Provisional; Region: PRK15194 316385001452 fimbrial chaperone protein FimC; Provisional; Region: PRK15195 316385001453 Gram-negative pili assembly chaperone, N-terminal domain; Region: Pili_assembly_N; pfam00345 316385001454 Gram-negative pili assembly chaperone, C-terminal domain; Region: Pili_assembly_C; pfam02753 316385001455 outer membrane usher protein FimD; Provisional; Region: PRK15198 316385001456 PapC N-terminal domain; Region: PapC_N; pfam13954 316385001457 Type VII secretion system (T7SS), usher protein; Region: Usher; pfam00577 316385001458 PapC C-terminal domain; Region: PapC_C; pfam13953 316385001459 fimbrial-like adhesin; Provisional; Region: fimH; PRK15199 316385001460 fimbrial-like adhesin protein SfmF; Provisional; Region: PRK09934 316385001461 transcriptional regulator FimZ; Provisional; Region: PRK09935 316385001462 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 316385001463 active site 316385001464 phosphorylation site [posttranslational modification] 316385001465 intermolecular recognition site; other site 316385001466 dimerization interface [polypeptide binding]; other site 316385001467 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 316385001468 DNA binding residues [nucleotide binding] 316385001469 dimerization interface [polypeptide binding]; other site 316385001470 P22-like integrases, site-specific recombinases, DNA breaking-rejoining enzymes, C-terminal catalytic domain. This CD includes various bacterial and phage integrases, including those similar to phage P22-like integrases, DLP12 and APSE-1; Region: INT_P22_C; cd01192 316385001471 Int/Topo IB signature motif; other site 316385001472 YqaJ-like viral recombinase domain; Region: YqaJ; cl09232 316385001473 DLP12 prophage; predicted replication protein fragment (pseudogene) 316385001474 Transposase; Region: HTH_Tnp_1; cl17663 316385001475 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 316385001476 putative transposase OrfB; Reviewed; Region: PHA02517 316385001477 HTH-like domain; Region: HTH_21; pfam13276 316385001478 Integrase core domain; Region: rve; pfam00665 316385001479 Integrase core domain; Region: rve_2; pfam13333 316385001480 multidrug efflux protein; Reviewed; Region: emrE; PRK09541 316385001481 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 316385001482 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 316385001483 catalytic residues [active] 316385001484 catalytic nucleophile [active] 316385001485 Recombinase; Region: Recombinase; pfam07508 316385001486 Recombinase zinc beta ribbon domain; Region: Zn_ribbon_recom; pfam13408 316385001487 Defensin propeptide; Region: Defensin_propep; pfam00879 316385001488 PhosphatidylEthanolamine-Binding Protein (PEBP) domain present in bacteria and archaea; Region: PEBP_bact_arch; cd00865 316385001489 substrate binding site [chemical binding]; other site 316385001490 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 316385001491 hypothetical protein; Provisional; Region: PRK09741 316385001492 prophage protein NinE; Provisional; Region: PRK09689 316385001493 Protein of unknown function (DUF1364); Region: DUF1364; pfam07102 316385001494 endodeoxyribonuclease RUS; Reviewed; Region: PRK09786 316385001495 Phage antitermination protein Q; Region: Phage_antitermQ; pfam06530 316385001496 DLP12 prophage; truncated outer membrane porin (pseudogene) 316385001497 Transposase domain (DUF772); Region: DUF772; pfam05598 316385001498 Transposase and inactivated derivatives, IS5 family [DNA replication, recombination, and repair]; Region: COG3039 316385001499 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 316385001500 Lysis protein S; Region: Lysis_S; pfam04971 316385001501 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 316385001502 catalytic residues [active] 316385001503 Bacteriophage lysis protein; Region: Phage_lysis; pfam03245 316385001504 Lipoprotein Rz1 precursor; Region: Rz1; pfam06085 316385001505 Bor protein; Region: Lambda_Bor; pfam06291 316385001506 Protein of unknown function (DUF1398); Region: DUF1398; pfam07166 316385001507 Phage DNA packaging protein Nu1; Region: Phage_Nu1; pfam07471 316385001508 DLP12 prophage; predicted tail fiber assembly protein (pseudogene) 316385001509 DLP12 prophage; predicted SAM-dependent methyltransferase 316385001510 DLP12 prophage; predicted protein 316385001511 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 316385001512 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 316385001513 outer membrane protease; Reviewed; Region: PRK10993 316385001514 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 316385001515 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 316385001516 hypothetical protein; Provisional; Region: PRK09936 316385001517 bacteriophage N4 receptor, outer membrane subunit; Provisional; Region: PRK09782 316385001518 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 316385001519 TPR motif; other site 316385001520 binding surface 316385001521 Bacteriophage N adsorption protein A C-term; Region: NfrA_C; pfam13283 316385001522 bacteriophage N4 adsorption protein B; Provisional; Region: nfrB; PRK11234 316385001523 active site 316385001524 Glycosyl transferase family group 2; Region: Glyco_trans_2_3; pfam13632 316385001525 Type II secretion system (T2SS), protein E, N-terminal domain; Region: T2SE_Nter; pfam05157 316385001526 sensor kinase CusS; Provisional; Region: PRK09835 316385001527 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 316385001528 dimerization interface [polypeptide binding]; other site 316385001529 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 316385001530 dimer interface [polypeptide binding]; other site 316385001531 phosphorylation site [posttranslational modification] 316385001532 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 316385001533 ATP binding site [chemical binding]; other site 316385001534 Mg2+ binding site [ion binding]; other site 316385001535 G-X-G motif; other site 316385001536 DNA-binding transcriptional activator CusR; Provisional; Region: PRK09836 316385001537 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 316385001538 active site 316385001539 phosphorylation site [posttranslational modification] 316385001540 intermolecular recognition site; other site 316385001541 dimerization interface [polypeptide binding]; other site 316385001542 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 316385001543 DNA binding site [nucleotide binding] 316385001544 copper/silver efflux system outer membrane protein CusC; Provisional; Region: PRK09837 316385001545 periplasmic copper-binding protein; Provisional; Region: PRK09838 316385001546 copper/silver efflux system membrane fusion protein CusB; Provisional; Region: PRK09783 316385001547 HlyD family secretion protein; Region: HlyD_3; pfam13437 316385001548 heavy metal efflux pump, CzcA family; Region: 2A0601; TIGR00914 316385001549 phenylalanine transporter; Provisional; Region: PRK10249 316385001550 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 316385001551 Mechanosensitive ion channel; Region: MS_channel; pfam00924 316385001552 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 316385001553 dimer interface [polypeptide binding]; other site 316385001554 FMN binding site [chemical binding]; other site 316385001555 hypothetical protein; Provisional; Region: PRK10250 316385001556 Protein of unknown function (DUF1158); Region: DUF1158; pfam06643 316385001557 gamma-glutamyl:cysteine ligase; Provisional; Region: PRK13516 316385001558 carboxylate-amine ligase, YbdK family; Region: gshA_cyan_rel; TIGR02050 316385001559 Hok/gef family; Region: HOK_GEF; pfam01848 316385001560 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 316385001561 FOG: Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3385 316385001562 phosphopantetheinyltransferase component of enterobactin synthase multienzyme complex; Provisional; Region: PRK10251 316385001563 4'-phosphopantetheinyl transferase superfamily; Region: ACPS; pfam01648 316385001564 outer membrane receptor FepA; Provisional; Region: PRK13524 316385001565 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 316385001566 N-terminal plug; other site 316385001567 ligand-binding site [chemical binding]; other site 316385001568 enterobactin/ferric enterobactin esterase; Provisional; Region: PRK10439 316385001569 Domain of unknown function (DUF3327); Region: DUF3327; pfam11806 316385001570 Predicted hydrolase of the alpha/beta superfamily [General function prediction only]; Region: COG2819 316385001571 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3251 316385001572 enterobactin synthase subunit F; Provisional; Region: entF; PRK10252 316385001573 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 316385001574 acyl-activating enzyme (AAE) consensus motif; other site 316385001575 AMP binding site [chemical binding]; other site 316385001576 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 316385001577 LPS O-antigen length regulator; Provisional; Region: PRK10381 316385001578 Chain length determinant protein; Region: Wzz; pfam02706 316385001579 G-rich domain on putative tyrosine kinase; Region: GNVR; pfam13807 316385001580 iron-enterobactin transporter ATP-binding protein; Provisional; Region: PRK10253 316385001581 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 316385001582 Walker A/P-loop; other site 316385001583 ATP binding site [chemical binding]; other site 316385001584 Q-loop/lid; other site 316385001585 ABC transporter signature motif; other site 316385001586 Walker B; other site 316385001587 D-loop; other site 316385001588 H-loop/switch region; other site 316385001589 ABC-type enterobactin transport system, permease component [Inorganic ion transport and metabolism]; Region: FepG; COG4779 316385001590 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 316385001591 ABC-ATPase subunit interface; other site 316385001592 dimer interface [polypeptide binding]; other site 316385001593 putative PBP binding regions; other site 316385001594 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 316385001595 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 316385001596 ABC-ATPase subunit interface; other site 316385001597 dimer interface [polypeptide binding]; other site 316385001598 putative PBP binding regions; other site 316385001599 enterobactin exporter EntS; Provisional; Region: PRK10489 316385001600 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 316385001601 putative substrate translocation pore; other site 316385001602 iron-enterobactin transporter periplasmic binding protein; Provisional; Region: PRK10957 316385001603 Fe3+-siderophore binding domain FhuD. These proteins have been shown to function as initial receptors in ABC transport of Fe3+-siderophores in many eubacterial species. They belong to the TroA-like superfamily of helical backbone metal receptor proteins...; Region: FhuD; cd01146 316385001604 siderophore binding site; other site 316385001605 isochorismate synthase EntC; Provisional; Region: PRK15016 316385001606 chorismate binding enzyme; Region: Chorismate_bind; pfam00425 316385001607 enterobactin synthase subunit E; Provisional; Region: entE; PRK10946 316385001608 2,3-dihydroxybenzoate-AMP ligase; Region: 23DHB-AMP_lg; cd05920 316385001609 acyl-activating enzyme (AAE) consensus motif; other site 316385001610 active site 316385001611 AMP binding site [chemical binding]; other site 316385001612 substrate binding site [chemical binding]; other site 316385001613 Isochorismatase, also known as 2,3 dihydro-2,3 dihydroxybenzoate synthase, catalyses the conversion of isochorismate, in the presence of water, to 2,3-dihydroxybenzoate and pyruvate, via the hydrolysis of a vinyl ether, an uncommon reaction in biological...; Region: isochorismatase; cd01013 316385001614 hydrophobic substrate binding pocket; other site 316385001615 Isochorismatase family; Region: Isochorismatase; pfam00857 316385001616 active site 316385001617 conserved cis-peptide bond; other site 316385001618 Aryl carrier domain [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3433 316385001619 2,3-dihydroxybenzoate-2,3-dehydrogenase; Validated; Region: PRK08220 316385001620 2,3 dihydro-2,3 dihydrozybenzoate dehydrogenases, classical (c) SDRs; Region: DH-DHB-DH_SDR_c; cd05331 316385001621 putative NAD(P) binding site [chemical binding]; other site 316385001622 active site 316385001623 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 316385001624 CoenzymeA binding site [chemical binding]; other site 316385001625 subunit interaction site [polypeptide binding]; other site 316385001626 PHB binding site; other site 316385001627 carbon starvation protein A; Provisional; Region: PRK15015 316385001628 Carbon starvation protein CstA; Region: CstA; pfam02554 316385001629 C-terminal domain on CstA (DUF4161); Region: DUF4161; pfam13722 316385001630 Uncharacterized small protein [Function unknown]; Region: COG2879 316385001631 Glycerol dehydrogenase and related enzymes [Energy production and conversion]; Region: GldA; COG0371 316385001632 Glycerol dehydrogenases-like; Region: GlyDH-like1; cd08172 316385001633 putative active site [active] 316385001634 metal binding site [ion binding]; metal-binding site 316385001635 methionine aminotransferase; Validated; Region: PRK09082 316385001636 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 316385001637 pyridoxal 5'-phosphate binding site [chemical binding]; other site 316385001638 homodimer interface [polypeptide binding]; other site 316385001639 catalytic residue [active] 316385001640 Stage 0 sporulation protein J (antagonist of Soj) containing ParB-like nuclease domain [Transcription]; Region: Spo0J; COG1475 316385001641 ParB-like nuclease domain; Region: ParBc; pfam02195 316385001642 Predicted phosphoadenosine phosphosulfate sulfotransferase [General function prediction only]; Region: COG3969 316385001643 This domain is found in phosphoadenosine phosphosulphate (PAPS) reductase enzymes or PAPS sulphotransferase. PAPS reductase is part of the adenine nucleotide alpha hydrolases superfamily also including N type ATP PPases and ATP sulphurylases. A highly...; Region: PAPS_reductase; cd01713 316385001644 Active Sites [active] 316385001645 Domain of unknown function (DUF3440); Region: DUF3440; pfam11922 316385001646 putative DNA-binding transcriptional regulator; Provisional; Region: PRK11482 316385001647 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 316385001648 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 316385001649 disulfide isomerase/thiol-disulfide oxidase; Provisional; Region: dsbG; PRK11657 316385001650 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 316385001651 dimerization domain [polypeptide binding]; other site 316385001652 dimer interface [polypeptide binding]; other site 316385001653 catalytic residues [active] 316385001654 alkyl hydroperoxide reductase subunit C; Provisional; Region: PRK10382 316385001655 Peroxiredoxin (PRX) family, Typical 2-Cys PRX subfamily; PRXs are thiol-specific antioxidant (TSA) proteins, which confer a protective role in cells through its peroxidase activity by reducing hydrogen peroxide, peroxynitrite, and organic hydroperoxides; Region: PRX_Typ2cys; cd03015 316385001656 dimer interface [polypeptide binding]; other site 316385001657 decamer (pentamer of dimers) interface [polypeptide binding]; other site 316385001658 catalytic triad [active] 316385001659 peroxidatic and resolving cysteines [active] 316385001660 alkyl hydroperoxide reductase subunit F; Provisional; Region: PRK15317 316385001661 Alkyl hydroperoxide reductase F subunit (AhpF) N-terminal domain (NTD) family, N-terminal TRX-fold subdomain; AhpF is a homodimeric flavoenzyme which catalyzes the NADH-dependent reduction of the peroxiredoxin AhpC, which in turn catalyzes the reduction...; Region: AhpF_NTD_N; cd02974 316385001662 catalytic residue [active] 316385001663 TRX-GRX-like family, Alkyl hydroperoxide reductase F subunit (AhpF) N-terminal domain (NTD) subfamily, C-terminal TRX-fold subdomain; AhpF is a homodimeric flavoenzyme which catalyzes the NADH-dependent reduction of the peroxiredoxin AhpC, which then...; Region: AhpF_NTD_C; cd03026 316385001664 catalytic residues [active] 316385001665 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 316385001666 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 316385001667 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 316385001668 Ligand Binding Site [chemical binding]; other site 316385001669 Glutathione-dependent formaldehyde dehydrogenase related proteins, child 1; Region: FDH_like_1; cd08283 316385001670 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 316385001671 NAD binding site [chemical binding]; other site 316385001672 catalytic Zn binding site [ion binding]; other site 316385001673 structural Zn binding site [ion binding]; other site 316385001674 nucleoside diphosphate kinase regulator; Provisional; Region: PRK05753 316385001675 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 316385001676 Ribonuclease T2 (RNase T2) is a widespread family of secreted RNases found in every organism examined thus far. This family includes RNase Rh, RNase MC1, RNase LE, and self-incompatibility RNases (S-RNases). Plant T2 RNases are expressed during leaf...; Region: RNase_T2_prok; cd01062 316385001677 B1 nucleotide binding pocket [chemical binding]; other site 316385001678 B2 nucleotide binding pocket [chemical binding]; other site 316385001679 CAS motifs; other site 316385001680 active site 316385001681 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 316385001682 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cd00625 316385001683 transmembrane helices; other site 316385001684 triphosphoribosyl-dephospho-CoA synthase; Provisional; Region: citG; PRK10096 316385001685 Phosphoribosyl-dephospho-CoA transferase (holo-ACP synthetase) [Coenzyme metabolism / Lipid metabolism]; Region: CitX; COG3697 316385001686 Citrate lyase, alpha subunit [Energy production and conversion]; Region: CitF; COG3051 316385001687 HpcH/HpaI aldolase/citrate lyase family; Region: HpcH_HpaI; cl17231 316385001688 Citrate lyase, gamma subunit [Energy production and conversion]; Region: CitD; COG3052 316385001689 Citrate lyase synthetase [Energy production and conversion]; Region: CitC; COG3053 316385001690 Citrate lyase ligase; Region: Citrate_lyase_ligase; cd02169 316385001691 putative active site [active] 316385001692 (T/H)XGH motif; other site 316385001693 sensor histidine kinase DpiB; Provisional; Region: dpiB; PRK15053 316385001694 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 316385001695 putative active site [active] 316385001696 heme pocket [chemical binding]; other site 316385001697 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 316385001698 ATP binding site [chemical binding]; other site 316385001699 Mg2+ binding site [ion binding]; other site 316385001700 G-X-G motif; other site 316385001701 two-component response regulator DpiA; Provisional; Region: dpiA; PRK10046 316385001702 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 316385001703 active site 316385001704 phosphorylation site [posttranslational modification] 316385001705 intermolecular recognition site; other site 316385001706 dimerization interface [polypeptide binding]; other site 316385001707 Transcriptional regulator; Region: CitT; pfam12431 316385001708 C4-dicarboxylate transporter DcuC; Provisional; Region: dcuC; PRK10654 316385001709 C4-dicarboxylate anaerobic carrier; Region: DcuC; pfam03606 316385001710 phospholipid:lipid A palmitoyltransferase; Provisional; Region: pagP; PRK11045 316385001711 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 316385001712 DNA-binding site [nucleotide binding]; DNA binding site 316385001713 RNA-binding motif; other site 316385001714 chromosome condensation membrane protein; Provisional; Region: PRK14196 316385001715 predicted protein (pseudogene); interrupted by frameshift 316385001716 twin arginine translocase protein E; Validated; Region: tatE; PRK03625 316385001717 lipoyl synthase; Provisional; Region: PRK05481 316385001718 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 316385001719 FeS/SAM binding site; other site 316385001720 putative DNA-binding transcriptional regulator; Provisional; Region: PRK11482 316385001721 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 316385001722 The C-terminal substrate binding domain of LysR-type transcriptional regulators that involved in the catabolism of nitroaromatic/naphthalene compounds and that of related regulators; contains the type 2 periplasmic binding fold; Region: PBP2_Nitroaromatics_like; cd08417 316385001723 substrate binding pocket [chemical binding]; other site 316385001724 dimerization interface [polypeptide binding]; other site 316385001725 lipoate-protein ligase B; Provisional; Region: PRK14342 316385001726 hypothetical protein; Provisional; Region: PRK04998 316385001727 D-alanyl-D-alanine carboxypeptidase fraction A; Provisional; Region: PRK10793 316385001728 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 316385001729 Penicillin-binding protein 5, C-terminal domain; Region: PBP5_C; smart00936 316385001730 rare lipoprotein A; Provisional; Region: PRK10672 316385001731 Rare lipoprotein A (RlpA)-like double-psi beta-barrel; Region: DPBB_1; pfam03330 316385001732 Sporulation related domain; Region: SPOR; pfam05036 316385001733 cell wall shape-determining protein; Provisional; Region: PRK10794 316385001734 penicillin-binding protein 2; Provisional; Region: PRK10795 316385001735 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 316385001736 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 316385001737 rRNA large subunit m3Psi methyltransferase RlmH; Region: tRNA_RlmH_YbeA; TIGR00246 316385001738 ribosome-associated protein; Provisional; Region: PRK11538 316385001739 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 316385001740 catalytic core [active] 316385001741 nicotinic acid mononucleotide adenylyltransferase; Provisional; Region: nadD; PRK00071 316385001742 Nicotinamide/nicotinate mononucleotide adenylyltransferase; Region: NMNAT; cd02165 316385001743 active site 316385001744 (T/H)XGH motif; other site 316385001745 DNA polymerase III subunit delta; Reviewed; Region: holA; PRK05574 316385001746 DNA polymerase III, delta subunit; Region: DNA_pol3_delta; pfam06144 316385001747 LPS-assembly lipoprotein RlpB; Provisional; Region: PRK10796 316385001748 leucyl-tRNA synthetase; Validated; Region: leuS; PRK00390 316385001749 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 316385001750 HIGH motif; other site 316385001751 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 316385001752 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 316385001753 active site 316385001754 KMSKS motif; other site 316385001755 Anticodon-binding domain of bacterial and eukaryotic mitochondrial leucyl tRNA synthetases; Region: Anticodon_Ia_Leu_BEm; cd07958 316385001756 tRNA binding surface [nucleotide binding]; other site 316385001757 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 316385001758 hypothetical protein; Provisional; Region: PRK11032 316385001759 4-hydroxybenzoate polyprenyltransferase and related prenyltransferases [Coenzyme metabolism]; Region: UbiA; cl00337 316385001760 Sel1-like repeats; Region: SEL1; smart00671 316385001761 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 316385001762 Sel1-like repeats; Region: SEL1; smart00671 316385001763 Sel1-like repeats; Region: SEL1; smart00671 316385001764 Sel1-like repeats; Region: SEL1; smart00671 316385001765 Sel1-like repeats; Region: SEL1; smart00671 316385001766 Sel1-like repeats; Region: SEL1; smart00671 316385001767 Sel1-like repeats; Region: SEL1; smart00671 316385001768 Protein of unknown function (DUF1266); Region: DUF1266; pfam06889 316385001769 DnaJ molecular chaperone homology domain; Region: DnaJ; smart00271 316385001770 HSP70 interaction site [polypeptide binding]; other site 316385001771 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 316385001772 Sel1-like repeats; Region: SEL1; smart00671 316385001773 Sel1-like repeats; Region: SEL1; smart00671 316385001774 Sel1 repeat; Region: Sel1; cl02723 316385001775 Protein of unknown function (DUF1266); Region: DUF1266; pfam06889 316385001776 DnaJ domain or J-domain. DnaJ/Hsp40 (heat shock protein 40) proteins are highly conserved and play crucial roles in protein translation, folding, unfolding, translocation, and degradation. They act primarily by stimulating the ATPase activity of Hsp70s; Region: DnaJ; cl02542 316385001777 Molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: DnaK; COG0443 316385001778 Nucleotide-binding domain of Escherichia coli HscC and similar proteins; Region: HscC_like_NBD; cd10235 316385001779 nucleotide binding site [chemical binding]; other site 316385001780 putative NEF/HSP70 interaction site [polypeptide binding]; other site 316385001781 SBD interface [polypeptide binding]; other site 316385001782 nuc_hydro_IU_UC_XIUA: inosine-uridine preferring, xanthosine-inosine-uridine-adenosine-preferring and, uridine-cytidine preferring nucleoside hydrolases. Nucleoside hydrolases cleave the N-glycosidic bond in nucleosides generating ribose and the...; Region: nuc_hydro_IU_UC_XIUA; cd02651 316385001783 active site 316385001784 tetramer interface [polypeptide binding]; other site 316385001785 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 316385001786 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 316385001787 Walker A/P-loop; other site 316385001788 ATP binding site [chemical binding]; other site 316385001789 Q-loop/lid; other site 316385001790 ABC transporter signature motif; other site 316385001791 Walker B; other site 316385001792 D-loop; other site 316385001793 H-loop/switch region; other site 316385001794 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 316385001795 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 316385001796 dimer interface [polypeptide binding]; other site 316385001797 conserved gate region; other site 316385001798 putative PBP binding loops; other site 316385001799 ABC-ATPase subunit interface; other site 316385001800 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 316385001801 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 316385001802 dimer interface [polypeptide binding]; other site 316385001803 conserved gate region; other site 316385001804 putative PBP binding loops; other site 316385001805 ABC-ATPase subunit interface; other site 316385001806 Bacterial periplasmic substrate-binding proteins; Region: PBPb; smart00062 316385001807 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 316385001808 substrate binding pocket [chemical binding]; other site 316385001809 membrane-bound complex binding site; other site 316385001810 hinge residues; other site 316385001811 Transposase domain (DUF772); Region: DUF772; pfam05598 316385001812 Transposase and inactivated derivatives, IS5 family [DNA replication, recombination, and repair]; Region: COG3039 316385001813 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 316385001814 DLP12 prophage; truncated outer membrane porin (pseudogene) 316385001815 Lysis protein S; Region: Lysis_S; pfam04971 316385001816 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 316385001817 catalytic residues [active] 316385001818 Bacteriophage lysis protein; Region: Phage_lysis; pfam03245 316385001819 Lipoprotein Rz1 precursor; Region: Rz1; pfam06085 316385001820 Bor protein; Region: Lambda_Bor; pfam06291 316385001821 Protein of unknown function (DUF1398); Region: DUF1398; pfam07166 316385001822 Phage DNA packaging protein Nu1; Region: Phage_Nu1; pfam07471 316385001823 DLP12 prophage; predicted tail fiber assembly protein (pseudogene) 316385001824 DLP12 prophage; predicted SAM-dependent methyltransferase 316385001825 DLP12 prophage; predicted protein 316385001826 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 316385001827 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 316385001828 outer membrane protease; Reviewed; Region: PRK10993 316385001829 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 316385001830 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 316385001831 hypothetical protein; Provisional; Region: PRK09936 316385001832 bacteriophage N4 receptor, outer membrane subunit; Provisional; Region: PRK09782 316385001833 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 316385001834 TPR motif; other site 316385001835 binding surface 316385001836 Bacteriophage N adsorption protein A C-term; Region: NfrA_C; pfam13283 316385001837 bacteriophage N4 adsorption protein B; Provisional; Region: nfrB; PRK11234 316385001838 active site 316385001839 Glycosyl transferase family group 2; Region: Glyco_trans_2_3; pfam13632 316385001840 Type II secretion system (T2SS), protein E, N-terminal domain; Region: T2SE_Nter; pfam05157 316385001841 sensor kinase CusS; Provisional; Region: PRK09835 316385001842 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 316385001843 dimerization interface [polypeptide binding]; other site 316385001844 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 316385001845 dimer interface [polypeptide binding]; other site 316385001846 phosphorylation site [posttranslational modification] 316385001847 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 316385001848 ATP binding site [chemical binding]; other site 316385001849 Mg2+ binding site [ion binding]; other site 316385001850 G-X-G motif; other site 316385001851 DNA-binding transcriptional activator CusR; Provisional; Region: PRK09836 316385001852 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 316385001853 active site 316385001854 phosphorylation site [posttranslational modification] 316385001855 intermolecular recognition site; other site 316385001856 dimerization interface [polypeptide binding]; other site 316385001857 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 316385001858 DNA binding site [nucleotide binding] 316385001859 copper/silver efflux system outer membrane protein CusC; Provisional; Region: PRK09837 316385001860 periplasmic copper-binding protein; Provisional; Region: PRK09838 316385001861 copper/silver efflux system membrane fusion protein CusB; Provisional; Region: PRK09783 316385001862 HlyD family secretion protein; Region: HlyD_3; pfam13437 316385001863 heavy metal efflux pump, CzcA family; Region: 2A0601; TIGR00914 316385001864 phenylalanine transporter; Provisional; Region: PRK10249 316385001865 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 316385001866 Mechanosensitive ion channel; Region: MS_channel; pfam00924 316385001867 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 316385001868 dimer interface [polypeptide binding]; other site 316385001869 FMN binding site [chemical binding]; other site 316385001870 hypothetical protein; Provisional; Region: PRK10250 316385001871 Protein of unknown function (DUF1158); Region: DUF1158; pfam06643 316385001872 gamma-glutamyl:cysteine ligase; Provisional; Region: PRK13516 316385001873 carboxylate-amine ligase, YbdK family; Region: gshA_cyan_rel; TIGR02050 316385001874 Hok/gef family; Region: HOK_GEF; pfam01848 316385001875 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 316385001876 FOG: Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3385 316385001877 phosphopantetheinyltransferase component of enterobactin synthase multienzyme complex; Provisional; Region: PRK10251 316385001878 4'-phosphopantetheinyl transferase superfamily; Region: ACPS; pfam01648 316385001879 outer membrane receptor FepA; Provisional; Region: PRK13524 316385001880 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 316385001881 N-terminal plug; other site 316385001882 ligand-binding site [chemical binding]; other site 316385001883 enterobactin/ferric enterobactin esterase; Provisional; Region: PRK10439 316385001884 Domain of unknown function (DUF3327); Region: DUF3327; pfam11806 316385001885 Predicted hydrolase of the alpha/beta superfamily [General function prediction only]; Region: COG2819 316385001886 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3251 316385001887 enterobactin synthase subunit F; Provisional; Region: entF; PRK10252 316385001888 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 316385001889 acyl-activating enzyme (AAE) consensus motif; other site 316385001890 AMP binding site [chemical binding]; other site 316385001891 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 316385001892 LPS O-antigen length regulator; Provisional; Region: PRK10381 316385001893 Chain length determinant protein; Region: Wzz; pfam02706 316385001894 G-rich domain on putative tyrosine kinase; Region: GNVR; pfam13807 316385001895 iron-enterobactin transporter ATP-binding protein; Provisional; Region: PRK10253 316385001896 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 316385001897 Walker A/P-loop; other site 316385001898 ATP binding site [chemical binding]; other site 316385001899 Q-loop/lid; other site 316385001900 ABC transporter signature motif; other site 316385001901 Walker B; other site 316385001902 D-loop; other site 316385001903 H-loop/switch region; other site 316385001904 ABC-type enterobactin transport system, permease component [Inorganic ion transport and metabolism]; Region: FepG; COG4779 316385001905 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 316385001906 ABC-ATPase subunit interface; other site 316385001907 dimer interface [polypeptide binding]; other site 316385001908 putative PBP binding regions; other site 316385001909 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 316385001910 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 316385001911 ABC-ATPase subunit interface; other site 316385001912 dimer interface [polypeptide binding]; other site 316385001913 putative PBP binding regions; other site 316385001914 enterobactin exporter EntS; Provisional; Region: PRK10489 316385001915 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 316385001916 putative substrate translocation pore; other site 316385001917 iron-enterobactin transporter periplasmic binding protein; Provisional; Region: PRK10957 316385001918 Fe3+-siderophore binding domain FhuD. These proteins have been shown to function as initial receptors in ABC transport of Fe3+-siderophores in many eubacterial species. They belong to the TroA-like superfamily of helical backbone metal receptor proteins...; Region: FhuD; cd01146 316385001919 siderophore binding site; other site 316385001920 isochorismate synthase EntC; Provisional; Region: PRK15016 316385001921 chorismate binding enzyme; Region: Chorismate_bind; pfam00425 316385001922 enterobactin synthase subunit E; Provisional; Region: entE; PRK10946 316385001923 2,3-dihydroxybenzoate-AMP ligase; Region: 23DHB-AMP_lg; cd05920 316385001924 acyl-activating enzyme (AAE) consensus motif; other site 316385001925 active site 316385001926 AMP binding site [chemical binding]; other site 316385001927 substrate binding site [chemical binding]; other site 316385001928 Isochorismatase, also known as 2,3 dihydro-2,3 dihydroxybenzoate synthase, catalyses the conversion of isochorismate, in the presence of water, to 2,3-dihydroxybenzoate and pyruvate, via the hydrolysis of a vinyl ether, an uncommon reaction in biological...; Region: isochorismatase; cd01013 316385001929 hydrophobic substrate binding pocket; other site 316385001930 Isochorismatase family; Region: Isochorismatase; pfam00857 316385001931 active site 316385001932 conserved cis-peptide bond; other site 316385001933 Aryl carrier domain [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3433 316385001934 2,3-dihydroxybenzoate-2,3-dehydrogenase; Validated; Region: PRK08220 316385001935 2,3 dihydro-2,3 dihydrozybenzoate dehydrogenases, classical (c) SDRs; Region: DH-DHB-DH_SDR_c; cd05331 316385001936 putative NAD(P) binding site [chemical binding]; other site 316385001937 active site 316385001938 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 316385001939 CoenzymeA binding site [chemical binding]; other site 316385001940 subunit interaction site [polypeptide binding]; other site 316385001941 PHB binding site; other site 316385001942 carbon starvation protein A; Provisional; Region: PRK15015 316385001943 Carbon starvation protein CstA; Region: CstA; pfam02554 316385001944 C-terminal domain on CstA (DUF4161); Region: DUF4161; pfam13722 316385001945 Uncharacterized small protein [Function unknown]; Region: COG2879 316385001946 Glycerol dehydrogenase and related enzymes [Energy production and conversion]; Region: GldA; COG0371 316385001947 Glycerol dehydrogenases-like; Region: GlyDH-like1; cd08172 316385001948 putative active site [active] 316385001949 metal binding site [ion binding]; metal-binding site 316385001950 methionine aminotransferase; Validated; Region: PRK09082 316385001951 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 316385001952 pyridoxal 5'-phosphate binding site [chemical binding]; other site 316385001953 homodimer interface [polypeptide binding]; other site 316385001954 catalytic residue [active] 316385001955 Stage 0 sporulation protein J (antagonist of Soj) containing ParB-like nuclease domain [Transcription]; Region: Spo0J; COG1475 316385001956 ParB-like nuclease domain; Region: ParBc; pfam02195 316385001957 Predicted phosphoadenosine phosphosulfate sulfotransferase [General function prediction only]; Region: COG3969 316385001958 This domain is found in phosphoadenosine phosphosulphate (PAPS) reductase enzymes or PAPS sulphotransferase. PAPS reductase is part of the adenine nucleotide alpha hydrolases superfamily also including N type ATP PPases and ATP sulphurylases. A highly...; Region: PAPS_reductase; cd01713 316385001959 Active Sites [active] 316385001960 Domain of unknown function (DUF3440); Region: DUF3440; pfam11922 316385001961 putative DNA-binding transcriptional regulator; Provisional; Region: PRK11482 316385001962 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 316385001963 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 316385001964 disulfide isomerase/thiol-disulfide oxidase; Provisional; Region: dsbG; PRK11657 316385001965 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 316385001966 dimerization domain [polypeptide binding]; other site 316385001967 dimer interface [polypeptide binding]; other site 316385001968 catalytic residues [active] 316385001969 alkyl hydroperoxide reductase subunit C; Provisional; Region: PRK10382 316385001970 Peroxiredoxin (PRX) family, Typical 2-Cys PRX subfamily; PRXs are thiol-specific antioxidant (TSA) proteins, which confer a protective role in cells through its peroxidase activity by reducing hydrogen peroxide, peroxynitrite, and organic hydroperoxides; Region: PRX_Typ2cys; cd03015 316385001971 dimer interface [polypeptide binding]; other site 316385001972 decamer (pentamer of dimers) interface [polypeptide binding]; other site 316385001973 catalytic triad [active] 316385001974 peroxidatic and resolving cysteines [active] 316385001975 alkyl hydroperoxide reductase subunit F; Provisional; Region: PRK15317 316385001976 Alkyl hydroperoxide reductase F subunit (AhpF) N-terminal domain (NTD) family, N-terminal TRX-fold subdomain; AhpF is a homodimeric flavoenzyme which catalyzes the NADH-dependent reduction of the peroxiredoxin AhpC, which in turn catalyzes the reduction...; Region: AhpF_NTD_N; cd02974 316385001977 catalytic residue [active] 316385001978 TRX-GRX-like family, Alkyl hydroperoxide reductase F subunit (AhpF) N-terminal domain (NTD) subfamily, C-terminal TRX-fold subdomain; AhpF is a homodimeric flavoenzyme which catalyzes the NADH-dependent reduction of the peroxiredoxin AhpC, which then...; Region: AhpF_NTD_C; cd03026 316385001979 catalytic residues [active] 316385001980 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 316385001981 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 316385001982 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 316385001983 Ligand Binding Site [chemical binding]; other site 316385001984 Glutathione-dependent formaldehyde dehydrogenase related proteins, child 1; Region: FDH_like_1; cd08283 316385001985 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 316385001986 NAD binding site [chemical binding]; other site 316385001987 catalytic Zn binding site [ion binding]; other site 316385001988 structural Zn binding site [ion binding]; other site 316385001989 nucleoside diphosphate kinase regulator; Provisional; Region: PRK05753 316385001990 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 316385001991 Ribonuclease T2 (RNase T2) is a widespread family of secreted RNases found in every organism examined thus far. This family includes RNase Rh, RNase MC1, RNase LE, and self-incompatibility RNases (S-RNases). Plant T2 RNases are expressed during leaf...; Region: RNase_T2_prok; cd01062 316385001992 B1 nucleotide binding pocket [chemical binding]; other site 316385001993 B2 nucleotide binding pocket [chemical binding]; other site 316385001994 CAS motifs; other site 316385001995 active site 316385001996 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 316385001997 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cd00625 316385001998 transmembrane helices; other site 316385001999 triphosphoribosyl-dephospho-CoA synthase; Provisional; Region: citG; PRK10096 316385002000 Phosphoribosyl-dephospho-CoA transferase (holo-ACP synthetase) [Coenzyme metabolism / Lipid metabolism]; Region: CitX; COG3697 316385002001 Citrate lyase, alpha subunit [Energy production and conversion]; Region: CitF; COG3051 316385002002 HpcH/HpaI aldolase/citrate lyase family; Region: HpcH_HpaI; cl17231 316385002003 Citrate lyase, gamma subunit [Energy production and conversion]; Region: CitD; COG3052 316385002004 Citrate lyase synthetase [Energy production and conversion]; Region: CitC; COG3053 316385002005 Citrate lyase ligase; Region: Citrate_lyase_ligase; cd02169 316385002006 putative active site [active] 316385002007 (T/H)XGH motif; other site 316385002008 sensor histidine kinase DpiB; Provisional; Region: dpiB; PRK15053 316385002009 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 316385002010 putative active site [active] 316385002011 heme pocket [chemical binding]; other site 316385002012 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 316385002013 ATP binding site [chemical binding]; other site 316385002014 Mg2+ binding site [ion binding]; other site 316385002015 G-X-G motif; other site 316385002016 two-component response regulator DpiA; Provisional; Region: dpiA; PRK10046 316385002017 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 316385002018 active site 316385002019 phosphorylation site [posttranslational modification] 316385002020 intermolecular recognition site; other site 316385002021 dimerization interface [polypeptide binding]; other site 316385002022 Transcriptional regulator; Region: CitT; pfam12431 316385002023 C4-dicarboxylate transporter DcuC; Provisional; Region: dcuC; PRK10654 316385002024 C4-dicarboxylate anaerobic carrier; Region: DcuC; pfam03606 316385002025 phospholipid:lipid A palmitoyltransferase; Provisional; Region: pagP; PRK11045 316385002026 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 316385002027 DNA-binding site [nucleotide binding]; DNA binding site 316385002028 RNA-binding motif; other site 316385002029 chromosome condensation membrane protein; Provisional; Region: PRK14196 316385002030 predicted protein (pseudogene); interrupted by frameshift 316385002031 twin arginine translocase protein E; Validated; Region: tatE; PRK03625 316385002032 lipoyl synthase; Provisional; Region: PRK05481 316385002033 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 316385002034 FeS/SAM binding site; other site 316385002035 putative DNA-binding transcriptional regulator; Provisional; Region: PRK11482 316385002036 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 316385002037 The C-terminal substrate binding domain of LysR-type transcriptional regulators that involved in the catabolism of nitroaromatic/naphthalene compounds and that of related regulators; contains the type 2 periplasmic binding fold; Region: PBP2_Nitroaromatics_like; cd08417 316385002038 substrate binding pocket [chemical binding]; other site 316385002039 dimerization interface [polypeptide binding]; other site 316385002040 lipoate-protein ligase B; Provisional; Region: PRK14342 316385002041 hypothetical protein; Provisional; Region: PRK04998 316385002042 D-alanyl-D-alanine carboxypeptidase fraction A; Provisional; Region: PRK10793 316385002043 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 316385002044 Penicillin-binding protein 5, C-terminal domain; Region: PBP5_C; smart00936 316385002045 rare lipoprotein A; Provisional; Region: PRK10672 316385002046 Rare lipoprotein A (RlpA)-like double-psi beta-barrel; Region: DPBB_1; pfam03330 316385002047 Sporulation related domain; Region: SPOR; pfam05036 316385002048 cell wall shape-determining protein; Provisional; Region: PRK10794 316385002049 penicillin-binding protein 2; Provisional; Region: PRK10795 316385002050 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 316385002051 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 316385002052 rRNA large subunit m3Psi methyltransferase RlmH; Region: tRNA_RlmH_YbeA; TIGR00246 316385002053 ribosome-associated protein; Provisional; Region: PRK11538 316385002054 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 316385002055 catalytic core [active] 316385002056 nicotinic acid mononucleotide adenylyltransferase; Provisional; Region: nadD; PRK00071 316385002057 Nicotinamide/nicotinate mononucleotide adenylyltransferase; Region: NMNAT; cd02165 316385002058 active site 316385002059 (T/H)XGH motif; other site 316385002060 DNA polymerase III subunit delta; Reviewed; Region: holA; PRK05574 316385002061 DNA polymerase III, delta subunit; Region: DNA_pol3_delta; pfam06144 316385002062 LPS-assembly lipoprotein RlpB; Provisional; Region: PRK10796 316385002063 leucyl-tRNA synthetase; Validated; Region: leuS; PRK00390 316385002064 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 316385002065 HIGH motif; other site 316385002066 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 316385002067 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 316385002068 active site 316385002069 KMSKS motif; other site 316385002070 Anticodon-binding domain of bacterial and eukaryotic mitochondrial leucyl tRNA synthetases; Region: Anticodon_Ia_Leu_BEm; cd07958 316385002071 tRNA binding surface [nucleotide binding]; other site 316385002072 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 316385002073 hypothetical protein; Provisional; Region: PRK11032 316385002074 4-hydroxybenzoate polyprenyltransferase and related prenyltransferases [Coenzyme metabolism]; Region: UbiA; cl00337 316385002075 Sel1-like repeats; Region: SEL1; smart00671 316385002076 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 316385002077 Sel1-like repeats; Region: SEL1; smart00671 316385002078 Sel1-like repeats; Region: SEL1; smart00671 316385002079 Sel1-like repeats; Region: SEL1; smart00671 316385002080 Sel1-like repeats; Region: SEL1; smart00671 316385002081 Sel1-like repeats; Region: SEL1; smart00671 316385002082 Sel1-like repeats; Region: SEL1; smart00671 316385002083 Protein of unknown function (DUF1266); Region: DUF1266; pfam06889 316385002084 DnaJ molecular chaperone homology domain; Region: DnaJ; smart00271 316385002085 HSP70 interaction site [polypeptide binding]; other site 316385002086 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 316385002087 Sel1-like repeats; Region: SEL1; smart00671 316385002088 Sel1-like repeats; Region: SEL1; smart00671 316385002089 Sel1 repeat; Region: Sel1; cl02723 316385002090 Protein of unknown function (DUF1266); Region: DUF1266; pfam06889 316385002091 DnaJ domain or J-domain. DnaJ/Hsp40 (heat shock protein 40) proteins are highly conserved and play crucial roles in protein translation, folding, unfolding, translocation, and degradation. They act primarily by stimulating the ATPase activity of Hsp70s; Region: DnaJ; cl02542 316385002092 Molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: DnaK; COG0443 316385002093 Nucleotide-binding domain of Escherichia coli HscC and similar proteins; Region: HscC_like_NBD; cd10235 316385002094 nucleotide binding site [chemical binding]; other site 316385002095 putative NEF/HSP70 interaction site [polypeptide binding]; other site 316385002096 SBD interface [polypeptide binding]; other site 316385002097 nuc_hydro_IU_UC_XIUA: inosine-uridine preferring, xanthosine-inosine-uridine-adenosine-preferring and, uridine-cytidine preferring nucleoside hydrolases. Nucleoside hydrolases cleave the N-glycosidic bond in nucleosides generating ribose and the...; Region: nuc_hydro_IU_UC_XIUA; cd02651 316385002098 active site 316385002099 tetramer interface [polypeptide binding]; other site 316385002100 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 316385002101 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 316385002102 Walker A/P-loop; other site 316385002103 ATP binding site [chemical binding]; other site 316385002104 Q-loop/lid; other site 316385002105 ABC transporter signature motif; other site 316385002106 Walker B; other site 316385002107 D-loop; other site 316385002108 H-loop/switch region; other site 316385002109 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 316385002110 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 316385002111 dimer interface [polypeptide binding]; other site 316385002112 conserved gate region; other site 316385002113 putative PBP binding loops; other site 316385002114 ABC-ATPase subunit interface; other site 316385002115 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 316385002116 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 316385002117 dimer interface [polypeptide binding]; other site 316385002118 conserved gate region; other site 316385002119 putative PBP binding loops; other site 316385002120 ABC-ATPase subunit interface; other site 316385002121 Bacterial periplasmic substrate-binding proteins; Region: PBPb; smart00062 316385002122 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 316385002123 substrate binding pocket [chemical binding]; other site 316385002124 membrane-bound complex binding site; other site 316385002125 hinge residues; other site 316385002126 Transposase domain (DUF772); Region: DUF772; pfam05598 316385002127 Transposase and inactivated derivatives, IS5 family [DNA replication, recombination, and repair]; Region: COG3039 316385002128 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 316385002129 apolipoprotein N-acyltransferase; Reviewed; Region: lnt; PRK00302 316385002130 Apolipoprotein N-acyl transferase (class 9 nitrilases); Region: ALP_N-acyl_transferase; cd07571 316385002131 putative active site [active] 316385002132 catalytic triad [active] 316385002133 putative dimer interface [polypeptide binding]; other site 316385002134 magnesium/cobalt efflux protein CorC; Provisional; Region: PRK15094 316385002135 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 316385002136 Transporter associated domain; Region: CorC_HlyC; smart01091 316385002137 metal-binding heat shock protein; Provisional; Region: PRK00016 316385002138 Phosphate starvation-inducible protein PhoH, predicted ATPase [Signal transduction mechanisms]; Region: PhoH; COG1702 316385002139 PhoH-like protein; Region: PhoH; pfam02562 316385002140 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional; Region: PRK14325 316385002141 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 316385002142 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 316385002143 FeS/SAM binding site; other site 316385002144 TRAM domain; Region: TRAM; pfam01938 316385002145 2-octaprenyl-3-methyl-6-methoxy-1,4-benzoquinol hydroxylase; Reviewed; Region: ubiF; PRK08020 316385002146 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 316385002147 asparagine synthetase B; Provisional; Region: asnB; PRK09431 316385002148 Glutamine amidotransferases class-II (GATase) asparagine synthase_B type. Asparagine synthetase B catalyses the ATP-dependent conversion of aspartate to asparagine. This enzyme is a homodimer, with each monomer composed of a glutaminase domain and a...; Region: AsnB; cd00712 316385002149 active site 316385002150 dimer interface [polypeptide binding]; other site 316385002151 The C-terminal domain of Asparagine Synthase B. This domain is always found associated n-terminal amidotransferase domain. Family members that contain this domain catalyse the conversion of aspartate to asparagine. Asparagine synthetase B catalyzes the...; Region: Asn_Synthase_B_C; cd01991 316385002152 Ligand Binding Site [chemical binding]; other site 316385002153 Molecular Tunnel; other site 316385002154 UMP phosphatase; Provisional; Region: PRK10444 316385002155 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 316385002156 active site 316385002157 motif I; other site 316385002158 motif II; other site 316385002159 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 316385002160 MarR family; Region: MarR; pfam01047 316385002161 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 316385002162 ROK family; Region: ROK; pfam00480 316385002163 N-acetylglucosamine-6-phosphate deacetylase; Region: nagA; TIGR00221 316385002164 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 316385002165 active site 316385002166 dimer interface [polypeptide binding]; other site 316385002167 6-phosphogluconolactonase/Glucosamine-6-phosphate isomerase/deaminase [Carbohydrate transport and metabolism]; Region: NagB; COG0363 316385002168 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 316385002169 active site 316385002170 trimer interface [polypeptide binding]; other site 316385002171 allosteric site; other site 316385002172 active site lid [active] 316385002173 hexamer (dimer of trimers) interface [polypeptide binding]; other site 316385002174 PTS system N-acetyl glucosamine specific transporter subunits IIABC; Provisional; Region: PRK10255 316385002175 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 316385002176 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 316385002177 active site turn [active] 316385002178 phosphorylation site [posttranslational modification] 316385002179 PTS_IIA, PTS system, glucose/sucrose specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIA_glc; cd00210 316385002180 HPr interaction site; other site 316385002181 glycerol kinase (GK) interaction site [polypeptide binding]; other site 316385002182 active site 316385002183 phosphorylation site [posttranslational modification] 316385002184 glutaminyl-tRNA synthetase; Provisional; Region: PRK05347 316385002185 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 316385002186 active site 316385002187 HIGH motif; other site 316385002188 nucleotide binding site [chemical binding]; other site 316385002189 catalytic core domain of glutaminyl-tRNA synthetase; Region: GlnRS_core; cd00807 316385002190 KMSKS motif; other site 316385002191 tRNA synthetases class I (E and Q), anti-codon binding domain; Region: tRNA-synt_1c_C; pfam03950 316385002192 outer membrane porin, OprD family; Region: OprD; pfam03573 316385002193 YbfN-like lipoprotein; Region: YbfN; pfam13982 316385002194 ferric uptake regulator; Provisional; Region: fur; PRK09462 316385002195 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 316385002196 metal binding site 2 [ion binding]; metal-binding site 316385002197 putative DNA binding helix; other site 316385002198 metal binding site 1 [ion binding]; metal-binding site 316385002199 dimer interface [polypeptide binding]; other site 316385002200 structural Zn2+ binding site [ion binding]; other site 316385002201 flavodoxin FldA; Validated; Region: PRK09267 316385002202 LexA regulated protein; Provisional; Region: PRK11675 316385002203 acyl-CoA esterase; Provisional; Region: PRK10673 316385002204 PGAP1-like protein; Region: PGAP1; pfam07819 316385002205 replication initiation regulator SeqA; Provisional; Region: PRK11187 316385002206 phosphoglucomutase, alpha-D-glucose phosphate-specific; Region: pgm; TIGR01132 316385002207 This bacterial PGM-like (phosphoglucomutase-like) protein of unknown function belongs to the alpha-D-phosphohexomutase superfamily. The alpha-D-phosphohexomutases include several related enzymes that catalyze a reversible intramolecular phosphoryl...; Region: PGM_like3; cd05801 316385002208 active site 316385002209 substrate binding site [chemical binding]; other site 316385002210 metal binding site [ion binding]; metal-binding site 316385002211 predicted protein (pseudogene) 316385002212 putrescine transporter; Provisional; Region: potE; PRK10655 316385002213 Tryptophan/tyrosine permease family; Region: Trp_Tyr_perm; cl17316 316385002214 ornithine decarboxylase; Provisional; Region: PRK13578 316385002215 Orn/Lys/Arg decarboxylase, N-terminal domain; Region: OKR_DC_1_N; pfam03709 316385002216 Ornithine decarboxylase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD corresponds to ornithine decarboxylase (ODC), arginine decarboxylase (ADC) and lysine...; Region: Orn_deC_like; cd00615 316385002217 homodimer interface [polypeptide binding]; other site 316385002218 pyridoxal 5'-phosphate binding site [chemical binding]; other site 316385002219 catalytic residue [active] 316385002220 Orn/Lys/Arg decarboxylase, C-terminal domain; Region: OKR_DC_1_C; pfam03711 316385002221 DNA-binding transcriptional activator KdpE; Provisional; Region: PRK10529 316385002222 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 316385002223 active site 316385002224 phosphorylation site [posttranslational modification] 316385002225 intermolecular recognition site; other site 316385002226 dimerization interface [polypeptide binding]; other site 316385002227 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 316385002228 DNA binding site [nucleotide binding] 316385002229 sensor protein KdpD; Provisional; Region: PRK10490 316385002230 Osmosensitive K+ channel His kinase sensor domain; Region: KdpD; pfam02702 316385002231 USP domain is located between the N-terminal sensor domain and C-terminal catalytic domain of this Osmosensitive K+ channel histidine kinase family. The family of KdpD sensor kinase proteins regulates the kdpFABC operon responsible for potassium...; Region: USP_OKCHK; cd01987 316385002232 Ligand Binding Site [chemical binding]; other site 316385002233 Domain of unknown function (DUF4118); Region: DUF4118; pfam13493 316385002234 GAF domain; Region: GAF_3; pfam13492 316385002235 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 316385002236 dimer interface [polypeptide binding]; other site 316385002237 phosphorylation site [posttranslational modification] 316385002238 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 316385002239 ATP binding site [chemical binding]; other site 316385002240 Mg2+ binding site [ion binding]; other site 316385002241 G-X-G motif; other site 316385002242 potassium-transporting ATPase subunit C; Reviewed; Region: PRK00315 316385002243 potassium-transporting ATPase subunit B; Provisional; Region: PRK01122 316385002244 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 316385002245 potassium-transporting ATPase subunit A; Provisional; Region: PRK05482 316385002246 Protein of unknown function (DUF2517); Region: DUF2517; pfam10725 316385002247 PAAR motif; Region: PAAR_motif; cl15808 316385002248 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 316385002249 RHS Repeat; Region: RHS_repeat; pfam05593 316385002250 RHS Repeat; Region: RHS_repeat; pfam05593 316385002251 RHS Repeat; Region: RHS_repeat; pfam05593 316385002252 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 316385002253 RHS Repeat; Region: RHS_repeat; pfam05593 316385002254 RHS Repeat; Region: RHS_repeat; pfam05593 316385002255 RHS protein; Region: RHS; pfam03527 316385002256 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 316385002257 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 316385002258 RHS protein; Region: RHS; pfam03527 316385002259 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 316385002260 DDE_Tnp_1-associated; Region: DDE_Tnp_1_assoc; pfam13808 316385002261 predicted transposase (pseudogene) 316385002262 DDE_Tnp_1-associated; Region: DDE_Tnp_1_assoc; pfam13808 316385002263 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 316385002264 Transposase [DNA replication, recombination, and repair]; Region: COG5433 316385002265 hypothetical protein; Provisional; Region: PRK10167 316385002266 Uncharacterized conserved protein [Function unknown]; Region: COG3272 316385002267 deoxyribodipyrimidine photolyase; Provisional; Region: PRK10674 316385002268 DNA photolyase; Region: DNA_photolyase; pfam00875 316385002269 Dipeptide/tripeptide permease [Amino acid transport and metabolism]; Region: PTR2; COG3104 316385002270 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 316385002271 putative substrate translocation pore; other site 316385002272 POT family; Region: PTR2; pfam00854 316385002273 Uncharacterized conserved protein [Function unknown]; Region: COG0327 316385002274 metal-binding protein; Provisional; Region: PRK10799 316385002275 Allophanate hydrolase subunit 1; Region: AHS1; pfam02682 316385002276 sensor histidine kinase inhibitor, KipI family; Region: TIGR00370 316385002277 biotin-dependent carboxylase uncharacterized domain; Region: urea_amlyse_rel; TIGR00724 316385002278 Escherichia coli putative lactam utilization protein YbgL and similar proteins; Region: LamB_YcsF_YbgL_like; cd10800 316385002279 putative active site [active] 316385002280 endonuclease VIII; Provisional; Region: PRK10445 316385002281 N-terminal domain of Escherichia coli Nei/endonuclease VIII and related DNA glycosylases; Region: EcNei-like_N; cd08965 316385002282 DNA binding site [nucleotide binding] 316385002283 catalytic residue [active] 316385002284 putative catalytic residues [active] 316385002285 H2TH interface [polypeptide binding]; other site 316385002286 intercalation triad [nucleotide binding]; other site 316385002287 substrate specificity determining residue; other site 316385002288 Formamidopyrimidine-DNA glycosylase H2TH domain; Region: H2TH; pfam06831 316385002289 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 316385002290 Putative ammonia monooxygenase [General function prediction only]; Region: AbrB; COG3180 316385002291 membrane protein AbrB duplication; Region: Gneg_AbrB_dup; TIGR03082 316385002292 membrane protein AbrB duplication; Region: Gneg_AbrB_dup; TIGR03082 316385002293 Fimbrial protein; Region: Fimbrial; pfam00419 316385002294 P pilus assembly protein, chaperone PapD [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimC; COG3121 316385002295 Gram-negative pili assembly chaperone, N-terminal domain; Region: Pili_assembly_N; pfam00345 316385002296 Gram-negative pili assembly chaperone, C-terminal domain; Region: Pili_assembly_C; pfam02753 316385002297 P pilus assembly protein, porin PapC [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimD; COG3188 316385002298 PapC N-terminal domain; Region: PapC_N; pfam13954 316385002299 Type VII secretion system (T7SS), usher protein; Region: Usher; pfam00577 316385002300 PapC C-terminal domain; Region: PapC_C; pfam13953 316385002301 P pilus assembly protein, pilin FimA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimA; COG3539 316385002302 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 316385002303 Citrate synthase [Energy production and conversion]; Region: GltA; COG0372 316385002304 dimer interface [polypeptide binding]; other site 316385002305 active site 316385002306 citrylCoA binding site [chemical binding]; other site 316385002307 NADH binding [chemical binding]; other site 316385002308 cationic pore residues; other site 316385002309 oxalacetate/citrate binding site [chemical binding]; other site 316385002310 coenzyme A binding site [chemical binding]; other site 316385002311 catalytic triad [active] 316385002312 Succinate:quinone oxidoreductase (SQR) Type C subfamily, Succinate dehydrogenase C (SdhC) subunit; composed of bacterial SdhC and eukaryotic large cytochrome b binding (CybL) proteins. SQR catalyzes the oxidation of succinate to fumarate coupled to the...; Region: SQR_TypeC_SdhC; cd03499 316385002313 Iron-sulfur protein interface; other site 316385002314 proximal quinone binding site [chemical binding]; other site 316385002315 SdhD (CybS) interface [polypeptide binding]; other site 316385002316 proximal heme binding site [chemical binding]; other site 316385002317 Succinate:quinone oxidoreductase (SQR) Type C subfamily, Succinate dehydrogenase D (SdhD) subunit; SQR catalyzes the oxidation of succinate to fumarate coupled to the reduction of quinone to quinol. E. coli SQR, a member of this subfamily, reduces the...; Region: SQR_TypeC_SdhD; cd03494 316385002318 SdhC subunit interface [polypeptide binding]; other site 316385002319 proximal heme binding site [chemical binding]; other site 316385002320 cardiolipin binding site; other site 316385002321 Iron-sulfur protein interface; other site 316385002322 proximal quinone binding site [chemical binding]; other site 316385002323 succinate dehydrogenase flavoprotein subunit; Reviewed; Region: sdhA; PRK08958 316385002324 L-aspartate oxidase; Provisional; Region: PRK06175 316385002325 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 316385002326 succinate dehydrogenase iron-sulfur subunit; Reviewed; Region: sdhB; PRK05950 316385002327 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_3; pfam13085 316385002328 2-oxoglutarate dehydrogenase E1 component; Reviewed; Region: sucA; PRK09404 316385002329 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 316385002330 TPP-binding site [chemical binding]; other site 316385002331 Transketolase, pyrimidine binding domain; Region: Transket_pyr; pfam02779 316385002332 dimer interface [polypeptide binding]; other site 316385002333 PYR/PP interface [polypeptide binding]; other site 316385002334 TPP binding site [chemical binding]; other site 316385002335 dihydrolipoamide succinyltransferase; Validated; Region: PRK05704 316385002336 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 316385002337 E3 interaction surface; other site 316385002338 lipoyl attachment site [posttranslational modification]; other site 316385002339 e3 binding domain; Region: E3_binding; pfam02817 316385002340 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 316385002341 succinyl-CoA synthetase subunit beta; Provisional; Region: sucC; PRK00696 316385002342 ATP-grasp domain; Region: ATP-grasp_2; pfam08442 316385002343 CoA-ligase; Region: Ligase_CoA; pfam00549 316385002344 succinyl-CoA synthetase subunit alpha; Validated; Region: PRK05678 316385002345 CoA binding domain; Region: CoA_binding; smart00881 316385002346 CoA-ligase; Region: Ligase_CoA; pfam00549 316385002347 DNA-binding transcriptional repressor MngR; Provisional; Region: PRK09764 316385002348 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 316385002349 DNA-binding site [nucleotide binding]; DNA binding site 316385002350 UTRA domain; Region: UTRA; pfam07702 316385002351 PTS system 2-O-a-mannosyl-D-glycerate specific transporter subunit IIABC; Provisional; Region: PRK09765 316385002352 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 316385002353 active site 316385002354 phosphorylation site [posttranslational modification] 316385002355 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 316385002356 active site 316385002357 P-loop; other site 316385002358 phosphorylation site [posttranslational modification] 316385002359 Phosphotransferase system, fructose-specific IIC component [Carbohydrate transport and metabolism]; Region: FruA; COG1299 316385002360 alpha-mannosidase; Provisional; Region: PRK09819 316385002361 N-terminal catalytic domain of Escherichia coli alpha-mannosidase MngB and its bacterial homologs; glycoside hydrolase family 38 (GH38); Region: GH38N_AMII_EcMngB_like; cd10815 316385002362 active site 316385002363 metal binding site [ion binding]; metal-binding site 316385002364 catalytic site [active] 316385002365 Alpha mannosidase, middle domain; Region: Alpha-mann_mid; smart00872 316385002366 cytochrome d terminal oxidase subunit 1; Provisional; Region: PRK15097 316385002367 Bacterial Cytochrome Ubiquinol Oxidase; Region: Bac_Ubq_Cox; cl00562 316385002368 cytochrome d ubiquinol oxidase subunit 2; Provisional; Region: PRK15003 316385002369 Cytochrome bd-type quinol oxidase, subunit 2 [Energy production and conversion]; Region: AppB; COG1294 316385002370 Membrane bound YbgT-like protein; Region: YbgT_YccB; cl02039 316385002371 hypothetical protein; Provisional; Region: PRK10588 316385002372 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 316385002373 active site 316385002374 colicin uptake protein TolQ; Provisional; Region: PRK10801 316385002375 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 316385002376 colicin uptake protein TolR; Provisional; Region: PRK11024 316385002377 cell envelope integrity inner membrane protein TolA; Provisional; Region: tolA; PRK09510 316385002378 cell envelope integrity inner membrane protein TolA; Provisional; Region: tolA; PRK09510 316385002379 TolA C-terminal; Region: TolA; pfam06519 316385002380 translocation protein TolB; Provisional; Region: tolB; PRK03629 316385002381 TolB amino-terminal domain; Region: TolB_N; pfam04052 316385002382 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 316385002383 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 316385002384 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 316385002385 peptidoglycan-associated outer membrane lipoprotein; Provisional; Region: PRK10802 316385002386 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 316385002387 ligand binding site [chemical binding]; other site 316385002388 tol-pal system protein YbgF; Provisional; Region: PRK10803 316385002389 Tetratricopeptide repeat; Region: TPR_6; pfam13174 316385002390 Tetratricopeptide repeat; Region: TPR_6; pfam13174 316385002391 quinolinate synthetase; Provisional; Region: PRK09375 316385002392 nicotinamide riboside transporter PnuC; Provisional; Region: PRK15397 316385002393 zinc transporter ZitB; Provisional; Region: PRK03557 316385002394 YbgS-like protein; Region: YbgS; pfam13985 316385002395 phospho-2-dehydro-3-deoxyheptonate aldolase; Validated; Region: PRK09261 316385002396 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 316385002397 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 316385002398 catalytic core [active] 316385002399 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 316385002400 galactose mutarotase_like; Region: galactose_mutarotase_like; cd09019 316385002401 active site 316385002402 catalytic residues [active] 316385002403 galactokinase (pseudogene); interrupted by IS2 insertion 316385002404 galactose-1-phosphate uridylyltransferase; Provisional; Region: PRK11720 316385002405 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 316385002406 dimer interface [polypeptide binding]; other site 316385002407 active site 316385002408 UDP-galactose-4-epimerase; Provisional; Region: PRK10675 316385002409 UDP-glucose 4 epimerase, subgroup 1, extended (e) SDRs; Region: UDP_G4E_1_SDR_e; cd05247 316385002410 NAD binding site [chemical binding]; other site 316385002411 homodimer interface [polypeptide binding]; other site 316385002412 active site 316385002413 substrate binding site [chemical binding]; other site 316385002414 putative molybdenum transport ATP-binding protein ModF; Provisional; Region: PRK10938 316385002415 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cd00267 316385002416 Walker A/P-loop; other site 316385002417 ATP binding site [chemical binding]; other site 316385002418 Q-loop/lid; other site 316385002419 ABC transporter signature motif; other site 316385002420 Walker B; other site 316385002421 D-loop; other site 316385002422 H-loop/switch region; other site 316385002423 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 316385002424 Walker A/P-loop; other site 316385002425 ATP binding site [chemical binding]; other site 316385002426 Q-loop/lid; other site 316385002427 ABC transporter signature motif; other site 316385002428 Walker B; other site 316385002429 D-loop; other site 316385002430 H-loop/switch region; other site 316385002431 DNA-binding transcriptional regulator ModE; Provisional; Region: PRK10676 316385002432 N-terminal domain of molybdenum-binding protein [General function prediction only]; Region: ModE; COG2005 316385002433 molybdenum-pterin binding domain; Region: Mop; TIGR00638 316385002434 TOBE domain; Region: TOBE; pfam03459 316385002435 Protein of unknown function (DUF2592); Region: DUF2592; pfam10766 316385002436 molybdate transporter periplasmic protein; Provisional; Region: modA; PRK10677 316385002437 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 316385002438 substrate binding pocket [chemical binding]; other site 316385002439 membrane-bound complex binding site; other site 316385002440 hinge residues; other site 316385002441 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 316385002442 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 316385002443 putative PBP binding loops; other site 316385002444 ABC-ATPase subunit interface; other site 316385002445 molybdate transporter ATP-binding protein; Provisional; Region: modC; PRK11144 316385002446 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 316385002447 Walker A/P-loop; other site 316385002448 ATP binding site [chemical binding]; other site 316385002449 Q-loop/lid; other site 316385002450 ABC transporter signature motif; other site 316385002451 Walker B; other site 316385002452 D-loop; other site 316385002453 H-loop/switch region; other site 316385002454 molybdenum-pterin binding domain; Region: Mop; TIGR00638 316385002455 pyridoxal phosphate (PLP) phosphatase; Provisional; Region: PRK10530 316385002456 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 316385002457 motif II; other site 316385002458 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 316385002459 6-phosphogluconolactonase; Provisional; Region: PRK11028 316385002460 Transcriptional regulator [Transcription]; Region: LysR; COG0583 316385002461 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 316385002462 TThe C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator, contains the type 2 periplasmic binding fold; Region: PBP2_LTTR_like_4; cd08440 316385002463 putative dimerization interface [polypeptide binding]; other site 316385002464 PrpF protein; Region: PrpF; pfam04303 316385002465 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 316385002466 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cd00625 316385002467 transmembrane helices; other site 316385002468 putative hydratase; Provisional; Region: PRK11413 316385002469 Aconitase catalytic domain; Aconitase catalyzes the reversible isomerization of citrate and isocitrate as part of the TCA cycle; Region: Aconitase; cl00285 316385002470 substrate binding site [chemical binding]; other site 316385002471 ligand binding site [chemical binding]; other site 316385002472 Aconitase swivel domain. Aconitase (aconitate hydratase) catalyzes the reversible isomerization of citrate and isocitrate as part of the TCA cycle. This is the aconitase swivel domain, which undergoes swivelling conformational change in the enzyme...; Region: Aconitase_swivel; cl00215 316385002473 substrate binding site [chemical binding]; other site 316385002474 acyl-CoA thioesterase; Provisional; Region: PRK10531 316385002475 putative pectinesterase; Region: PLN02432; cl01911 316385002476 attLAM: common core of att (lambda attachment site); also att434, att92 316385002477 PhosphatidylEthanolamine-Binding Protein (PEBP) domain present in bacteria and archaea; Region: PEBP_bact_arch; cd00865 316385002478 substrate binding site [chemical binding]; other site 316385002479 adenosylmethionine--8-amino-7-oxononanoate transaminase; Validated; Region: PRK07986 316385002480 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 316385002481 inhibitor-cofactor binding pocket; inhibition site 316385002482 pyridoxal 5'-phosphate binding site [chemical binding]; other site 316385002483 catalytic residue [active] 316385002484 biotin synthase; Provisional; Region: PRK15108 316385002485 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 316385002486 FeS/SAM binding site; other site 316385002487 Biotin and Thiamin Synthesis associated domain; Region: BATS; smart00876 316385002488 pyridoxal phosphate-dependent acyltransferase, putative; Region: gly_Cac_T_rel; TIGR01825 316385002489 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 316385002490 substrate-cofactor binding pocket; other site 316385002491 pyridoxal 5'-phosphate binding site [chemical binding]; other site 316385002492 catalytic residue [active] 316385002493 biotin biosynthesis protein BioC; Region: BioC; TIGR02072 316385002494 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 316385002495 S-adenosylmethionine binding site [chemical binding]; other site 316385002496 AAA domain; Region: AAA_26; pfam13500 316385002497 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 316385002498 Dethiobiotin synthetase (DTBS) is the penultimate enzyme in the biotin biosynthesis pathway in Escherichia coli and other microorganisms. The enzyme catalyzes formation of the ureido ring of dethiobiotin from (7R,8S)-7,8-diaminononanoic acid (DAPA) and...; Region: DTBS; cd03109 316385002499 ADP binding site [chemical binding]; other site 316385002500 excinuclease ABC subunit B; Provisional; Region: PRK05298 316385002501 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 316385002502 ATP binding site [chemical binding]; other site 316385002503 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 316385002504 nucleotide binding region [chemical binding]; other site 316385002505 ATP-binding site [chemical binding]; other site 316385002506 Ultra-violet resistance protein B; Region: UvrB; pfam12344 316385002507 UvrB/uvrC motif; Region: UVR; pfam02151 316385002508 conserved hypothetical protein, cofD-related; Region: CofD_related; TIGR01826 316385002509 family of mostly uncharacterized proteins similar to B.subtilis YvcK; Region: YvcK_like; cd07187 316385002510 putative substrate binding pocket [chemical binding]; other site 316385002511 dimer interface [polypeptide binding]; other site 316385002512 phosphate binding site [ion binding]; other site 316385002513 molybdenum cofactor biosynthesis protein A; Reviewed; Region: moaA; PRK00164 316385002514 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 316385002515 FeS/SAM binding site; other site 316385002516 Molybdenum Cofactor Synthesis C; Region: Mob_synth_C; pfam06463 316385002517 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 316385002518 MPT binding site; other site 316385002519 trimer interface [polypeptide binding]; other site 316385002520 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 316385002521 trimer interface [polypeptide binding]; other site 316385002522 dimer interface [polypeptide binding]; other site 316385002523 putative active site [active] 316385002524 Ubiquitin domain of MoaD-like proteins; Region: MoaD; cd00754 316385002525 MoaE interaction surface [polypeptide binding]; other site 316385002526 MoeB interaction surface [polypeptide binding]; other site 316385002527 thiocarboxylated glycine; other site 316385002528 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 316385002529 MoaE homodimer interface [polypeptide binding]; other site 316385002530 MoaD interaction [polypeptide binding]; other site 316385002531 active site residues [active] 316385002532 Integral membrane protein, interacts with FtsH [General function prediction only]; Region: COG0670 316385002533 Bacterial BAX inhibitor (BI)-1/YccA-like proteins; Region: BI-1-like_bacterial; cd10432 316385002534 Integral membrane protein, interacts with FtsH [General function prediction only]; Region: COG0670 316385002535 Bacterial BAX inhibitor (BI)-1/YccA-like proteins; Region: BI-1-like_bacterial; cd10432 316385002536 Predicted integral membrane protein [Function unknown]; Region: COG0392 316385002537 cardiolipin synthase 2; Provisional; Region: PRK11263 316385002538 Catalytic domain, repeat 1, of bacterial cardiolipin synthase and similar proteins; Region: PLDc_CLS_1; cd09110 316385002539 putative active site [active] 316385002540 catalytic site [active] 316385002541 Catalytic domain, repeat 2, of Escherichia coli cardiolipin synthase ybhO and similar proteins; Region: PLDc_ybhO_like_2; cd09159 316385002542 putative active site [active] 316385002543 catalytic site [active] 316385002544 Metal-dependent hydrolase [General function prediction only]; Region: ElsH; COG3568 316385002545 putative catalytic site [active] 316385002546 putative metal binding site [ion binding]; other site 316385002547 putative phosphate binding site [ion binding]; other site 316385002548 Putative inner membrane protein YbhQ; Region: YbhQ; pfam11076 316385002549 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 316385002550 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 316385002551 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 316385002552 ABC-2 family transporter protein; Region: ABC2_membrane_2; pfam12679 316385002553 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 316385002554 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 316385002555 Walker A/P-loop; other site 316385002556 ATP binding site [chemical binding]; other site 316385002557 Q-loop/lid; other site 316385002558 ABC transporter signature motif; other site 316385002559 Walker B; other site 316385002560 D-loop; other site 316385002561 H-loop/switch region; other site 316385002562 ABC-type Na+ transport system, ATPase component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatA; COG4555 316385002563 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 316385002564 Walker A/P-loop; other site 316385002565 ATP binding site [chemical binding]; other site 316385002566 Q-loop/lid; other site 316385002567 ABC transporter signature motif; other site 316385002568 Walker B; other site 316385002569 D-loop; other site 316385002570 H-loop/switch region; other site 316385002571 putative efflux pump membrane fusion protein; Provisional; Region: PRK03598 316385002572 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 316385002573 HlyD family secretion protein; Region: HlyD_3; pfam13437 316385002574 putative DNA-binding transcriptional regulator; Provisional; Region: PRK11552 316385002575 Domain of unknown function (DUF1956); Region: DUF1956; pfam09209 316385002576 helicase 45; Provisional; Region: PTZ00424 316385002577 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 316385002578 ATP binding site [chemical binding]; other site 316385002579 Mg++ binding site [ion binding]; other site 316385002580 motif III; other site 316385002581 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 316385002582 nucleotide binding region [chemical binding]; other site 316385002583 ATP-binding site [chemical binding]; other site 316385002584 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3236 316385002585 ATP-dependent DNA helicase DinG; Provisional; Region: dinG; PRK11747 316385002586 DEAD_2; Region: DEAD_2; pfam06733 316385002587 Helicase C-terminal domain; Region: Helicase_C_2; pfam13307 316385002588 glycosyl transferase family protein; Provisional; Region: PRK08136 316385002589 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 316385002590 putative dehydrogenase; Provisional; Region: PRK10098 316385002591 hypothetical protein; Provisional; Region: PRK10259 316385002592 hypothetical protein; Provisional; Region: PRK11019 316385002593 Fe(II)-dependent oxygenase superfamily protein; Provisional; Region: PRK05467 316385002594 catecholate siderophore receptor Fiu; Provisional; Region: PRK09840 316385002595 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 316385002596 N-terminal plug; other site 316385002597 ligand-binding site [chemical binding]; other site 316385002598 Protein of unknown function (DUF1471); Region: DUF1471; pfam07338 316385002599 23S rRNA mA1618 methyltransferase; Provisional; Region: PRK11727 316385002600 Protein of unknown function (DUF890); Region: Methyltransf_10; pfam05971 316385002601 putative mechanosensitive channel protein; Provisional; Region: PRK11465 316385002602 Mechanosensitive ion channel; Region: MS_channel; pfam00924 316385002603 glutamine ABC transporter ATP-binding protein; Reviewed; Region: glnQ; PRK09493 316385002604 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 316385002605 Walker A/P-loop; other site 316385002606 ATP binding site [chemical binding]; other site 316385002607 Q-loop/lid; other site 316385002608 ABC transporter signature motif; other site 316385002609 Walker B; other site 316385002610 D-loop; other site 316385002611 H-loop/switch region; other site 316385002612 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 316385002613 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 316385002614 dimer interface [polypeptide binding]; other site 316385002615 conserved gate region; other site 316385002616 putative PBP binding loops; other site 316385002617 ABC-ATPase subunit interface; other site 316385002618 glutamine ABC transporter periplasmic protein; Reviewed; Region: glnH; PRK09495 316385002619 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 316385002620 substrate binding pocket [chemical binding]; other site 316385002621 membrane-bound complex binding site; other site 316385002622 hinge residues; other site 316385002623 DNA-binding ferritin-like protein (oxidative damage protectant) [Inorganic ion transport and metabolism]; Region: Dps; COG0783 316385002624 DPS protein, ferritin-like diiron-binding domain; Region: DPS; cd01043 316385002625 dimerization interface [polypeptide binding]; other site 316385002626 DPS ferroxidase diiron center [ion binding]; other site 316385002627 ion pore; other site 316385002628 threonine and homoserine efflux system; Provisional; Region: PRK10532 316385002629 EamA-like transporter family; Region: EamA; pfam00892 316385002630 outer membrane protein X; Provisional; Region: ompX; PRK09408 316385002631 Predicted membrane-associated, metal-dependent hydrolase [General function prediction only]; Region: COG2194 316385002632 Sulfatase; Region: Sulfatase; pfam00884 316385002633 manganese transport regulator MntR; Provisional; Region: PRK11050 316385002634 Iron dependent repressor, N-terminal DNA binding domain; Region: Fe_dep_repress; pfam01325 316385002635 Iron dependent repressor, metal binding and dimerisation domain; Region: Fe_dep_repr_C; pfam02742 316385002636 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 316385002637 Putative anion permease YbiR. Based on sequence similarity, YbiR proteins are predicted to function as anion translocating permeases in eubacteria, archaea and plants. They belong to ArsB/NhaD superfamily of permeases that have been shown to translocate...; Region: YbiR_permease; cd01117 316385002638 transmembrane helices; other site 316385002639 L,D-transpeptidase; Provisional; Region: PRK10260 316385002640 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 316385002641 ABC transporter ATP-binding protein; Provisional; Region: PRK15064 316385002642 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 316385002643 Walker A/P-loop; other site 316385002644 ATP binding site [chemical binding]; other site 316385002645 Q-loop/lid; other site 316385002646 ABC transporter signature motif; other site 316385002647 Walker B; other site 316385002648 D-loop; other site 316385002649 H-loop/switch region; other site 316385002650 ABC transporter; Region: ABC_tran_2; pfam12848 316385002651 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 316385002652 Protein of unknown function (DUF1479); Region: DUF1479; pfam07350 316385002653 Cof subfamily of IIB subfamily of haloacid dehalogenase superfamily; Region: Cof-subfamily; TIGR00099 316385002654 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 316385002655 active site 316385002656 motif I; other site 316385002657 motif II; other site 316385002658 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 316385002659 glycyl radical enzyme, PFL2/glycerol dehydratase family; Region: PFL2-3; TIGR01774 316385002660 Pyruvate formate lyase 2 and related enzymes; Region: PFL2_DhaB_BssA; cd01677 316385002661 dimer interface [polypeptide binding]; other site 316385002662 active site 316385002663 glycine loop; other site 316385002664 glycyl-radical enzyme activating protein family; Region: PFLE_PFLC; TIGR02494 316385002665 Transaldolase-like fructose-6-phosphate aldolases (FSA) found in bacteria and archaea; Region: Transaldolase_FSA; cd00956 316385002666 active site 316385002667 intersubunit interactions; other site 316385002668 catalytic residue [active] 316385002669 molybdopterin biosynthesis protein MoeB; Provisional; Region: PRK05690 316385002670 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 316385002671 ATP binding site [chemical binding]; other site 316385002672 substrate interface [chemical binding]; other site 316385002673 molybdopterin biosynthesis protein MoeA; Provisional; Region: PRK10680 316385002674 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 316385002675 dimer interface [polypeptide binding]; other site 316385002676 putative functional site; other site 316385002677 putative MPT binding site; other site 316385002678 L-Asparaginase type 2. L-Asparaginase hydrolyzes L-asparagine to L-aspartate and ammonia. The proenzyme undergoes an autoproteolytic cleavage into alpha and beta subunits to expose a threonine residue which becomes the N-terminal residue of the beta...; Region: Asparaginase_2; cd04701 316385002679 catalytic nucleophile [active] 316385002680 glutathione transporter ATP-binding protein; Provisional; Region: PRK10261 316385002681 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 316385002682 Walker A/P-loop; other site 316385002683 ATP binding site [chemical binding]; other site 316385002684 Q-loop/lid; other site 316385002685 ABC transporter signature motif; other site 316385002686 Walker B; other site 316385002687 D-loop; other site 316385002688 H-loop/switch region; other site 316385002689 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 316385002690 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 316385002691 Walker A/P-loop; other site 316385002692 ATP binding site [chemical binding]; other site 316385002693 Q-loop/lid; other site 316385002694 ABC transporter signature motif; other site 316385002695 Walker B; other site 316385002696 D-loop; other site 316385002697 H-loop/switch region; other site 316385002698 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; pfam08352 316385002699 glutathione ABC transporter substrate-binding protein GsiB; Provisional; Region: PRK15413 316385002700 The substrate-binding component of an uncharacterized ABC-type peptide import system Ylib contains the type 2 periplasmic binding fold; Region: PBP2_Ylib_like; cd08499 316385002701 glutathione ABC transporter permease GsiC; Provisional; Region: PRK15081 316385002702 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 316385002703 dimer interface [polypeptide binding]; other site 316385002704 conserved gate region; other site 316385002705 putative PBP binding loops; other site 316385002706 ABC-ATPase subunit interface; other site 316385002707 glutathione ABC transporter permease GsiD; Provisional; Region: PRK15082 316385002708 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 316385002709 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 316385002710 dimer interface [polypeptide binding]; other site 316385002711 conserved gate region; other site 316385002712 putative PBP binding loops; other site 316385002713 ABC-ATPase subunit interface; other site 316385002714 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 316385002715 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 316385002716 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 316385002717 metal binding site [ion binding]; metal-binding site 316385002718 active site 316385002719 I-site; other site 316385002720 ribosomal protein S12 methylthiotransferase; Provisional; Region: rimO; PRK14862 316385002721 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 316385002722 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 316385002723 FeS/SAM binding site; other site 316385002724 biofilm formation regulatory protein BssR; Reviewed; Region: bssR; PRK12302 316385002725 dehydrogenase, PQQ-dependent, s-GDH family; Region: non_repeat_PQQ; TIGR03606 316385002726 Glucose / Sorbosone dehydrogenase; Region: GSDH; pfam07995 316385002727 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 316385002728 GST_N family, unknown subfamily 2; composed of uncharacterized bacterial proteins with similarity to GSTs. GSTs are cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with a wide range of...; Region: GST_N_2; cd03047 316385002729 putative C-terminal domain interface [polypeptide binding]; other site 316385002730 putative GSH binding site (G-site) [chemical binding]; other site 316385002731 putative dimer interface [polypeptide binding]; other site 316385002732 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cl02776 316385002733 N-terminal domain interface [polypeptide binding]; other site 316385002734 dimer interface [polypeptide binding]; other site 316385002735 substrate binding pocket (H-site) [chemical binding]; other site 316385002736 D-alanyl-D-alanine carboxypeptidase fraction C; Provisional; Region: PRK10001 316385002737 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 316385002738 Penicillin-binding protein 5, C-terminal domain; Region: PBP5_C; smart00936 316385002739 DNA-binding transcriptional repressor DeoR; Provisional; Region: PRK10681 316385002740 DeoR-like helix-turn-helix domain; Region: HTH_DeoR; pfam08220 316385002741 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 316385002742 PAP2_like proteins, BcrC_like subfamily. Several members of this family have been annotated as bacitracin transport permeases, as it was suspected that they form the permease component of an ABC transporter system. It was shown, however, that BcrC from...; Region: PAP2_BcrC_like; cd03385 316385002743 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 316385002744 active site 316385002745 multidrug efflux system translocase MdfA; Provisional; Region: PRK15402 316385002746 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 316385002747 putative substrate translocation pore; other site 316385002748 Predicted hydrolases of the HAD superfamily [General function prediction only]; Region: Cof; COG0561 316385002749 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 316385002750 active site 316385002751 motif I; other site 316385002752 motif II; other site 316385002753 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 316385002754 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 316385002755 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 316385002756 putative substrate translocation pore; other site 316385002757 Major Facilitator Superfamily; Region: MFS_1; pfam07690 316385002758 transcriptional repressor BetI; Region: betaine_BetI; TIGR03384 316385002759 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 316385002760 Bacterial transcriptional repressor; Region: TetR_C_6; pfam13977 316385002761 putative transporter; Provisional; Region: PRK04972 316385002762 Predicted Permease Membrane Region; Region: Asp-Al_Ex; pfam06826 316385002763 TrkA-C domain; Region: TrkA_C; pfam02080 316385002764 TrkA-C domain; Region: TrkA_C; pfam02080 316385002765 AspT/YidE/YbjL antiporter duplication domain; Region: YidE_YbjL_dupl; TIGR01625 316385002766 Putative inner membrane protein of Enterobacteriaceae; Region: YbjM; pfam11045 316385002767 Glutaredoxin (GRX) family; composed of GRX, approximately 10 kDa in size, and proteins containing a GRX or GRX-like domain. GRX is a glutathione (GSH) dependent reductase, catalyzing the disulfide reduction of target proteins such as ribonucleotide...; Region: GRX_family; cd02066 316385002768 GSH binding site [chemical binding]; other site 316385002769 catalytic residues [active] 316385002770 Protein of unknown function (DUF1418); Region: DUF1418; pfam07214 316385002771 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 316385002772 dimer interface [polypeptide binding]; other site 316385002773 FMN binding site [chemical binding]; other site 316385002774 NADPH bind site [chemical binding]; other site 316385002775 ribosomal protein S6 modification protein; Provisional; Region: PRK10446 316385002776 RimK-like ATP-grasp domain; Region: RimK; pfam08443 316385002777 Putative bacterial sensory transduction regulator; Region: YbjN; pfam10722 316385002778 putrescine transporter subunit: periplasmic-binding component of ABC superfamily; Provisional; Region: PRK10682 316385002779 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 316385002780 putrescine transporter ATP-binding subunit; Provisional; Region: potG; PRK11607 316385002781 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 316385002782 Walker A/P-loop; other site 316385002783 ATP binding site [chemical binding]; other site 316385002784 Q-loop/lid; other site 316385002785 ABC transporter signature motif; other site 316385002786 Walker B; other site 316385002787 D-loop; other site 316385002788 H-loop/switch region; other site 316385002789 TOBE domain; Region: TOBE_2; pfam08402 316385002790 ABC-type Fe3+ transport system, permease component [Inorganic ion transport and metabolism]; Region: ThiP; COG1178 316385002791 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 316385002792 dimer interface [polypeptide binding]; other site 316385002793 conserved gate region; other site 316385002794 putative PBP binding loops; other site 316385002795 ABC-ATPase subunit interface; other site 316385002796 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 316385002797 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 316385002798 dimer interface [polypeptide binding]; other site 316385002799 conserved gate region; other site 316385002800 putative PBP binding loops; other site 316385002801 ABC-ATPase subunit interface; other site 316385002802 Protein of unknown function (DUF2593); Region: DUF2593; pfam10767 316385002803 23S rRNA (uracil-5-)-methyltransferase RumB; Region: meth_trns_rumB; TIGR02085 316385002804 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 316385002805 S-adenosylmethionine binding site [chemical binding]; other site 316385002806 putative ABC transporter arginine-biding protein; Provisional; Region: PRK15007 316385002807 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 316385002808 substrate binding pocket [chemical binding]; other site 316385002809 membrane-bound complex binding site; other site 316385002810 hinge residues; other site 316385002811 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 316385002812 dimer interface [polypeptide binding]; other site 316385002813 conserved gate region; other site 316385002814 putative PBP binding loops; other site 316385002815 ABC-ATPase subunit interface; other site 316385002816 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 316385002817 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 316385002818 dimer interface [polypeptide binding]; other site 316385002819 conserved gate region; other site 316385002820 putative PBP binding loops; other site 316385002821 ABC-ATPase subunit interface; other site 316385002822 putative ABC transporter arginine-biding protein; Provisional; Region: PRK15007 316385002823 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 316385002824 substrate binding pocket [chemical binding]; other site 316385002825 membrane-bound complex binding site; other site 316385002826 hinge residues; other site 316385002827 arginine transporter ATP-binding subunit; Provisional; Region: artP; PRK11124 316385002828 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 316385002829 Walker A/P-loop; other site 316385002830 ATP binding site [chemical binding]; other site 316385002831 Q-loop/lid; other site 316385002832 ABC transporter signature motif; other site 316385002833 Walker B; other site 316385002834 D-loop; other site 316385002835 H-loop/switch region; other site 316385002836 putative lipoprotein; Provisional; Region: PRK10533 316385002837 hypothetical protein; Provisional; Region: PRK02877 316385002838 N-acetyl-anhydromuramyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: ampD; COG3023 316385002839 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 316385002840 amidase catalytic site [active] 316385002841 Zn binding residues [ion binding]; other site 316385002842 substrate binding site [chemical binding]; other site 316385002843 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 316385002844 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 316385002845 NAD(P) binding site [chemical binding]; other site 316385002846 active site 316385002847 Predicted nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG0702 316385002848 atypical (a) SDRs, subgroup 2; Region: SDR_a2; cd05245 316385002849 putative NAD(P) binding site [chemical binding]; other site 316385002850 putative active site [active] 316385002851 Protein of unknown function (DUF2867); Region: DUF2867; pfam11066 316385002852 Threonine aldolase [Amino acid transport and metabolism]; Region: GLY1; COG2008 316385002853 Low-specificity threonine aldolase (TA). This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). TA catalyzes the conversion of L-threonine or L-allo-threonine to glycine and acetaldehyde in a...; Region: TA_like; cd06502 316385002854 tetramer interface [polypeptide binding]; other site 316385002855 pyridoxal 5'-phosphate binding site [chemical binding]; other site 316385002856 catalytic residue [active] 316385002857 pyruvate dehydrogenase; Provisional; Region: PRK09124 316385002858 Pyrimidine (PYR) binding domain of POX; Region: TPP_PYR_POX; cd07039 316385002859 PYR/PP interface [polypeptide binding]; other site 316385002860 dimer interface [polypeptide binding]; other site 316385002861 tetramer interface [polypeptide binding]; other site 316385002862 TPP binding site [chemical binding]; other site 316385002863 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 316385002864 Thiamine pyrophosphate (TPP) family, Pyruvate oxidase (POX) subfamily, TPP-binding module; composed of proteins similar to Lactobacillus plantarum POX, which plays a key role in controlling acetate production under aerobic conditions. POX decarboxylates...; Region: TPP_POX; cd02014 316385002865 TPP-binding site [chemical binding]; other site 316385002866 HCP oxidoreductase, NADH-dependent; Provisional; Region: PRK10684 316385002867 Iron-sulfur binding ferredoxin reductase (FNR) proteins combine the FAD and NAD(P) binding regions of FNR with an iron-sulfur binding cluster domain. Ferredoxin-NADP+ (oxido)reductase is an FAD-containing enzyme that catalyzes the reversible electron...; Region: FNR_iron_sulfur_binding_1; cd06215 316385002868 FAD binding pocket [chemical binding]; other site 316385002869 FAD binding motif [chemical binding]; other site 316385002870 phosphate binding motif [ion binding]; other site 316385002871 beta-alpha-beta structure motif; other site 316385002872 NAD binding pocket [chemical binding]; other site 316385002873 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 316385002874 catalytic loop [active] 316385002875 iron binding site [ion binding]; other site 316385002876 hybrid cluster protein; Provisional; Region: PRK05290 316385002877 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 316385002878 ACS interaction site; other site 316385002879 CODH interaction site; other site 316385002880 Hybrid cluster protein (HCP), formerly known as prismane, is thought to play a role in nitrogen metabolism but its specific function is unknown. HCP has three structural domains, an N-terminal alpha-helical domain, and two similar domains comprising a...; Region: HCP; cd01914 316385002881 hybrid metal cluster; other site 316385002882 Predicted membrane protein [Function unknown]; Region: COG2431 316385002883 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 316385002884 amphipathic channel; other site 316385002885 Asn-Pro-Ala signature motifs; other site 316385002886 Predicted ATP-dependent endonuclease of the OLD family [DNA replication, recombination, and repair]; Region: COG3593 316385002887 Protein of unknown function (DUF2813); Region: DUF2813; pfam11398 316385002888 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 316385002889 putative active site [active] 316385002890 putative metal-binding site [ion binding]; other site 316385002891 Protein of unknown function (DUF535); Region: DUF535; pfam04393 316385002892 macrolide transporter subunit MacA; Provisional; Region: PRK11578 316385002893 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 316385002894 HlyD family secretion protein; Region: HlyD_3; pfam13437 316385002895 macrolide transporter ATP-binding /permease protein; Provisional; Region: PRK10535 316385002896 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 316385002897 Walker A/P-loop; other site 316385002898 ATP binding site [chemical binding]; other site 316385002899 Q-loop/lid; other site 316385002900 ABC transporter signature motif; other site 316385002901 Walker B; other site 316385002902 D-loop; other site 316385002903 H-loop/switch region; other site 316385002904 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 316385002905 FtsX-like permease family; Region: FtsX; pfam02687 316385002906 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 316385002907 DNA-binding site [nucleotide binding]; DNA binding site 316385002908 RNA-binding motif; other site 316385002909 ATP-dependent Clp protease adaptor protein ClpS; Reviewed; Region: clpS; PRK00033 316385002910 ATP-dependent Clp protease ATP-binding subunit; Provisional; Region: clpA; PRK11034 316385002911 Clp amino terminal domain; Region: Clp_N; pfam02861 316385002912 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 316385002913 Walker A motif; other site 316385002914 ATP binding site [chemical binding]; other site 316385002915 Walker B motif; other site 316385002916 arginine finger; other site 316385002917 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 316385002918 Walker A motif; other site 316385002919 ATP binding site [chemical binding]; other site 316385002920 Walker B motif; other site 316385002921 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 316385002922 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 316385002923 rRNA binding site [nucleotide binding]; other site 316385002924 predicted 30S ribosome binding site; other site 316385002925 leucyl/phenylalanyl-tRNA--protein transferase; Reviewed; Region: aat; PRK00301 316385002926 cysteine/glutathione ABC transporter membrane/ATP-binding component; Reviewed; Region: PRK11160 316385002927 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 316385002928 ATP-binding cassette domain of CydCD, subfamily C; Region: ABCC_cytochrome_bd; cd03247 316385002929 Walker A/P-loop; other site 316385002930 ATP binding site [chemical binding]; other site 316385002931 Q-loop/lid; other site 316385002932 ABC transporter signature motif; other site 316385002933 Walker B; other site 316385002934 D-loop; other site 316385002935 H-loop/switch region; other site 316385002936 cysteine/glutathione ABC transporter membrane/ATP-binding component; Reviewed; Region: PRK11174 316385002937 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 316385002938 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 316385002939 Walker A/P-loop; other site 316385002940 ATP binding site [chemical binding]; other site 316385002941 Q-loop/lid; other site 316385002942 ABC transporter signature motif; other site 316385002943 Walker B; other site 316385002944 D-loop; other site 316385002945 H-loop/switch region; other site 316385002946 thioredoxin reductase; Provisional; Region: PRK10262 316385002947 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 316385002948 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 316385002949 leucine-responsive transcriptional regulator; Provisional; Region: PRK11169 316385002950 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 316385002951 putative DNA binding site [nucleotide binding]; other site 316385002952 putative Zn2+ binding site [ion binding]; other site 316385002953 AsnC family; Region: AsnC_trans_reg; pfam01037 316385002954 DNA translocase FtsK; Provisional; Region: PRK10263 316385002955 Domain of unknown function (DUF4117); Region: DUF4117; pfam13491 316385002956 DNA translocase FtsK; Provisional; Region: PRK10263 316385002957 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 316385002958 Ftsk gamma domain; Region: Ftsk_gamma; pfam09397 316385002959 periplasmic chaperone LolA; Region: lolA; TIGR00547 316385002960 lipoprotein chaperone; Reviewed; Region: lolA; PRK00031 316385002961 recombination factor protein RarA; Reviewed; Region: PRK13342 316385002962 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 316385002963 Walker A motif; other site 316385002964 ATP binding site [chemical binding]; other site 316385002965 Walker B motif; other site 316385002966 arginine finger; other site 316385002967 MgsA AAA+ ATPase C terminal; Region: MgsA_C; pfam12002 316385002968 seryl-tRNA synthetase; Provisional; Region: PRK05431 316385002969 Seryl-tRNA synthetase N-terminal domain; Region: Seryl_tRNA_N; pfam02403 316385002970 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 316385002971 dimer interface [polypeptide binding]; other site 316385002972 active site 316385002973 motif 1; other site 316385002974 motif 2; other site 316385002975 motif 3; other site 316385002976 anaerobic dimethyl sulfoxide reductase subunit A; Provisional; Region: PRK14990 316385002977 Tat (twin-arginine translocation) pathway signal sequence; Region: TAT_signal_seq; TIGR01409 316385002978 This CD (MopB_DmsA-EC) includes the DmsA enzyme of the dmsABC operon encoding the anaerobic dimethylsulfoxide reductase (DMSOR) of Escherichia coli and other related DMSOR-like enzymes. Unlike other DMSOR-like enzymes, this group has a predicted...; Region: MopB_DmsA-EC; cd02770 316385002979 putative [Fe4-S4] binding site [ion binding]; other site 316385002980 putative molybdopterin cofactor binding site [chemical binding]; other site 316385002981 The MopB_CT_DmsA-EC CD includes the DmsA enzyme of the dmsABC operon encoding the anaerobic dimethylsulfoxide reductase (DMSOR) of Escherichia coli and other related DMSOR-like enzymes. Unlike other DMSOR-like enzymes, this group has a predicted...; Region: MopB_CT_DmsA-EC; cd02794 316385002982 putative molybdopterin cofactor binding site; other site 316385002983 DMSO reductase, iron-sulfur subunit; Region: DMSO_dmsB; TIGR02951 316385002984 4Fe-4S binding domain; Region: Fer4; pfam00037 316385002985 DMSO reductase anchor subunit (DmsC); Region: DmsC; pfam04976 316385002986 Isochorismatase family; Region: Isochorismatase; pfam00857 316385002987 YcaC related amidohydrolases; E.coli YcaC is an homooctameric hydrolase with unknown specificity. Despite its weak sequence similarity, it is structurally related to other amidohydrolases and shares conserved active site residues with them; Region: YcaC_related; cd01012 316385002988 catalytic triad [active] 316385002989 dimer interface [polypeptide binding]; other site 316385002990 conserved cis-peptide bond; other site 316385002991 putative MFS family transporter protein; Provisional; Region: PRK03633 316385002992 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 316385002993 putative substrate translocation pore; other site 316385002994 Amino acid permease; Region: AA_permease_2; pfam13520 316385002995 Transcriptional regulator [Transcription]; Region: LysR; COG0583 316385002996 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 316385002997 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 316385002998 putative effector binding pocket; other site 316385002999 putative dimerization interface [polypeptide binding]; other site 316385003000 hypothetical protein; Provisional; Region: PRK09739 316385003001 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 316385003002 pyruvate formate lyase-activating enzyme 1; Provisional; Region: pflA; PRK11145 316385003003 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 316385003004 FeS/SAM binding site; other site 316385003005 formate acetyltransferase 1; Region: pyr_form_ly_1; TIGR01255 316385003006 Pyruvate formate lyase 1; Region: PFL1; cd01678 316385003007 coenzyme A binding site [chemical binding]; other site 316385003008 active site 316385003009 catalytic residues [active] 316385003010 glycine loop; other site 316385003011 formate transporter; Provisional; Region: PRK10805 316385003012 uncharacterized domain; Region: TIGR00702 316385003013 YcaO-like family; Region: YcaO; pfam02624 316385003014 Predicted membrane protein [Function unknown]; Region: COG2323 316385003015 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 316385003016 homodimer interface [polypeptide binding]; other site 316385003017 substrate-cofactor binding pocket; other site 316385003018 pyridoxal 5'-phosphate binding site [chemical binding]; other site 316385003019 catalytic residue [active] 316385003020 3-phosphoshikimate 1-carboxyvinyltransferase; Provisional; Region: PRK02427 316385003021 Enol pyruvate transferases family includes EPSP synthases and UDP-N-acetylglucosamine enolpyruvyl transferase. Both enzymes catalyze the reaction of enolpyruvyl transfer; Region: EPT-like; cd01554 316385003022 hinge; other site 316385003023 active site 316385003024 Zn-dependent protease with chaperone function [Posttranslational modification, protein turnover, chaperones]; Region: HtpX; COG0501 316385003025 cytidylate kinase; Provisional; Region: cmk; PRK00023 316385003026 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 316385003027 CMP-binding site; other site 316385003028 The sites determining sugar specificity; other site 316385003029 30S ribosomal protein S1; Reviewed; Region: rpsA; PRK06299 316385003030 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 316385003031 RNA binding site [nucleotide binding]; other site 316385003032 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 316385003033 RNA binding site [nucleotide binding]; other site 316385003034 S1_RPS1_repeat_ec4: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture consists...; Region: S1_RPS1_repeat_ec4; cd05689 316385003035 RNA binding site [nucleotide binding]; other site 316385003036 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 316385003037 RNA binding site [nucleotide binding]; other site 316385003038 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 316385003039 RNA binding site [nucleotide binding]; other site 316385003040 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 316385003041 IHF dimer interface [polypeptide binding]; other site 316385003042 IHF - DNA interface [nucleotide binding]; other site 316385003043 ComEC family competence protein; Provisional; Region: PRK11539 316385003044 Domain of unknown function (DUF4131); Region: DUF4131; pfam13567 316385003045 ComEC/Rec2-related protein; Region: ComEC_N-term; TIGR00360 316385003046 Metallo-beta-lactamase superfamily; Region: Lactamase_B; pfam00753 316385003047 lipid transporter ATP-binding/permease protein; Provisional; Region: PRK11176 316385003048 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 316385003049 ATP-binding cassette domain of the bacterial lipid flippase and related proteins, subfamily C; Region: ABCC_MsbA; cd03251 316385003050 Walker A/P-loop; other site 316385003051 ATP binding site [chemical binding]; other site 316385003052 Q-loop/lid; other site 316385003053 ABC transporter signature motif; other site 316385003054 Walker B; other site 316385003055 D-loop; other site 316385003056 H-loop/switch region; other site 316385003057 tetraacyldisaccharide 4'-kinase; Reviewed; Region: lpxK; PRK00652 316385003058 tetraacyldisaccharide 4'-kinase; Region: lpxK; TIGR00682 316385003059 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3214 316385003060 Protein of unknown function (DUF1006); Region: DUF1006; pfam06224 316385003061 hypothetical protein; Provisional; Region: PRK11827 316385003062 3-deoxy-manno-octulosonate cytidylyltransferase; Provisional; Region: PRK05450 316385003063 CMP-KDO synthetase catalyzes the activation of KDO which is an essential component of the lipopolysaccharide; Region: CMP-KDO-Synthetase; cd02517 316385003064 Ligand binding site; other site 316385003065 oligomer interface; other site 316385003066 hypothetical protein; Provisional; Region: PRK10593 316385003067 Uncharacterized conserved protein [Function unknown]; Region: COG1434 316385003068 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 316385003069 putative active site [active] 316385003070 Methyltransferase domain; Region: Methyltransf_31; pfam13847 316385003071 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 316385003072 S-adenosylmethionine binding site [chemical binding]; other site 316385003073 condesin subunit F; Provisional; Region: PRK05260 316385003074 condesin subunit E; Provisional; Region: PRK05256 316385003075 Uncharacterized protein involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: MukB; COG3096 316385003076 MukB N-terminal; Region: MukB; pfam04310 316385003077 Putative exonuclease SbcCD, C subunit; Region: SbcCD_C; pfam13558 316385003078 murein L,D-transpeptidase; Provisional; Region: PRK10594 316385003079 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 316385003080 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 316385003081 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 316385003082 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3108 316385003083 Peptidase M15; Region: Peptidase_M15_3; cl01194 316385003084 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 316385003085 aromatic amino acid aminotransferase; Provisional; Region: PRK09257 316385003086 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 316385003087 pyridoxal 5'-phosphate binding site [chemical binding]; other site 316385003088 homodimer interface [polypeptide binding]; other site 316385003089 catalytic residue [active] 316385003090 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 316385003091 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 316385003092 trimer interface [polypeptide binding]; other site 316385003093 eyelet of channel; other site 316385003094 asparaginyl-tRNA synthetase; Validated; Region: asnC; PRK03932 316385003095 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 316385003096 putative dimer interface [polypeptide binding]; other site 316385003097 putative anticodon binding site; other site 316385003098 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 316385003099 homodimer interface [polypeptide binding]; other site 316385003100 motif 1; other site 316385003101 motif 2; other site 316385003102 active site 316385003103 motif 3; other site 316385003104 nicotinate phosphoribosyltransferase; Region: NAPRTase; TIGR01514 316385003105 Nicotinate phosphoribosyltransferase (NAPRTase), related to PncB. Nicotinate phosphoribosyltransferase catalyses the formation of NAMN and PPi from 5-phosphoribosy -1-pyrophosphate (PRPP) and nicotinic acid, this is the first, and also rate limiting; Region: PncB_like; cd01401 316385003106 active site 316385003107 aminopeptidase N; Provisional; Region: pepN; PRK14015 316385003108 Peptidase M1 family containing Aminopeptidase N; Region: M1_APN_1; cd09600 316385003109 active site 316385003110 Zn binding site [ion binding]; other site 316385003111 aliphatic sulfonates transport ATP-binding subunit; Provisional; Region: ssuB; PRK11247 316385003112 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 316385003113 Walker A/P-loop; other site 316385003114 ATP binding site [chemical binding]; other site 316385003115 Q-loop/lid; other site 316385003116 ABC transporter signature motif; other site 316385003117 Walker B; other site 316385003118 D-loop; other site 316385003119 H-loop/switch region; other site 316385003120 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 316385003121 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 316385003122 dimer interface [polypeptide binding]; other site 316385003123 conserved gate region; other site 316385003124 putative PBP binding loops; other site 316385003125 ABC-ATPase subunit interface; other site 316385003126 alkanesulfonate monooxygenase; Provisional; Region: PRK00719 316385003127 Alkanesulfonate monoxygenase is the monoxygenase of a two-component system that catalyzes the conversion of alkanesulfonates to the corresponding aldehyde and sulfite. Alkanesulfonate monoxygenase (SsuD) has an absolute requirement for reduced flavin...; Region: Alkanesulfonate_monoxygenase; cd01094 316385003128 active site 316385003129 dimer interface [polypeptide binding]; other site 316385003130 non-prolyl cis peptide bond; other site 316385003131 insertion regions; other site 316385003132 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 316385003133 substrate binding pocket [chemical binding]; other site 316385003134 ABC transporter, substrate-binding protein, aliphatic sulfonates family; Region: SsuA_fam; TIGR01728 316385003135 membrane-bound complex binding site; other site 316385003136 hinge residues; other site 316385003137 NAD(P)H-dependent FMN reductase; Provisional; Region: PRK10569 316385003138 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 316385003139 Fimbrial protein; Region: Fimbrial; cl01416 316385003140 P pilus assembly protein, chaperone PapD [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimC; COG3121 316385003141 Gram-negative pili assembly chaperone, N-terminal domain; Region: Pili_assembly_N; pfam00345 316385003142 Gram-negative pili assembly chaperone, C-terminal domain; Region: Pili_assembly_C; pfam02753 316385003143 outer membrane usher protein; Provisional; Region: PRK15193 316385003144 PapC N-terminal domain; Region: PapC_N; pfam13954 316385003145 Type VII secretion system (T7SS), usher protein; Region: Usher; pfam00577 316385003146 PapC C-terminal domain; Region: PapC_C; pfam13953 316385003147 Fimbrial protein; Region: Fimbrial; cl01416 316385003148 Fimbrial protein; Region: Fimbrial; cl01416 316385003149 P pilus assembly protein, pilin FimA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimA; COG3539 316385003150 putativi pili assembly chaperone; Provisional; Region: PRK11385 316385003151 Gram-negative pili assembly chaperone, N-terminal domain; Region: Pili_assembly_N; pfam00345 316385003152 Gram-negative pili assembly chaperone, C-terminal domain; Region: Pili_assembly_C; pfam02753 316385003153 dihydroorotate dehydrogenase 2; Reviewed; Region: PRK05286 316385003154 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 316385003155 quinone interaction residues [chemical binding]; other site 316385003156 active site 316385003157 catalytic residues [active] 316385003158 FMN binding site [chemical binding]; other site 316385003159 substrate binding site [chemical binding]; other site 316385003160 Protein of unknown function (DUF1379); Region: DUF1379; pfam07126 316385003161 Uncharacterized Fe-S protein [General function prediction only]; Region: COG3217 316385003162 MOSC N-terminal beta barrel domain; Region: MOSC_N; pfam03476 316385003163 MOSC domain; Region: MOSC; pfam03473 316385003164 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 316385003165 Ferredoxin [Energy production and conversion]; Region: Fdx; COG0633 316385003166 catalytic loop [active] 316385003167 iron binding site [ion binding]; other site 316385003168 23S rRNA m(2)G2445 methyltransferase; Provisional; Region: rlmL; PRK11783 316385003169 THUMP domain associated with S-adenosylmethionine-dependent methyltransferases; Region: THUMP_AdoMetMT; cd11715 316385003170 Putative RNA methylase family UPF0020; Region: UPF0020; pfam01170 316385003171 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 316385003172 S-adenosylmethionine binding site [chemical binding]; other site 316385003173 ABC transporter ATPase component; Reviewed; Region: PRK11147 316385003174 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 316385003175 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 316385003176 Walker A/P-loop; other site 316385003177 Walker A/P-loop; other site 316385003178 ATP binding site [chemical binding]; other site 316385003179 ATP binding site [chemical binding]; other site 316385003180 Q-loop/lid; other site 316385003181 Q-loop/lid; other site 316385003182 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 316385003183 ABC transporter signature motif; other site 316385003184 Walker B; other site 316385003185 D-loop; other site 316385003186 ABC transporter; Region: ABC_tran_2; pfam12848 316385003187 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 316385003188 paraquat-inducible membrane protein A; Provisional; Region: PRK15103 316385003189 Paraquat-inducible protein A; Region: PqiA; pfam04403 316385003190 Paraquat-inducible protein A; Region: PqiA; pfam04403 316385003191 paraquat-inducible protein B; Provisional; Region: PRK10807 316385003192 mce related protein; Region: MCE; pfam02470 316385003193 mce related protein; Region: MCE; pfam02470 316385003194 mce related protein; Region: MCE; pfam02470 316385003195 DASH complex subunit Duo1; Region: DASH_Duo1; pfam08651 316385003196 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3009 316385003197 Protein of unknown function (DUF330); Region: DUF330; pfam03886 316385003198 ribosome modulation factor; Provisional; Region: PRK14563 316385003199 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 316385003200 active site 1 [active] 316385003201 dimer interface [polypeptide binding]; other site 316385003202 active site 2 [active] 316385003203 Predicted ATP-dependent protease [Posttranslational modification, protein turnover, chaperones]; Region: LonB; COG1067 316385003204 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 316385003205 Ter macrodomain organizer matS-binding protein; Provisional; Region: PRK05097 316385003206 outer membrane protein A; Reviewed; Region: PRK10808 316385003207 OmpA-like transmembrane domain; Region: OmpA_membrane; pfam01389 316385003208 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 316385003209 ligand binding site [chemical binding]; other site 316385003210 cell division inhibitor SulA; Region: sula; TIGR00623 316385003211 Regulator of competence-specific genes [Transcription]; Region: TfoX; COG3070 316385003212 TfoX C-terminal domain; Region: TfoX_C; pfam04994 316385003213 TIGR01666 family membrane protein; Region: YCCS 316385003214 FUSC-like inner membrane protein yccS; Region: FUSC-like; pfam12805 316385003215 Fusaric acid resistance protein-like; Region: FUSC_2; pfam13515 316385003216 Predicted membrane protein [Function unknown]; Region: COG3304 316385003217 Domain of unknown function (DUF307); Region: DUF307; pfam03733 316385003218 Domain of unknown function (DUF307); Region: DUF307; pfam03733 316385003219 DNA helicase IV; Provisional; Region: helD; PRK11054 316385003220 DNA helicase IV / RNA helicase N terminal; Region: Nucleolin_N; pfam12462 316385003221 Part of AAA domain; Region: AAA_19; pfam13245 316385003222 Family description; Region: UvrD_C_2; pfam13538 316385003223 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 316385003224 active site 316385003225 dimer interfaces [polypeptide binding]; other site 316385003226 catalytic residues [active] 316385003227 hypothetical protein; Provisional; Region: PRK03641 316385003228 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3110 316385003229 Predicted CoA-binding protein [General function prediction only]; Region: COG1832 316385003230 heat shock protein HspQ; Provisional; Region: PRK14129 316385003231 23S rRNA m(5)C1962 methyltransferase; Provisional; Region: PRK15128 316385003232 Putative RNA-binding Domain in PseudoUridine synthase and Archaeosine transglycosylase; Region: PUA; smart00359 316385003233 Middle domain of the SAM-dependent methyltransferase RlmI and related proteins; Region: RlmI_M_like; cd11572 316385003234 putative RNA binding site [nucleotide binding]; other site 316385003235 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 316385003236 S-adenosylmethionine binding site [chemical binding]; other site 316385003237 Acylphosphatase; Region: Acylphosphatase; cl00551 316385003238 Dissimilatory sulfite reductase (desulfoviridin), gamma subunit [Inorganic ion transport and metabolism]; Region: DsrC; COG2920 316385003239 sulfur transfer protein TusE; Provisional; Region: PRK11508 316385003240 Integral membrane protein, interacts with FtsH [General function prediction only]; Region: COG0670 316385003241 YccA-like proteins; Region: YccA_like; cd10433 316385003242 hydrogenase (NiFe) small subunit (hydA); Region: hydA; TIGR00391 316385003243 Tat (twin-arginine translocation) pathway signal sequence; Region: TAT_signal_seq; TIGR01409 316385003244 NADH ubiquinone oxidoreductase, 20 Kd subunit; Region: Oxidored_q6; pfam01058 316385003245 hydrogenase 1 large subunit; Provisional; Region: PRK10170 316385003246 Ni,Fe-hydrogenase I large subunit [Energy production and conversion]; Region: HyaB; COG0374 316385003247 hydrogenase 1 b-type cytochrome subunit; Provisional; Region: PRK10171 316385003248 formate dehydrogenase, gamma subunit; Region: formate-DH-gamm; TIGR01583 316385003249 Endopeptidases belonging to membrane-bound hydrogenases group. These hydrogenases transfer electrons from H2 to a cytochrome that is bound to a membrane-located complex coupling electron transfer to transmembrane proton translocation. Endopeptidase HybD...; Region: H2MP_MemB-H2up; cd06062 316385003250 putative substrate-binding site; other site 316385003251 nickel binding site [ion binding]; other site 316385003252 HyaE family; HyaE is also called HupG and HoxO. They are proteins serving a critical role in the assembly of multimeric [NiFe] hydrogenases, the enzymes that catalyze the oxidation of molecular hydrogen to enable microorganisms to utilize hydrogen as the...; Region: HyaE; cd02965 316385003253 HupH hydrogenase expression protein, C-terminal conserved region; Region: HupH_C; pfam04809 316385003254 cytochrome bd-II oxidase subunit 1; Provisional; Region: PRK15035 316385003255 cytochrome d terminal oxidase subunit 1; Provisional; Region: PRK15097 316385003256 cytochrome bd-II oxidase subunit 2; Provisional; Region: PRK15028 316385003257 Cytochrome oxidase subunit II; Region: Cyto_ox_2; pfam02322 316385003258 glucose-1-phosphatase/inositol phosphatase; Provisional; Region: PRK10173 316385003259 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 316385003260 catalytic core [active] 316385003261 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 316385003262 cryptic autophosphorylating protein tyrosine kinase Etk; Provisional; Region: PRK09841 316385003263 Chain length determinant protein; Region: Wzz; pfam02706 316385003264 Chain length determinant protein; Region: Wzz; cl15801 316385003265 G-rich domain on putative tyrosine kinase; Region: GNVR; pfam13807 316385003266 ArsA ATPase functionas as an efflux pump located on the inner membrane of the cell. This ATP-driven oxyanion pump catalyzes the extrusion of arsenite, antimonite and arsenate. Maintenance of a low intracellular concentration of oxyanion produces...; Region: ArsA; cd02035 316385003267 Nucleotide binding site [chemical binding]; other site 316385003268 Low molecular weight phosphatase family; Region: LMWPc; cd00115 316385003269 Low molecular weight phosphotyrosine protein phosphatase; Region: LMWPc; pfam01451 316385003270 active site 316385003271 polysaccharide export protein Wza; Provisional; Region: PRK15078 316385003272 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 316385003273 SLBB domain; Region: SLBB; pfam10531 316385003274 SLBB domain; Region: SLBB; pfam10531 316385003275 Bacterial putative lipoprotein (DUF940); Region: DUF940; pfam06082 316385003276 Capsule biosynthesis GfcC; Region: Caps_synth_GfcC; pfam06251 316385003277 Protein of unknown function (DUF2886); Region: DUF2886; pfam11102 316385003278 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3677 316385003279 InsA N-terminal domain; Region: Zn_Tnp_IS1; pfam03811 316385003280 InsA C-terminal domain; Region: HTH_Tnp_IS1; pfam12759 316385003281 IS1 transposase; Region: DDE_Tnp_IS1; pfam03400 316385003282 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 316385003283 DNA-binding site [nucleotide binding]; DNA binding site 316385003284 RNA-binding motif; other site 316385003285 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 316385003286 DNA-binding site [nucleotide binding]; DNA binding site 316385003287 RNA-binding motif; other site 316385003288 cold shock gene; Provisional; Region: PRK09891 316385003289 GnsA/GnsB family; Region: GnsAB; pfam08178 316385003290 quinol dehydrogenase membrane component; Provisional; Region: napH; PRK09477 316385003291 4Fe-4S binding domain; Region: Fer4_5; pfam12801 316385003292 4Fe-4S binding domain; Region: Fer4_5; pfam12801 316385003293 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 316385003294 hybrid sensory histidine kinase TorS; Provisional; Region: PRK11466 316385003295 HAMP domain; Region: HAMP; pfam00672 316385003296 dimerization interface [polypeptide binding]; other site 316385003297 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 316385003298 dimer interface [polypeptide binding]; other site 316385003299 phosphorylation site [posttranslational modification] 316385003300 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 316385003301 ATP binding site [chemical binding]; other site 316385003302 Mg2+ binding site [ion binding]; other site 316385003303 G-X-G motif; other site 316385003304 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 316385003305 active site 316385003306 phosphorylation site [posttranslational modification] 316385003307 intermolecular recognition site; other site 316385003308 dimerization interface [polypeptide binding]; other site 316385003309 Histidine Phosphotransfer domain, involved in signalling through a two part component systems in which an autophosphorylating histidine protein kinase serves as a phosphoryl donor to a response regulator protein; the response regulator protein is...; Region: HPT; cd00088 316385003310 putative binding surface; other site 316385003311 active site 316385003312 TMAO reductase system periplasmic protein TorT; Provisional; Region: PRK10936 316385003313 TorT-like proteins, a periplasmic binding protein family that activates induction of the Tor respiratory system upon trimethylamine N-oxide (TMAO) electron-acceptor binding in bacteria; Region: PBP1_TorT-like; cd06306 316385003314 putative ligand binding site [chemical binding]; other site 316385003315 DNA-binding transcriptional regulator TorR; Provisional; Region: PRK10766 316385003316 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 316385003317 active site 316385003318 phosphorylation site [posttranslational modification] 316385003319 intermolecular recognition site; other site 316385003320 dimerization interface [polypeptide binding]; other site 316385003321 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 316385003322 DNA binding site [nucleotide binding] 316385003323 trimethylamine N-oxide reductase cytochrome c-type subunit; Provisional; Region: PRK15032 316385003324 cytochrome c-type protein NapC; Provisional; Region: PRK10617; cl17554 316385003325 trimethylamine N-oxide reductase I catalytic subunit; Provisional; Region: PRK15102 316385003326 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 316385003327 molybdopterin cofactor binding site [chemical binding]; other site 316385003328 substrate binding site [chemical binding]; other site 316385003329 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 316385003330 molybdopterin cofactor binding site; other site 316385003331 chaperone protein TorD; Validated; Region: torD; PRK04976 316385003332 chaperone-modulator protein CbpM; Provisional; Region: PRK10265 316385003333 MerR HTH family regulatory protein; Region: MerR_2; pfam13591 316385003334 curved DNA-binding protein CbpA; Provisional; Region: PRK10266 316385003335 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 316385003336 HSP70 interaction site [polypeptide binding]; other site 316385003337 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 316385003338 substrate binding site [polypeptide binding]; other site 316385003339 dimer interface [polypeptide binding]; other site 316385003340 hypothetical protein; Provisional; Region: PRK09784 316385003341 glucose-1-phosphatase/inositol phosphatase; Provisional; Region: PRK10173 316385003342 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 316385003343 catalytic core [active] 316385003344 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 316385003345 hypothetical protein; Provisional; Region: PRK10174 316385003346 NAD(P)H:quinone oxidoreductase; Provisional; Region: PRK03767 316385003347 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 316385003348 General stress protein [General function prediction only]; Region: GsiB; COG3729 316385003349 pyrimidine utilization transport protein G; Region: RutG; TIGR03616 316385003350 pyrimidine utilization flavin reductase protein F; Region: RutF; TIGR03615 316385003351 Nitroreductase-like family 5. A subfamily of the nitroreductase family containing uncharacterized proteins that are similar to nitroreductase. Nitroreductase catalyzes the reduction of nitroaromatic compounds such as nitrotoluenes, nitrofurans and...; Region: Nitroreductase_5; cd02148 316385003352 putative FMN binding site [chemical binding]; other site 316385003353 pyrimidine utilization protein D; Region: RutD; TIGR03611 316385003354 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 316385003355 homotrimer interaction site [polypeptide binding]; other site 316385003356 putative active site [active] 316385003357 Isochorismatase family; Region: Isochorismatase; pfam00857 316385003358 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 316385003359 catalytic triad [active] 316385003360 conserved cis-peptide bond; other site 316385003361 pyrimidine utilization protein A; Region: RutA; TIGR03612 316385003362 Alkanesulfonate monoxygenase is the monoxygenase of a two-component system that catalyzes the conversion of alkanesulfonates to the corresponding aldehyde and sulfite. Alkanesulfonate monoxygenase (SsuD) has an absolute requirement for reduced flavin...; Region: Alkanesulfonate_monoxygenase; cd01094 316385003363 active site 316385003364 dimer interface [polypeptide binding]; other site 316385003365 non-prolyl cis peptide bond; other site 316385003366 insertion regions; other site 316385003367 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 316385003368 HTH-type transcriptional regulator RutR; Provisional; Region: PRK15008 316385003369 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 316385003370 YcdC-like protein, C-terminal region; Region: TetR_C_3; pfam08362 316385003371 trifunctional transcriptional regulator/proline dehydrogenase/pyrroline-5-carboxylate dehydrogenase; Reviewed; Region: putA; PRK11809 316385003372 Predicted transcriptional regulator [Transcription]; Region: COG3905 316385003373 Proline dehydrogenase [Amino acid transport and metabolism]; Region: PutA; COG0506 316385003374 Delta(1)-pyrroline-5-carboxylate dehydrogenase, PutA; Region: ALDH_PutA-P5CDH; cd07125 316385003375 Glutamate binding site [chemical binding]; other site 316385003376 NAD binding site [chemical binding]; other site 316385003377 catalytic residues [active] 316385003378 Na(+)/proline cotransporter PutP and related proteins; solute binding domain; Region: SLC5sbd_PutP; cd11475 316385003379 Na binding site [ion binding]; other site 316385003380 ferrous iron permease (pseudogene); interrupted by frameshift 316385003381 inactive ferrous ion transporter periplasmic protein EfeO; Provisional; Region: PRK10378 316385003382 Cupredoxin-like domain; Region: Cupredoxin_1; pfam13473 316385003383 Imelysin; Region: Peptidase_M75; pfam09375 316385003384 Tat-translocated enzyme; Region: tat_substr_1; TIGR01412 316385003385 Predicted iron-dependent peroxidase [Inorganic ion transport and metabolism]; Region: COG2837 316385003386 Phosphate starvation-inducible protein PhoH, predicted ATPase [Signal transduction mechanisms]; Region: PhoH; COG1702 316385003387 hypothetical protein; Provisional; Region: PRK10536 316385003388 putative PGA biosynthesis protein; Provisional; Region: pgaD; PRK14585 316385003389 N-glycosyltransferase; Provisional; Region: PRK11204 316385003390 CESA_like is the cellulose synthase superfamily; Region: CESA_like; cd06423 316385003391 DXD motif; other site 316385003392 Glycosyl transferase family group 2; Region: Glyco_trans_2_3; pfam13632 316385003393 outer membrane N-deacetylase; Provisional; Region: pgaB; PRK14582 316385003394 N-terminal putative catalytic polysaccharide deacetylase domain of bacterial poly-beta-1,6-N-acetyl-D-glucosamine N-deacetylase PgaB, and similar proteins; Region: CE4_PgaB_5s; cd10964 316385003395 putative active site [active] 316385003396 putative metal binding site [ion binding]; other site 316385003397 outer membrane protein PgaA; Provisional; Region: pgaA; PRK10049 316385003398 predicted diguanylate cyclase (pseudogene); interrupted by IS2 316385003399 putative transposase OrfB; Reviewed; Region: PHA02517 316385003400 HTH-like domain; Region: HTH_21; pfam13276 316385003401 Integrase core domain; Region: rve; pfam00665 316385003402 Integrase core domain; Region: rve_2; pfam13333 316385003403 Transposase; Region: HTH_Tnp_1; cl17663 316385003404 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 316385003405 acyl transferase (pseudogene); N-terminal deletion of 601 nucleotides relative to ymdE in Escherichia coli EDL933 (EHEC) (ASAP:ABH-0025362) by IS3 316385003406 bifunctional glyoxylate/hydroxypyruvate reductase A; Provisional; Region: ghrA; PRK15469 316385003407 Putative glycerate dehydrogenase and related proteins of the D-specific 2-hydroxy dehydrogenase family; Region: GDH_like_2; cd12164 316385003408 putative ligand binding site [chemical binding]; other site 316385003409 NAD binding site [chemical binding]; other site 316385003410 dimerization interface [polypeptide binding]; other site 316385003411 catalytic site [active] 316385003412 putative hydrolase; Validated; Region: PRK09248 316385003413 Polymerase and Histidinol Phosphatase domain of Ycdx like; Region: PHP_HisPPase_Ycdx_like; cd07437 316385003414 active site 316385003415 Uncharacterized component of anaerobic dehydrogenases [General function prediction only]; Region: TorD; COG3381 316385003416 Protein of unknown function (DUF1097); Region: DUF1097; pfam06496 316385003417 curli production assembly/transport protein CsgG; Provisional; Region: PRK15184 316385003418 curli assembly protein CsgF; Provisional; Region: PRK10050 316385003419 curli assembly protein CsgE; Provisional; Region: PRK10386 316385003420 DNA-binding transcriptional regulator CsgD; Provisional; Region: PRK10100 316385003421 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 316385003422 DNA binding residues [nucleotide binding] 316385003423 dimerization interface [polypeptide binding]; other site 316385003424 curlin minor subunit CsgB; Provisional; Region: csgB; PRK10101 316385003425 Curlin associated repeat; Region: Curlin_rpt; pfam07012 316385003426 Curlin associated repeat; Region: Curlin_rpt; pfam07012 316385003427 major curlin subunit; Provisional; Region: csgA; PRK10051 316385003428 Curlin associated repeat; Region: Curlin_rpt; pfam07012 316385003429 Curlin associated repeat; Region: Curlin_rpt; pfam07012 316385003430 curli assembly protein CsgC; Provisional; Region: csgC; PRK10102 316385003431 Fimbrial protein; Region: Fimbrial; cl01416 316385003432 Macro domain, Appr-1"-pase_like family. The macro domain is a high-affinity ADP-ribose binding module found in a variety of proteins as a stand-alone domain or in combination with other domains like in histone macroH2A and some PARPs (poly...; Region: Macro_Appr_pase_like; cd02908 316385003433 putative ADP-ribose binding site [chemical binding]; other site 316385003434 putative active site [active] 316385003435 Putative catalytic domain, repeat 1, of Escherichia coli uncharacterized protein ymdC and similar proteins; Region: PLDc_ymdC_like_1; cd09111 316385003436 PLD-like domain; Region: PLDc_2; pfam13091 316385003437 putative active site [active] 316385003438 catalytic site [active] 316385003439 Putative catalytic domain, repeat 2, of Escherichia coli uncharacterized protein ymdC and similar proteins; Region: PLDc_ymdC_like_2; cd09113 316385003440 PLD-like domain; Region: PLDc_2; pfam13091 316385003441 putative active site [active] 316385003442 catalytic site [active] 316385003443 glucans biosynthesis protein; Provisional; Region: opgC; PRK03854 316385003444 Acyltransferase family; Region: Acyl_transf_3; pfam01757 316385003445 glucan biosynthesis protein G; Provisional; Region: mdoG; PRK13274 316385003446 Periplasmic glucan biosynthesis protein, MdoG; Region: MdoG; pfam04349 316385003447 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 316385003448 Glucan_BSP_ModH catalyzes the elongation of beta-1,2 polyglucose chains of glucan; Region: Glucan_BSP_ModH; cd04191 316385003449 Ligand binding site; other site 316385003450 DXD motif; other site 316385003451 lipoprotein; Provisional; Region: PRK10175 316385003452 secY/secA suppressor protein; Provisional; Region: PRK11467 316385003453 drug efflux system protein MdtG; Provisional; Region: PRK09874 316385003454 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 316385003455 putative substrate translocation pore; other site 316385003456 Bacterial lipid A biosynthesis acyltransferase; Region: Lip_A_acyltrans; pfam03279 316385003457 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 316385003458 putative acyl-acceptor binding pocket; other site 316385003459 putative rhodanese-related sulfurtransferase; Provisional; Region: PRK00142 316385003460 Member of the Rhodanese Homology Domain superfamily. This CD includes Escherichia coli YceA, Bacillus subtilis YbfQ, and similar uncharacterized proteins; Region: RHOD_YceA; cd01518 316385003461 active site residue [active] 316385003462 hypothetical protein; Provisional; Region: PRK03757 316385003463 Cytochrome B561 [Energy production and conversion]; Region: CybB; COG3038 316385003464 Protein of unknown function (DUF2770); Region: DUF2770; pfam10968 316385003465 N-methyltryptophan oxidase; Provisional; Region: solA; PRK11259 316385003466 hydroxyglutarate oxidase; Provisional; Region: PRK11728 316385003467 biofilm formation regulatory protein BssS; Reviewed; Region: bssS; PRK12301 316385003468 DNA damage-inducible protein I; Provisional; Region: PRK10597 316385003469 Dihydroorotase (DHOase) catalyzes the reversible interconversion of carbamoyl aspartate to dihydroorotate, a key reaction in the pyrimidine biosynthesis. In contrast to the large polyfunctional CAD proteins of higher organisms, this group of DHOases is...; Region: DHOase; cd01294 316385003470 active site 316385003471 substrate binding pocket [chemical binding]; other site 316385003472 dimer interface [polypeptide binding]; other site 316385003473 lipoprotein; Provisional; Region: PRK10598 316385003474 glutaredoxin 2; Provisional; Region: PRK10387 316385003475 GST_N family, Glutaredoxin 2 (GRX2) subfamily; composed of bacterial proteins similar to E. coli GRX2, an atypical GRX with a molecular mass of about 24kD, compared with other GRXs which are 9-12kD in size. GRX2 adopts a GST fold containing an N-terminal...; Region: GST_N_GRX2; cd03037 316385003476 C-terminal domain interface [polypeptide binding]; other site 316385003477 GSH binding site (G-site) [chemical binding]; other site 316385003478 catalytic residues [active] 316385003479 putative dimer interface [polypeptide binding]; other site 316385003480 C-terminal, alpha helical domain of Glutaredoxin 2; Region: GST_C_GRX2; cd03199 316385003481 N-terminal domain interface [polypeptide binding]; other site 316385003482 multidrug resistance protein MdtH; Provisional; Region: PRK11646 316385003483 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 316385003484 putative substrate translocation pore; other site 316385003485 ribosomal-protein-S5-alanine N-acetyltransferase; Provisional; Region: PRK10809 316385003486 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 316385003487 hypothetical protein; Provisional; Region: PRK11239 316385003488 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3132 316385003489 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 316385003490 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 316385003491 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 316385003492 MurJ/MviN, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_MurJ_like; cd13123 316385003493 MviN-like protein; Region: MVIN; pfam03023 316385003494 flagella synthesis chaperone protein FlgN; Provisional; Region: PRK15459 316385003495 anti-sigma28 factor FlgM; Provisional; Region: PRK10810 316385003496 Flagellar basal body P-ring biosynthesis protein [Cell motility and secretion / Posttranslational modification, protein turnover, chaperones]; Region: FlgA; COG1261 316385003497 SAF domains of the flagella basal body P-ring formation protein FlgA and the flp pilus assembly CpaB; Region: SAF_CpaB_FlgA_like; cd11614 316385003498 Domains similar to fish antifreeze type III protein; Region: SAF; cl00555 316385003499 flagellar basal body rod protein FlgB; Reviewed; Region: flgB; PRK05680 316385003500 flagellar basal body rod protein FlgB; Reviewed; Region: flgB; PRK07182 316385003501 flagellar basal body rod protein FlgC; Reviewed; Region: flgC; PRK05681 316385003502 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 316385003503 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 316385003504 flagellar basal body rod modification protein; Reviewed; Region: flgD; PRK06655 316385003505 Flagellar hook capping protein - N-terminal region; Region: FlgD; pfam03963 316385003506 FlgD Tudor-like domain; Region: FLgD_tudor; pfam13861 316385003507 flagellar hook protein FlgE; Validated; Region: flgE; PRK05682 316385003508 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 316385003509 Flagellar basal body protein FlaE; Region: FlaE; pfam07559 316385003510 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 316385003511 Flagellar basal body rod protein [Cell motility and secretion]; Region: FlgF; COG4787 316385003512 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 316385003513 flagellar basal-body rod protein FlgF; Region: flgF; TIGR02490 316385003514 flagellar basal body rod protein FlgG; Provisional; Region: flgG; PRK12693 316385003515 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 316385003516 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 316385003517 Flagellar basal body L-ring protein [Cell motility and secretion]; Region: FlgH; COG2063 316385003518 flagellar basal body L-ring protein; Reviewed; Region: flgH; PRK00249 316385003519 flagellar basal body P-ring protein; Provisional; Region: flgI; PRK05303 316385003520 flagellar basal body P-ring protein; Reviewed; Region: flgI; cl14622 316385003521 flagellar rod assembly protein/muramidase FlgJ; Validated; Region: flgJ; PRK05684 316385003522 Rod binding protein [Cell envelope biogenesis, outer membrane / Cell motility and secretion / Posttranslational modification, protein turnover, chaperones]; Region: COG3951 316385003523 Muramidase (flagellum-specific) [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FlgJ; COG1705 316385003524 flagellar hook-associated protein FlgK; Validated; Region: flgK; PRK08147 316385003525 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 316385003526 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; cl15855 316385003527 flagellar hook-associated protein FlgL; Reviewed; Region: flgL; PRK08027 316385003528 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 316385003529 ribonuclease, Rne/Rng family; Region: RNaseEG; TIGR00757 316385003530 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 316385003531 homodimer interface [polypeptide binding]; other site 316385003532 oligonucleotide binding site [chemical binding]; other site 316385003533 Polyribonucleotide phosphorylase C terminal; Region: PNPase_C; pfam12111 316385003534 Protein of unknown function (DUF2655); Region: DUF2655; pfam10848 316385003535 23S rRNA pseudouridylate synthase C; Provisional; Region: PRK11025 316385003536 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 316385003537 RNA binding surface [nucleotide binding]; other site 316385003538 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 316385003539 active site 316385003540 Maf-like protein; Region: Maf; pfam02545 316385003541 Nucleotide binding protein Maf. Maf has been implicated in inhibition of septum formation in eukaryotes, bacteria and archaea, but homologs in B.subtilis and S.cerevisiae are nonessential for cell division. Maf has been predicted to be a nucleotide- or...; Region: Maf; cd00555 316385003542 active site 316385003543 dimer interface [polypeptide binding]; other site 316385003544 hypothetical protein; Provisional; Region: PRK11193 316385003545 50S ribosomal protein L32; Validated; Region: rpmF; PRK01110 316385003546 putative phosphate acyltransferase; Provisional; Region: PRK05331 316385003547 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK09352 316385003548 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 316385003549 dimer interface [polypeptide binding]; other site 316385003550 active site 316385003551 CoA binding pocket [chemical binding]; other site 316385003552 (acyl-carrier-protein) S-malonyltransferase [Lipid metabolism]; Region: FabD; COG0331 316385003553 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 316385003554 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 316385003555 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 316385003556 NAD(P) binding site [chemical binding]; other site 316385003557 homotetramer interface [polypeptide binding]; other site 316385003558 homodimer interface [polypeptide binding]; other site 316385003559 active site 316385003560 acyl carrier protein; Provisional; Region: acpP; PRK00982 316385003561 3-oxoacyl-(acyl carrier protein) synthase II; Reviewed; Region: PRK07314 316385003562 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 316385003563 dimer interface [polypeptide binding]; other site 316385003564 active site 316385003565 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 316385003566 ADCL_like: 4-Amino-4-deoxychorismate lyase: is a member of the fold-type IV of PLP dependent enzymes that converts 4-amino-4-deoxychorismate (ADC) to p-aminobenzoate and pyruvate. Based on the information available from the crystal structure, most...; Region: ADCL_like; cd01559 316385003567 pyridoxal 5'-phosphate binding site [chemical binding]; other site 316385003568 catalytic residue [active] 316385003569 conserved hypothetical protein, YceG family; Region: TIGR00247 316385003570 proteins similar to Escherichia coli yceG; Region: yceG_like; cd08010 316385003571 dimerization interface [polypeptide binding]; other site 316385003572 thymidylate kinase; Validated; Region: tmk; PRK00698 316385003573 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 316385003574 TMP-binding site; other site 316385003575 ATP-binding site [chemical binding]; other site 316385003576 DNA polymerase III subunit delta'; Validated; Region: PRK07993 316385003577 DNA polymerase III, delta subunit, C terminal; Region: DNApol3-delta_C; pfam09115 316385003578 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 316385003579 Predicted metal-dependent hydrolases with the TIM-barrel fold [General function prediction only]; Region: COG1099 316385003580 active site 316385003581 PTS system glucose-specific transporter subunits IIBC; Provisional; Region: PRK11089 316385003582 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 316385003583 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 316385003584 active site turn [active] 316385003585 phosphorylation site [posttranslational modification] 316385003586 ferric-rhodotorulic acid outer membrane transporter; Provisional; Region: PRK10003 316385003587 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 316385003588 N-terminal plug; other site 316385003589 ligand-binding site [chemical binding]; other site 316385003590 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 316385003591 nucleotide binding site/active site [active] 316385003592 HIT family signature motif; other site 316385003593 catalytic residue [active] 316385003594 Predicted periplasmic lipoprotein [General function prediction only]; Region: COG5633 316385003595 Putative periplasmic lipoprotein; Region: DUF1425; cd09030 316385003596 putative dimer interface [polypeptide binding]; other site 316385003597 Collagen-binding surface adhesin SpaP (antigen I/II family) [General function prediction only]; Region: FlgN; COG3417 316385003598 thiamine kinase; Region: ycfN_thiK; TIGR02721 316385003599 Aminoglycoside 3'-phosphotransferase (APH) and Choline Kinase (ChoK) family. The APH/ChoK family is part of a larger superfamily that includes the catalytic domains of other kinases, such as the typical serine/threonine/tyrosine protein kinases (PKs)...; Region: APH_ChoK_like; cd05120 316385003600 active site 316385003601 substrate binding site [chemical binding]; other site 316385003602 ATP binding site [chemical binding]; other site 316385003603 Beta-glucosidase-related glycosidases [Carbohydrate transport and metabolism]; Region: BglX; COG1472 316385003604 beta-hexosaminidase; Provisional; Region: PRK05337 316385003605 hypothetical protein; Provisional; Region: PRK04940 316385003606 NADH dehydrogenase, FAD-containing subunit [Energy production and conversion]; Region: Ndh; COG1252 316385003607 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 316385003608 hypothetical protein; Provisional; Region: PRK11280 316385003609 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 316385003610 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 316385003611 Protein of unknown function (DUF1471); Region: DUF1471; pfam07338 316385003612 L,D-transpeptidase; Provisional; Region: PRK10260 316385003613 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 316385003614 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 316385003615 transcription-repair coupling factor; Provisional; Region: PRK10689 316385003616 CarD-like/TRCF domain; Region: CarD_TRCF; smart01058 316385003617 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 316385003618 ATP binding site [chemical binding]; other site 316385003619 putative Mg++ binding site [ion binding]; other site 316385003620 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 316385003621 nucleotide binding region [chemical binding]; other site 316385003622 ATP-binding site [chemical binding]; other site 316385003623 This domain is found in proteins necessary for strand-specific repair in DNA such as TRCF in Escherichia coli; Region: TRCF; smart00982 316385003624 Predicted membrane protein [Function unknown]; Region: COG4763 316385003625 Acyltransferase family; Region: Acyl_transf_3; pfam01757 316385003626 outer membrane-specific lipoprotein transporter subunit LolC; Provisional; Region: PRK10814 316385003627 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 316385003628 FtsX-like permease family; Region: FtsX; pfam02687 316385003629 lipoprotein transporter ATP-binding subunit; Provisional; Region: lolD; PRK11629 316385003630 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 316385003631 Walker A/P-loop; other site 316385003632 ATP binding site [chemical binding]; other site 316385003633 Q-loop/lid; other site 316385003634 ABC transporter signature motif; other site 316385003635 Walker B; other site 316385003636 D-loop; other site 316385003637 H-loop/switch region; other site 316385003638 outer membrane-specific lipoprotein transporter subunit LolE; Provisional; Region: PRK11146 316385003639 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 316385003640 FtsX-like permease family; Region: FtsX; pfam02687 316385003641 fructokinase; Reviewed; Region: PRK09557 316385003642 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 316385003643 nucleotide binding site [chemical binding]; other site 316385003644 NAD-dependent deacetylase; Provisional; Region: PRK00481 316385003645 SIRT5_Af1_CobB: Eukaryotic, archaeal and prokaryotic group (class3) which includes human sirtuin SIRT5, Archaeoglobus fulgidus Sir2-Af1, and E. coli CobB; and are members of the SIR2 family of proteins, silent information regulator 2 (Sir2) enzymes which...; Region: SIRT5_Af1_CobB; cd01412 316385003646 NAD+ binding site [chemical binding]; other site 316385003647 substrate binding site [chemical binding]; other site 316385003648 Zn binding site [ion binding]; other site 316385003649 Beta-propeller domains of methanol dehydrogenase type [General function prediction only]; Region: COG1512 316385003650 Protein of unknown function (DUF3592); Region: DUF3592; pfam12158 316385003651 spermidine/putrescine ABC transporter periplasmic substrate-binding protein; Reviewed; Region: potD; PRK09501 316385003652 Bacterial extracellular solute-binding protein; Region: SBP_bac_6; pfam13343 316385003653 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 316385003654 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 316385003655 dimer interface [polypeptide binding]; other site 316385003656 conserved gate region; other site 316385003657 putative PBP binding loops; other site 316385003658 ABC-ATPase subunit interface; other site 316385003659 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 316385003660 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 316385003661 dimer interface [polypeptide binding]; other site 316385003662 conserved gate region; other site 316385003663 putative PBP binding loops; other site 316385003664 ABC-ATPase subunit interface; other site 316385003665 putrescine/spermidine ABC transporter ATPase protein; Reviewed; Region: potA; PRK09452 316385003666 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 316385003667 Walker A/P-loop; other site 316385003668 ATP binding site [chemical binding]; other site 316385003669 Q-loop/lid; other site 316385003670 ABC transporter signature motif; other site 316385003671 Walker B; other site 316385003672 D-loop; other site 316385003673 H-loop/switch region; other site 316385003674 TOBE domain; Region: TOBE_2; pfam08402 316385003675 Di- and tripeptidases [Amino acid transport and metabolism]; Region: PepD; COG2195 316385003676 M20 Peptidase T specifically cleaves tripeptides; Region: M20_peptT; cd03892 316385003677 metal binding site [ion binding]; metal-binding site 316385003678 dimer interface [polypeptide binding]; other site 316385003679 Uncharacterized conserved protein [Function unknown]; Region: COG2850 316385003680 Cupin-like domain; Region: Cupin_8; pfam13621 316385003681 sensor protein PhoQ; Provisional; Region: PRK10815 316385003682 PhoQ Sensor; Region: PhoQ_Sensor; pfam08918 316385003683 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cl01054 316385003684 His Kinase A (phospho-acceptor) domain; Region: HisKA; pfam00512 316385003685 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 316385003686 ATP binding site [chemical binding]; other site 316385003687 Mg2+ binding site [ion binding]; other site 316385003688 G-X-G motif; other site 316385003689 DNA-binding transcriptional regulator PhoP; Provisional; Region: PRK10816 316385003690 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 316385003691 active site 316385003692 phosphorylation site [posttranslational modification] 316385003693 intermolecular recognition site; other site 316385003694 dimerization interface [polypeptide binding]; other site 316385003695 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 316385003696 DNA binding site [nucleotide binding] 316385003697 adenylosuccinate lyase; Provisional; Region: PRK09285 316385003698 PurB_like adenylosuccinases (adenylsuccinate lyase, ASL); Region: PurB; cd01598 316385003699 tetramer interface [polypeptide binding]; other site 316385003700 active site 316385003701 putative lysogenization regulator; Reviewed; Region: PRK00218 316385003702 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 316385003703 tRNA (5-methylaminomethyl-2-thiouridylate)-methyltransferase; Region: trmU; TIGR00420 316385003704 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 316385003705 nudix motif; other site 316385003706 23S rRNA pseudouridine synthase E; Provisional; Region: PRK11394 316385003707 Pseudouridine synthase, Escherichia coli RluE; Region: PseudoU_synth_RluE; cd02566 316385003708 probable active site [active] 316385003709 isocitrate dehydrogenase; Validated; Region: PRK07362 316385003710 isocitrate dehydrogenase; Reviewed; Region: PRK07006 316385003711 these residues flank a 15204 bp region of the E. coli K-12 genome deleted in this allele due to excision of the e14 prophage; the deleted residues correspond to 1195443..1210646 in MG1655 version m56 316385003712 anti-adapter protein IraM; Provisional; Region: PRK09919 316385003713 Protein of unknown function (DUF1398); Region: DUF1398; pfam07166 316385003714 transcriptional regulator MirA; Provisional; Region: PRK15043 316385003715 Helix-Turn-Helix DNA binding domain of the transcription regulators MlrA and CarA; Region: HTH_MlrA-CarA; cd01104 316385003716 DNA binding residues [nucleotide binding] 316385003717 Sensors of blue-light using FAD; Region: BLUF; smart01034 316385003718 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 316385003719 Biofilm development protein YmgB/AriR; Region: YmgB; pfam10798 316385003720 Biofilm development protein YmgB/AriR; Region: YmgB; pfam10798 316385003721 CSS motif domain associated with EAL; Region: CSS-motif; pfam12792 316385003722 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 316385003723 predicted protein (pseudogene); interrupted by frameshift and in-frame stop 316385003724 predicted protein (pseudogene) 316385003725 cell division topological specificity factor MinE; Reviewed; Region: minE; PRK00296 316385003726 cell division inhibitor MinD; Provisional; Region: PRK10818 316385003727 Bacterial cell division requires the formation of a septum at mid-cell. The site is determined by the min operon products MinC, MinD and MinE. MinC is a nonspecific inhibitor of the septum protein FtsZ. MinE is the supressor of MinC. MinD plays a pivotal...; Region: MinD; cd02036 316385003728 Switch I; other site 316385003729 Switch II; other site 316385003730 septum formation inhibitor; Reviewed; Region: minC; PRK03511 316385003731 Septum formation inhibitor MinC, N-terminal domain; Region: MinC_N; pfam05209 316385003732 Septum formation inhibitor MinC, C-terminal domain; Region: MinC_C; pfam03775 316385003733 Fels-1 Prophage Protein-like; Region: Fels1; pfam05666 316385003734 Fels-1 Prophage Protein-like; Region: Fels1; pfam05666 316385003735 Bacterial pre-peptidase C-terminal domain; Region: PPC; pfam04151 316385003736 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3100 316385003737 2-keto-4-pentenoate hydratase/2-oxohepta-3-ene-1,7-dioic acid hydratase (catechol pathway) [Secondary metabolites biosynthesis, transport, and catabolism]; Region: MhpD; COG0179 316385003738 hypothetical protein; Provisional; Region: PRK10691 316385003739 hypothetical protein; Provisional; Region: PRK05170 316385003740 hemolysin E; Provisional; Region: hlyE; PRK11376 316385003741 SOS-response transcriptional repressors (RecA-mediated autopeptidases) [Transcription / Signal transduction mechanisms]; Region: LexA; COG1974 316385003742 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 316385003743 Catalytic site [active] 316385003744 DNA polymerase V subunit UmuC; Reviewed; Region: umuC; PRK03609 316385003745 umuC subunit of DNA Polymerase V; Region: PolY_Pol_V_umuC; cd01700 316385003746 active site 316385003747 DNA binding site [nucleotide binding] 316385003748 Domain of unknown function (DUF4113); Region: DUF4113; pfam13438 316385003749 disulfide bond formation protein B; Provisional; Region: PRK01749 316385003750 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cd00625 316385003751 transmembrane helices; other site 316385003752 fatty acid metabolism regulator; Provisional; Region: PRK04984 316385003753 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 316385003754 DNA-binding site [nucleotide binding]; DNA binding site 316385003755 FadR C-terminal domain; Region: FadR_C; pfam07840 316385003756 SpoVR family protein; Provisional; Region: PRK11767 316385003757 Uncharacterized conserved protein [Function unknown]; Region: SpoVR; COG2719 316385003758 D-amino acid dehydrogenase small subunit; Validated; Region: PRK00711 316385003759 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 316385003760 alanine racemase; Reviewed; Region: dadX; PRK03646 316385003761 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, Proteobacterial Alanine Racemases; Region: PLPDE_III_AR_proteobact; cd06827 316385003762 active site 316385003763 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 316385003764 substrate binding site [chemical binding]; other site 316385003765 catalytic residues [active] 316385003766 dimer interface [polypeptide binding]; other site 316385003767 NhaP-type Na+/H+ and K+/H+ antiporters with a unique C-terminal domain [Inorganic ion transport and metabolism]; Region: COG3263 316385003768 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 316385003769 TrkA-C domain; Region: TrkA_C; pfam02080 316385003770 Transporter associated domain; Region: CorC_HlyC; smart01091 316385003771 LD-Carboxypeptidase, a serine protease, includes microcin C7 self immunity protein; Region: Peptidase_S66; cd07025 316385003772 dimer interface [polypeptide binding]; other site 316385003773 catalytic triad [active] 316385003774 lytic murein endotransglycosylase E; Provisional; Region: emtA; PRK15470 316385003775 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 316385003776 N-acetyl-D-glucosamine binding site [chemical binding]; other site 316385003777 catalytic residue [active] 316385003778 c-di-GMP-binding protein [Signal transduction mechanisms]; Region: COG5581 316385003779 Flagellar regulator YcgR; Region: YcgR; pfam07317 316385003780 PilZ domain; Region: PilZ; pfam07238 316385003781 hypothetical protein; Provisional; Region: PRK10457 316385003782 trehalase; Provisional; Region: treA; PRK13271 316385003783 Neutral trehalase [Carbohydrate transport and metabolism]; Region: TreA; COG1626 316385003784 dihydroxyacetone kinase subunit M; Provisional; Region: PRK11377 316385003785 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3412 316385003786 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 316385003787 dimerization domain swap beta strand [polypeptide binding]; other site 316385003788 regulatory protein interface [polypeptide binding]; other site 316385003789 active site 316385003790 regulatory phosphorylation site [posttranslational modification]; other site 316385003791 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 316385003792 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 316385003793 dihydroxyacetone kinase subunit DhaL; Provisional; Region: PRK10005 316385003794 dihydroxyacetone kinase subunit DhaK; Provisional; Region: PRK11468 316385003795 Dak1 domain; Region: Dak1; pfam02733 316385003796 DNA-binding transcriptional regulator DhaR; Provisional; Region: PRK11388 316385003797 PAS domain; Region: PAS; smart00091 316385003798 putative active site [active] 316385003799 heme pocket [chemical binding]; other site 316385003800 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 316385003801 Walker A motif; other site 316385003802 ATP binding site [chemical binding]; other site 316385003803 Walker B motif; other site 316385003804 arginine finger; other site 316385003805 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 316385003806 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 316385003807 outer membrane autotransporter barrel domain; Region: autotrans_barl; TIGR01414 316385003808 Autotransporter beta-domain; Region: Autotransporter; pfam03797 316385003809 GTP-binding protein YchF; Reviewed; Region: PRK09601 316385003810 YchF GTPase; Region: YchF; cd01900 316385003811 G1 box; other site 316385003812 GTP/Mg2+ binding site [chemical binding]; other site 316385003813 Switch I region; other site 316385003814 G2 box; other site 316385003815 Switch II region; other site 316385003816 G3 box; other site 316385003817 G4 box; other site 316385003818 G5 box; other site 316385003819 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 316385003820 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 316385003821 putative active site [active] 316385003822 catalytic residue [active] 316385003823 hypothetical protein; Provisional; Region: PRK10692 316385003824 putative transporter; Provisional; Region: PRK11660 316385003825 Sulfate transporter N-terminal domain with GLY motif; Region: Sulfate_tra_GLY; pfam13792 316385003826 Sulfate transporter family; Region: Sulfate_transp; pfam00916 316385003827 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 316385003828 ribose-phosphate pyrophosphokinase; Provisional; Region: PRK01259 316385003829 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 316385003830 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 316385003831 active site 316385003832 4-diphosphocytidyl-2-C-methyl-D-erythritol kinase; Provisional; Region: ipk; PRK00343 316385003833 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 316385003834 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 316385003835 outer membrane lipoprotein LolB; Region: lolB; TIGR00548 316385003836 Outer membrane lipoprotein LolB; Region: LolB; pfam03550 316385003837 glutamyl-tRNA reductase; Reviewed; Region: hemA; PRK00045 316385003838 NADP-binding domain of glutamyl-tRNA reductase; Region: NAD_bind_Glutamyl_tRNA_reduct; cd05213 316385003839 tRNA; other site 316385003840 putative tRNA binding site [nucleotide binding]; other site 316385003841 putative NADP binding site [chemical binding]; other site 316385003842 Glutamyl-tRNAGlu reductase, dimerisation domain; Region: GlutR_dimer; pfam00745 316385003843 peptide chain release factor 1; Validated; Region: prfA; PRK00591 316385003844 This domain is found in peptide chain release factors; Region: PCRF; smart00937 316385003845 RF-1 domain; Region: RF-1; pfam00472 316385003846 N5-glutamine S-adenosyl-L-methionine-dependent methyltransferase; Provisional; Region: PRK09328 316385003847 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 316385003848 hypothetical protein; Provisional; Region: PRK10278 316385003849 hypothetical protein; Provisional; Region: PRK10941 316385003850 Transglutaminase-like superfamily; Region: Transglut_core2; pfam13369 316385003851 2-dehydro-3-deoxyphosphooctonate aldolase; Provisional; Region: PRK05198 316385003852 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 316385003853 Toxin Ldr, type I toxin-antitoxin system; Region: Ldr_toxin; pfam13940 316385003854 Toxin Ldr, type I toxin-antitoxin system; Region: Ldr_toxin; pfam13940 316385003855 Toxin Ldr, type I toxin-antitoxin system; Region: Ldr_toxin; pfam13940 316385003856 calcium/sodium:proton antiporter; Provisional; Region: PRK10599 316385003857 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 316385003858 cation transport regulator; Reviewed; Region: chaB; PRK09582 316385003859 Uncharacterized protein involved in cation transport [Inorganic ion transport and metabolism]; Region: ChaC; COG3703 316385003860 GGCT-like domains, also called AIG2-like family. Gamma-glutamyl cyclotransferase (GGCT) catalyzes the formation of pyroglutamic acid (5-oxoproline) from dipeptides containing gamma-glutamyl, and is a dimeric protein. In Homo sapiens, the protein is...; Region: GGCT_like; cd06661 316385003861 putative active site pocket [active] 316385003862 dimerization interface [polypeptide binding]; other site 316385003863 putative catalytic residue [active] 316385003864 Uncharacterized conserved protein involved in intracellular sulfur reduction [Inorganic ion transport and metabolism]; Region: DsrE; COG1553 316385003865 putative invasin; Provisional; Region: PRK10177 316385003866 Protein of unknown function (DUF3442); Region: DUF3442; pfam11924 316385003867 transcriptional regulator NarL; Provisional; Region: PRK10651 316385003868 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 316385003869 active site 316385003870 phosphorylation site [posttranslational modification] 316385003871 intermolecular recognition site; other site 316385003872 dimerization interface [polypeptide binding]; other site 316385003873 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 316385003874 DNA binding residues [nucleotide binding] 316385003875 dimerization interface [polypeptide binding]; other site 316385003876 nitrate/nitrite sensor protein NarX; Provisional; Region: PRK10600 316385003877 Type IV pili methyl-accepting chemotaxis transducer N-term; Region: PilJ; pfam13675 316385003878 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 316385003879 dimerization interface [polypeptide binding]; other site 316385003880 Histidine kinase; Region: HisKA_3; pfam07730 316385003881 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 316385003882 ATP binding site [chemical binding]; other site 316385003883 Mg2+ binding site [ion binding]; other site 316385003884 G-X-G motif; other site 316385003885 nitrate/nitrite transport protein NarU; Provisional; Region: PRK15034 316385003886 respiratory nitrate reductase, alpha subunit; Region: narG; TIGR01580 316385003887 Respiratory nitrate reductase A (NarGHI), alpha chain (NarG) and related proteins. Under anaerobic conditions in the presence of nitrate, E. coli synthesizes the cytoplasmic membrane-bound quinol-nitrate oxidoreductase (NarGHI), which reduces nitrate to...; Region: MopB_Nitrate-R-NarG-like; cd02750 316385003888 [4Fe-4S] binding site [ion binding]; other site 316385003889 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 316385003890 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 316385003891 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 316385003892 Respiratory nitrate reductase A (NarGHI), alpha chain (NarG) and related proteins. Under anaerobic conditions in the presence of nitrate, E. coli synthesizes the cytoplasmic membrane-bound quinol-nitrate oxidoreductase (NarGHI), which reduces nitrate to...; Region: MopB_CT_Nitrate-R-NarG-like; cd02776 316385003893 molybdopterin cofactor binding site; other site 316385003894 Nitrate reductase beta subunit [Energy production and conversion]; Region: NarY; COG1140 316385003895 4Fe-4S binding domain; Region: Fer4; cl02805 316385003896 Nitrate reductase delta subunit; Region: Nitrate_red_del; cl00958 316385003897 respiratory nitrate reductase, gamma subunit; Region: narI; TIGR00351 316385003898 formyltetrahydrofolate deformylase; Reviewed; Region: purU; PRK06027 316385003899 N-terminal ACT domain of formyltetrahydrofolate deformylase (F4HF-DF; formyltetrahydrofolate hydrolase); Region: ACT_F4HF-DF; cd04875 316385003900 Formyltetrahydrofolate deformylase (Formyl-FH4 hydrolase), C-terminal hydrolase domain; Region: FMT_core_Formyl-FH4-Hydrolase_C; cd08648 316385003901 putative active site [active] 316385003902 putative substrate binding site [chemical binding]; other site 316385003903 putative cosubstrate binding site; other site 316385003904 catalytic site [active] 316385003905 SEC-C motif; Region: SEC-C; pfam02810 316385003906 hypothetical protein; Provisional; Region: PRK04233 316385003907 hypothetical protein; Provisional; Region: PRK10279 316385003908 Bacterial patatin-like phospholipase domain containing protein 6; Region: Pat_NTE_like_bacteria; cd07228 316385003909 active site 316385003910 nucleophile elbow; other site 316385003911 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 316385003912 active site 316385003913 response regulator of RpoS; Provisional; Region: PRK10693 316385003914 phosphorylation site [posttranslational modification] 316385003915 intermolecular recognition site; other site 316385003916 dimerization interface [polypeptide binding]; other site 316385003917 Prokaryotic UGPase catalyses the synthesis of UDP-glucose; Region: UGPase_prokaryotic; cd02541 316385003918 dTDP-glucose pyrophosphorylase [Cell envelope biogenesis, outer membrane]; Region: RfbA; COG1209 316385003919 active site 316385003920 tetramer interface; other site 316385003921 global DNA-binding transcriptional dual regulator H-NS; Provisional; Region: PRK10947 316385003922 Domain in histone-like proteins of HNS family; Region: HNS; smart00528 316385003923 thymidine kinase; Provisional; Region: PRK04296 316385003924 predicted protein (pseudogene); interrupted by frameshift and C-ter deletion 316385003925 bifunctional acetaldehyde-CoA/alcohol dehydrogenase; Provisional; Region: PRK13805 316385003926 Coenzyme A acylating aldehyde dehydrogenase (ACDH), ALDH family 20-like; Region: ALDH_F20_ACDH; cd07122 316385003927 putative catalytic cysteine [active] 316385003928 C-terminal alcohol dehydrogenase domain of the acetaldehyde dehydrogenase-alcohol dehydrogenase bifunctional two-domain protein (AAD); Region: AAD_C; cd08178 316385003929 putative active site [active] 316385003930 metal binding site [ion binding]; metal-binding site 316385003931 hypothetical protein; Provisional; Region: PRK11111 316385003932 oligopeptide ABC transporter substrate-binding protein OppA; Provisional; Region: PRK15104 316385003933 The substrate-binding component of an ABC-type oligopetide import system contains the type 2 periplasmic binding fold; Region: PBP2_OppA; cd08504 316385003934 peptide binding site [polypeptide binding]; other site 316385003935 oligopeptide transporter permease; Reviewed; Region: oppB; PRK09471 316385003936 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 316385003937 dimer interface [polypeptide binding]; other site 316385003938 conserved gate region; other site 316385003939 putative PBP binding loops; other site 316385003940 ABC-ATPase subunit interface; other site 316385003941 oligopeptide ABC transporter permease OppC; Provisional; Region: PRK15406 316385003942 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 316385003943 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 316385003944 dimer interface [polypeptide binding]; other site 316385003945 conserved gate region; other site 316385003946 putative PBP binding loops; other site 316385003947 ABC-ATPase subunit interface; other site 316385003948 oligopeptide transporter ATP-binding component; Provisional; Region: oppD; PRK09473 316385003949 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 316385003950 Walker A/P-loop; other site 316385003951 ATP binding site [chemical binding]; other site 316385003952 Q-loop/lid; other site 316385003953 ABC transporter signature motif; other site 316385003954 Walker B; other site 316385003955 D-loop; other site 316385003956 H-loop/switch region; other site 316385003957 oligopeptide/dipeptide ABC transporter, ATP-binding protein, C-terminal domain; Region: oligo_HPY; TIGR01727 316385003958 oligopeptide ABC transporter ATP-binding protein OppF; Provisional; Region: PRK15079 316385003959 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 316385003960 Walker A/P-loop; other site 316385003961 ATP binding site [chemical binding]; other site 316385003962 Q-loop/lid; other site 316385003963 ABC transporter signature motif; other site 316385003964 Walker B; other site 316385003965 D-loop; other site 316385003966 H-loop/switch region; other site 316385003967 oligopeptide/dipeptide ABC transporter, ATP-binding protein, C-terminal domain; Region: oligo_HPY; TIGR01727 316385003968 dsDNA-mimic protein; Reviewed; Region: PRK05094 316385003969 cardiolipin synthetase; Reviewed; Region: cls; PRK01642 316385003970 Phospholipase_D-nuclease N-terminal; Region: PLDc_N; pfam13396 316385003971 Catalytic domain, repeat 1, of Escherichia coli cardiolipin synthase and similar proteins; Region: PLDc_EcCLS_like_1; cd09152 316385003972 putative active site [active] 316385003973 catalytic site [active] 316385003974 Catalytic domain, repeat 2, of Escherichia coli cardiolipin synthase and similar proteins; Region: PLDc_EcCLS_like_2; cd09158 316385003975 putative active site [active] 316385003976 catalytic site [active] 316385003977 voltage-gated potassium channel; Provisional; Region: PRK10537 316385003978 Ion channel; Region: Ion_trans_2; pfam07885 316385003979 TrkA-N domain; Region: TrkA_N; pfam02254 316385003980 integrase; Provisional; Region: PRK09692 316385003981 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 316385003982 active site 316385003983 Int/Topo IB signature motif; other site 316385003984 Protein of unknown function (DUF4060); Region: DUF4060; pfam13269 316385003985 putative DNA methylase (pseudogene); interupted by frameshift 316385003986 YqaJ-like viral recombinase domain; Region: YqaJ; pfam09588 316385003987 RecT family; Region: RecT; pfam03837 316385003988 FtsZ inhibitor protein; Reviewed; Region: kil; PRK11354 316385003989 Protein of unknown function (DUF3626); Region: DUF3626; pfam12294 316385003990 Protein of unknown function (DUF1464); Region: DUF1464; cl17839 316385003991 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 316385003992 non-specific DNA binding site [nucleotide binding]; other site 316385003993 salt bridge; other site 316385003994 Predicted transcriptional regulator [Transcription]; Region: COG2932 316385003995 sequence-specific DNA binding site [nucleotide binding]; other site 316385003996 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 316385003997 Catalytic site [active] 316385003998 Helix-turn-helix; Region: HTH_3; pfam01381 316385003999 non-specific DNA binding site [nucleotide binding]; other site 316385004000 salt bridge; other site 316385004001 sequence-specific DNA binding site [nucleotide binding]; other site 316385004002 Protein of unknown function (DUF1019); Region: DUF1019; pfam06254 316385004003 phage replication protein O, N-terminal domain; Region: phage_O_Nterm; TIGR01610 316385004004 Replication protein P; Region: Phage_lambda_P; pfam06992 316385004005 hypothetical protein; Provisional; Region: PRK09741 316385004006 PrpA and PrpB, metallophosphatase domain; Region: MPP_PrpA_PrpB; cd07424 316385004007 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 316385004008 active site 316385004009 metal binding site [ion binding]; metal-binding site 316385004010 Bacteriophage Lambda NinG protein; Region: NinG; pfam05766 316385004011 Antitermination protein; Region: Antiterm; pfam03589 316385004012 Antitermination protein; Region: Antiterm; pfam03589 316385004013 Lysis protein S; Region: Lysis_S; pfam04971 316385004014 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 316385004015 catalytic residues [active] 316385004016 Bacteriophage lysis protein; Region: Phage_lysis; pfam03245 316385004017 Lipoprotein Rz1 precursor; Region: Rz1; pfam06085 316385004018 Phage regulatory protein Rha (Phage_pRha); Region: Phage_pRha; pfam09669 316385004019 Phage DNA packaging protein Nu1; Region: Phage_Nu1; pfam07471 316385004020 Phage terminase, large subunit GpA [Replication, recombination and repair]; Region: COG5525 316385004021 gpW; Region: gpW; pfam02831 316385004022 Bacteriophage capsid protein [General function prediction only]; Region: COG5511 316385004023 phage portal protein, lambda family; Region: portal_lambda; TIGR01539 316385004024 Signal peptide peptidase A (SppA) 36K type, a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_36K_type; cd07022 316385004025 signal peptide peptidase SppA, 36K type; Region: SppA_dom; TIGR00706 316385004026 tandem repeat interface [polypeptide binding]; other site 316385004027 oligomer interface [polypeptide binding]; other site 316385004028 active site residues [active] 316385004029 Bacteriophage lambda head decoration protein D; Region: HDPD; pfam02924 316385004030 major head protein; C-terminal truncation, possibly via recombination with a 12 bp repeat at the beginning of cynS 316385004031 Cyanate lyase [Inorganic ion transport and metabolism]; Region: CynS; COG1513 316385004032 Cyanase C-terminal domain. Cyanase (Cyanate lyase) is responsible for the hydrolysis of cyanate. It catalyzes the reaction of cyanate with bicarbonate to produce ammonia and carbon dioxide. This allows organisms that possess the enzyme to overcome the...; Region: Cyanase_C; cd00559 316385004033 oligomer interface [polypeptide binding]; other site 316385004034 active site 316385004035 putative cyanate transporter; Provisional; Region: cynX; PRK09705 316385004036 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 316385004037 galactoside O-acetyltransferase; Reviewed; Region: lacA; PRK09527 316385004038 Maltose O-acetyltransferase (MAT) and Galactoside O-acetyltransferase (GAT): MAT and GAT catalyze the CoA-dependent acetylation of the 6-hydroxyl group of their respective sugar substrates. MAT acetylates maltose and glucose exclusively at the C6...; Region: LbH_MAT_GAT; cd03357 316385004039 active site 316385004040 substrate binding site [chemical binding]; other site 316385004041 trimer interface [polypeptide binding]; other site 316385004042 CoA binding site [chemical binding]; other site 316385004043 LacY proton/sugar symporter; Region: LacY_symp; pfam01306 316385004044 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 316385004045 putative substrate translocation pore; other site 316385004046 lac repressor; Reviewed; Region: lacI; PRK09526 316385004047 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 316385004048 DNA binding site [nucleotide binding] 316385004049 domain linker motif; other site 316385004050 Ligand-binding domain of DNA transcription repressor LacI specific for lactose, a member of the LacI-GalR family of bacterial transcription regulators; Region: PBP1_LacI; cd01574 316385004051 ligand binding site [chemical binding]; other site 316385004052 dimerization interface (open form) [polypeptide binding]; other site 316385004053 dimerization interface (closed form) [polypeptide binding]; other site 316385004054 DNA-binding transcriptional activator MhpR; Provisional; Region: PRK09834 316385004055 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 316385004056 Bacterial transcriptional regulator; Region: IclR; pfam01614 316385004057 3-(3-hydroxyphenyl)propionate hydroxylase; Validated; Region: mhpA; PRK06183 316385004058 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 316385004059 Subunit B of the Class III Extradiol ring-cleavage dioxygenase, 2,3-dihydroxyphenylpropionate 1,2-dioxygenase (MhpB), which catalyzes the oxidization and subsequent ring-opening of 2,3-dihydroxyphenylpropionate; Region: MhpB_like; cd07365 316385004060 Catalytic LigB subunit of aromatic ring-opening dioxygenase; Region: LigB; pfam02900 316385004061 putative active site [active] 316385004062 Fe(II) binding site [ion binding]; other site 316385004063 putative dimer interface [polypeptide binding]; other site 316385004064 putative tetramer interface [polypeptide binding]; other site 316385004065 2-hydroxy-6-oxo-6-phenylhexa-2,4-dienoate hydrolase; Region: biphenyl_bphD; TIGR03343 316385004066 methyl indole-3-acetate methyltransferase; Region: PLN02211; cl17657 316385004067 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 316385004068 Serine Recombinase (SR) family, Resolvase and Invertase subfamily, catalytic domain; members contain a C-terminal DNA binding domain. Serine recombinases catalyze site-specific recombination of DNA molecules by a concerted, four-strand cleavage and...; Region: SR_ResInv; cd03768 316385004069 catalytic residues [active] 316385004070 catalytic nucleophile [active] 316385004071 Presynaptic Site I dimer interface [polypeptide binding]; other site 316385004072 Synaptic Antiparallel dimer interface [polypeptide binding]; other site 316385004073 Synaptic Flat tetramer interface [polypeptide binding]; other site 316385004074 Synaptic Site I dimer interface [polypeptide binding]; other site 316385004075 DNA binding site [nucleotide binding] 316385004076 Helix-turn-helix domain of Hin and related proteins, a family of DNA-binding domains unique to bacteria and represented by the Hin protein of Salmonella. The basic HTH domain is a simple fold comprised of three core helices that form a right-handed...; Region: HTH_Hin_like; cl17393 316385004077 Domain of unknown function (DUF4158); Region: DUF4158; pfam13700 316385004078 Tn3 transposase DDE domain; Region: DDE_Tnp_Tn3; pfam01526 316385004079 voltage-gated potassium channel (pseudogene); partial duplication (N-terminal 704 nt) of kch 316385004080 YciI-like protein; Reviewed; Region: PRK11370 316385004081 transport protein TonB; Provisional; Region: PRK10819 316385004082 Gram-negative bacterial tonB protein; Region: TonB; pfam03544 316385004083 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 316385004084 intracellular septation protein A; Reviewed; Region: PRK00259 316385004085 hypothetical protein; Provisional; Region: PRK02868 316385004086 outer membrane protein W; Provisional; Region: PRK10959 316385004087 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3685 316385004088 YciF bacterial stress response protein, ferritin-like iron-binding domain; Region: YciF; cd07909 316385004089 dimerization interface [polypeptide binding]; other site 316385004090 metal binding site [ion binding]; metal-binding site 316385004091 General stress protein [General function prediction only]; Region: GsiB; COG3729 316385004092 tryptophan synthase alpha subunit; Provisional; Region: trpA; CHL00200 316385004093 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 316385004094 substrate binding site [chemical binding]; other site 316385004095 active site 316385004096 catalytic residues [active] 316385004097 heterodimer interface [polypeptide binding]; other site 316385004098 tryptophan synthase, beta subunit; Region: trpB; TIGR00263 316385004099 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 316385004100 pyridoxal 5'-phosphate binding site [chemical binding]; other site 316385004101 catalytic residue [active] 316385004102 bifunctional indole-3-glycerol phosphate synthase/phosphoribosylanthranilate isomerase; Provisional; Region: PRK09427 316385004103 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 316385004104 active site 316385004105 ribulose/triose binding site [chemical binding]; other site 316385004106 phosphate binding site [ion binding]; other site 316385004107 substrate (anthranilate) binding pocket [chemical binding]; other site 316385004108 product (indole) binding pocket [chemical binding]; other site 316385004109 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 316385004110 active site 316385004111 bifunctional glutamine amidotransferase/anthranilate phosphoribosyltransferase; Provisional; Region: PRK09522 316385004112 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 316385004113 glutamine binding [chemical binding]; other site 316385004114 catalytic triad [active] 316385004115 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 316385004116 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 316385004117 anthranilate synthase component I; Provisional; Region: PRK13564 316385004118 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 316385004119 chorismate binding enzyme; Region: Chorismate_bind; pfam00425 316385004120 Predicted metal-dependent phosphoesterases (PHP family) [General function prediction only]; Region: COG0613 316385004121 Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase (HisPPase) AMP bound; Region: PHP_HisPPase_AMP; cd07438 316385004122 active site 316385004123 Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase (HisPPase) AMP bound; Region: PHP_HisPPase_AMP; cd07438 316385004124 hypothetical protein; Provisional; Region: PRK11630 316385004125 Predicted membrane protein (DUF2207); Region: DUF2207; pfam09972 316385004126 23S rRNA pseudouridylate synthase B; Provisional; Region: PRK10700 316385004127 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 316385004128 RNA binding surface [nucleotide binding]; other site 316385004129 Pseudouridine synthase, Escherichia coli RluB like; Region: PseudoU_synth_RluB; cd02556 316385004130 probable active site [active] 316385004131 ATP:corrinoid adenosyltransferase [Coenzyme metabolism]; Region: BtuR; COG2109 316385004132 Cob(I)alamin adenosyltransferase N terminal; Region: Co_AT_N; pfam12557 316385004133 ATP:corrinoid adenosyltransferase BtuR/CobO/CobP. This family consists of the BtuR, CobO, CobP proteins all of which are Cob(I)alamin (vitamin B12) adenosyltransferase, which is involved in cobalamin (vitamin B12) biosynthesis. This enzyme is a homodimer; Region: CobA_CobO_BtuR; cd00561 316385004134 homodimer interface [polypeptide binding]; other site 316385004135 Walker A motif; other site 316385004136 ATP binding site [chemical binding]; other site 316385004137 hydroxycobalamin binding site [chemical binding]; other site 316385004138 Walker B motif; other site 316385004139 putative oxoacyl-(acyl carrier protein) reductase; Provisional; Region: PRK08945 316385004140 Escherichia coli K-12 YCIK-like, classical (c) SDRs; Region: Ycik_SDR_c; cd05340 316385004141 NADP binding site [chemical binding]; other site 316385004142 homodimer interface [polypeptide binding]; other site 316385004143 active site 316385004144 Peptidase family S49 N-terminal; Region: Peptidase_S49_N; pfam08496 316385004145 putative inner membrane peptidase; Provisional; Region: PRK11778 316385004146 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 316385004147 tandem repeat interface [polypeptide binding]; other site 316385004148 oligomer interface [polypeptide binding]; other site 316385004149 active site residues [active] 316385004150 hypothetical protein; Provisional; Region: PRK11037 316385004151 DNA topoisomerase I subunit omega; Validated; Region: PRK07561 316385004152 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 316385004153 active site 316385004154 interdomain interaction site; other site 316385004155 putative metal-binding site [ion binding]; other site 316385004156 nucleotide binding site [chemical binding]; other site 316385004157 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 316385004158 domain I; other site 316385004159 DNA binding groove [nucleotide binding] 316385004160 phosphate binding site [ion binding]; other site 316385004161 domain II; other site 316385004162 domain III; other site 316385004163 nucleotide binding site [chemical binding]; other site 316385004164 catalytic site [active] 316385004165 domain IV; other site 316385004166 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 316385004167 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 316385004168 Topoisomerase I zinc-ribbon-like; Region: Topo_Zn_Ribbon; pfam08272 316385004169 Topoisomerase I zinc-ribbon-like; Region: Topo_Zn_Ribbon; pfam08272 316385004170 transcriptional regulator CysB; Reviewed; Region: cysB; PRK12681 316385004171 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 316385004172 The C-terminal substrate domain of LysR-type transcriptional regulator CysB contains type 2 periplasmic binding fold; Region: PBP2_CysB; cd08443 316385004173 substrate binding site [chemical binding]; other site 316385004174 putative dimerization interface [polypeptide binding]; other site 316385004175 aconitate hydratase; Validated; Region: PRK09277 316385004176 Aconitase A catalytic domain; Region: AcnA_IRP; cd01586 316385004177 substrate binding site [chemical binding]; other site 316385004178 ligand binding site [chemical binding]; other site 316385004179 Aconitase A swivel domain. This is the major form of the TCA cycle enzyme aconitate hydratase, also known as aconitase and citrate hydro-lyase. It includes bacterial and archaeal aconitase A, and the eukaryotic cytosolic form of aconitase. This group...; Region: AcnA_IRP_Swivel; cd01580 316385004180 substrate binding site [chemical binding]; other site 316385004181 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 316385004182 dimerization interface [polypeptide binding]; other site 316385004183 active site 316385004184 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 316385004185 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 316385004186 active site 316385004187 Predicted membrane protein [Function unknown]; Region: COG3771 316385004188 Predicted N-acetylglucosaminyl transferase [Carbohydrate transport and metabolism]; Region: COG2956 316385004189 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 316385004190 TPR motif; other site 316385004191 binding surface 316385004192 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 316385004193 binding surface 316385004194 TPR motif; other site 316385004195 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 316385004196 active site 316385004197 dimer interface [polypeptide binding]; other site 316385004198 translation initiation factor Sui1; Validated; Region: PRK06824 316385004199 Homologs of eIF1/SUI1 including Escherichia coli YciH; Region: YciH_like; cd11567 316385004200 putative rRNA binding site [nucleotide binding]; other site 316385004201 lipoprotein; Provisional; Region: PRK10540 316385004202 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 316385004203 helix_turn_helix, Deoxyribose operon repressor; Region: HTH_DEOR; smart00420 316385004204 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 316385004205 RNase II stability modulator; Provisional; Region: PRK10060 316385004206 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 316385004207 putative active site [active] 316385004208 heme pocket [chemical binding]; other site 316385004209 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 316385004210 metal binding site [ion binding]; metal-binding site 316385004211 active site 316385004212 I-site; other site 316385004213 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 316385004214 exoribonuclease II; Provisional; Region: PRK05054 316385004215 Ribonuclease B OB domain; Region: OB_RNB; pfam08206 316385004216 RNB domain; Region: RNB; pfam00773 316385004217 S1 RNA binding domain; Region: S1; pfam00575 316385004218 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4950 316385004219 Uncharacterized conserved protein [Function unknown]; Region: COG2128 316385004220 enoyl-(acyl carrier protein) reductase; Provisional; Region: PRK07984 316385004221 Enoyl acyl carrier protein (ACP) reductase (ENR), divergent SDR; Region: ENR_SDR; cd05372 316385004222 NAD binding site [chemical binding]; other site 316385004223 homotetramer interface [polypeptide binding]; other site 316385004224 homodimer interface [polypeptide binding]; other site 316385004225 substrate binding site [chemical binding]; other site 316385004226 active site 316385004227 Domain of unknown function, appears to be related to a diverse group of endonucleases; Region: Endonuclease_DUF559; cd01038 316385004228 putative active site [active] 316385004229 antimicrobial peptide ABC system ATP-binding protein SapF; Provisional; Region: PRK15112 316385004230 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 316385004231 Walker A/P-loop; other site 316385004232 ATP binding site [chemical binding]; other site 316385004233 Q-loop/lid; other site 316385004234 ABC transporter signature motif; other site 316385004235 Walker B; other site 316385004236 D-loop; other site 316385004237 H-loop/switch region; other site 316385004238 antimicrobial peptide ABC transporter ATP-binding protein; Provisional; Region: PRK15093 316385004239 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 316385004240 Walker A/P-loop; other site 316385004241 ATP binding site [chemical binding]; other site 316385004242 Q-loop/lid; other site 316385004243 ABC transporter signature motif; other site 316385004244 Walker B; other site 316385004245 D-loop; other site 316385004246 H-loop/switch region; other site 316385004247 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 316385004248 antimicrobial peptide ABC transporter permease SapC; Provisional; Region: PRK15111 316385004249 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 316385004250 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 316385004251 dimer interface [polypeptide binding]; other site 316385004252 conserved gate region; other site 316385004253 putative PBP binding loops; other site 316385004254 ABC-ATPase subunit interface; other site 316385004255 antimicrobial peptide ABC transporter permease SapB; Provisional; Region: PRK15110 316385004256 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 316385004257 dimer interface [polypeptide binding]; other site 316385004258 conserved gate region; other site 316385004259 putative PBP binding loops; other site 316385004260 ABC-ATPase subunit interface; other site 316385004261 ABC-type oligopeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: OppA; COG4166 316385004262 The substrate-binding component of an ABC-type dipeptide import system contains the type 2 periplasmic binding fold; Region: PBP2_DppA_like; cd08493 316385004263 peptide binding site [polypeptide binding]; other site 316385004264 Protein of unknown function (DUF2543); Region: DUF2543; pfam10820 316385004265 Amino acid transporters [Amino acid transport and metabolism]; Region: PotE; COG0531 316385004266 Glutamine synthetase [Amino acid transport and metabolism]; Region: GlnA; COG0174 316385004267 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 316385004268 gamma-glutamyl-gamma-aminobutyrate hydrolase; Provisional; Region: puuD; PRK11366 316385004269 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_2; cd01745 316385004270 catalytic triad [active] 316385004271 DNA-binding transcriptional repressor PuuR; Provisional; Region: PRK09943 316385004272 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 316385004273 non-specific DNA binding site [nucleotide binding]; other site 316385004274 salt bridge; other site 316385004275 sequence-specific DNA binding site [nucleotide binding]; other site 316385004276 Cupin domain; Region: Cupin_2; pfam07883 316385004277 gamma-glutamyl-gamma-aminobutyraldehyde dehydrogenase; Provisional; Region: PRK09847 316385004278 Escherichia coli NADP+-dependent gamma-glutamyl-gamma-aminobutyraldehyde dehydrogenase PuuC-like; Region: ALDH_GABALDH-PuuC; cd07112 316385004279 NAD(P) binding site [chemical binding]; other site 316385004280 catalytic residues [active] 316385004281 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 316385004282 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 316385004283 4-aminobutyrate transaminase; Provisional; Region: PRK09792 316385004284 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 316385004285 inhibitor-cofactor binding pocket; inhibition site 316385004286 pyridoxal 5'-phosphate binding site [chemical binding]; other site 316385004287 catalytic residue [active] 316385004288 phage shock protein operon transcriptional activator; Provisional; Region: pspF; PRK11608 316385004289 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 316385004290 Walker A motif; other site 316385004291 ATP binding site [chemical binding]; other site 316385004292 Walker B motif; other site 316385004293 arginine finger; other site 316385004294 phage shock protein PspA; Provisional; Region: PRK10698 316385004295 phage shock protein B; Provisional; Region: pspB; PRK09458 316385004296 DNA-binding transcriptional activator PspC; Provisional; Region: PRK10697 316385004297 phage shock protein C; Region: phageshock_pspC; TIGR02978 316385004298 peripheral inner membrane phage-shock protein; Provisional; Region: PRK10497 316385004299 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 316385004300 active site residue [active] 316385004301 Alpha amylase catalytic domain found in sucrose phosphorylase-like proteins (also called sucrose glucosyltransferase, disaccharide glucosyltransferase, and sucrose-phosphate alpha-D glucosyltransferase); Region: AmyAc_Sucrose_phosphorylase-like_1; cd11356 316385004302 sucrose phosphorylase; Provisional; Region: PRK13840 316385004303 active site 316385004304 homodimer interface [polypeptide binding]; other site 316385004305 catalytic site [active] 316385004306 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 316385004307 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 316385004308 ABC-type Fe3+ transport system, permease component [Inorganic ion transport and metabolism]; Region: ThiP; COG1178 316385004309 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 316385004310 dimer interface [polypeptide binding]; other site 316385004311 conserved gate region; other site 316385004312 putative PBP binding loops; other site 316385004313 ABC-ATPase subunit interface; other site 316385004314 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 316385004315 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 316385004316 dimer interface [polypeptide binding]; other site 316385004317 conserved gate region; other site 316385004318 putative PBP binding loops; other site 316385004319 ABC-ATPase subunit interface; other site 316385004320 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 316385004321 2-desacetyl-2-hydroxyethyl bacteriochlorophyllide and other MDR family members; Region: 2-desacetyl-2-hydroxyethyl_bacteriochlorophyllide_; cd08255 316385004322 putative NAD(P) binding site [chemical binding]; other site 316385004323 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 316385004324 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 316385004325 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 316385004326 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 316385004327 Trehalose and maltose hydrolases (possible phosphorylases) [Carbohydrate transport and metabolism]; Region: ATH1; COG1554 316385004328 Glycosyl hydrolase family 65, N-terminal domain; Region: Glyco_hydro_65N; pfam03636 316385004329 Glycosyl hydrolase family 65 central catalytic domain; Region: Glyco_hydro_65m; pfam03632 316385004330 Glycosyl hydrolase family 65, C-terminal domain; Region: Glyco_hydro_65C; pfam03633 316385004331 beta-phosphoglucomutase; Region: bPGM; TIGR01990 316385004332 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 316385004333 motif II; other site 316385004334 predicted sugar transporter subunit: ATP-binding component of ABC superfamily (pseudogene) 316385004335 Outer membrane protein G (OmpG); Region: Porin_OmpG; pfam09381 316385004336 Transcriptional regulators [Transcription]; Region: PurR; COG1609 316385004337 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 316385004338 DNA binding site [nucleotide binding] 316385004339 domain linker motif; other site 316385004340 Ligand-binding domain of uncharacterized transcription regulator ycjW which is a member of the LacI-GalR family repressors; Region: PBP1_ycjW_transcription_regulator_like; cd06294 316385004341 putative dimerization interface [polypeptide binding]; other site 316385004342 putative ligand binding site [chemical binding]; other site 316385004343 Predicted ATPase [General function prediction only]; Region: COG3106 316385004344 hypothetical protein; Provisional; Region: PRK05415 316385004345 TIGR01620 family protein; Region: hyp_HI0043 316385004346 DNA-binding transcriptional regulator TyrR; Provisional; Region: PRK10820 316385004347 N-terminal ACT domain of the TyrR protein; Region: ACT_TyrR; cd04877 316385004348 putative aromatic amino acid binding site; other site 316385004349 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 316385004350 Walker A motif; other site 316385004351 ATP binding site [chemical binding]; other site 316385004352 Walker B motif; other site 316385004353 arginine finger; other site 316385004354 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 316385004355 dimer interface [polypeptide binding]; other site 316385004356 catalytic triad [active] 316385004357 peroxidatic and resolving cysteines [active] 316385004358 L-Ala-D/L-Glu epimerase; Provisional; Region: PRK15129 316385004359 L-Ala-D/L-Glu epimerase catalyzes the epimerization of L-Ala-D/L-Glu and other dipeptides. The genomic context and the substrate specificity of characterized members of this family from E.coli and B.subtilis indicates a possible role in the metabolism of...; Region: L-Ala-DL-Glu_epimerase; cd03319 316385004360 active site 316385004361 Predicted carboxypeptidase [Amino acid transport and metabolism]; Region: COG2866 316385004362 Peptidase M14-like domain of Escherichia coli Murein Peptide Amidase A and related proteins; Region: M14_MpaA_like; cd06904 316385004363 putative active site [active] 316385004364 Zn binding site [ion binding]; other site 316385004365 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 316385004366 Hydrolases of the alpha/beta superfamily [General function prediction only]; Region: COG1073 316385004367 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 316385004368 Transcriptional regulator [Transcription]; Region: LysR; COG0583 316385004369 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 316385004370 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 316385004371 putative effector binding pocket; other site 316385004372 putative dimerization interface [polypeptide binding]; other site 316385004373 oligopeptide ABC transporter substrate-binding protein OppA; Provisional; Region: PRK15104 316385004374 The substrate-binding component of an ABC-type oligopetide import system contains the type 2 periplasmic binding fold; Region: PBP2_OppA; cd08504 316385004375 peptide binding site [polypeptide binding]; other site 316385004376 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 316385004377 Mechanosensitive ion channel; Region: MS_channel; pfam00924 316385004378 Transposase domain (DUF772); Region: DUF772; pfam05598 316385004379 Transposase and inactivated derivatives, IS5 family [DNA replication, recombination, and repair]; Region: COG3039 316385004380 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 316385004381 Protein of unknown function (DUF2534); Region: DUF2534; pfam10749 316385004382 universal stress protein UspE; Provisional; Region: PRK11175 316385004383 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 316385004384 Ligand Binding Site [chemical binding]; other site 316385004385 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 316385004386 Ligand Binding Site [chemical binding]; other site 316385004387 fumarate/nitrate reduction transcriptional regulator; Provisional; Region: PRK11161 316385004388 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 316385004389 ligand binding site [chemical binding]; other site 316385004390 flexible hinge region; other site 316385004391 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 316385004392 putative switch regulator; other site 316385004393 non-specific DNA interactions [nucleotide binding]; other site 316385004394 DNA binding site [nucleotide binding] 316385004395 sequence specific DNA binding site [nucleotide binding]; other site 316385004396 putative cAMP binding site [chemical binding]; other site 316385004397 O-6-alkylguanine-DNA:cysteine-protein methyltransferase; Provisional; Region: PRK10286 316385004398 6-O-methylguanine DNA methyltransferase, ribonuclease-like domain; Region: Methyltransf_1N; pfam02870 316385004399 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 316385004400 DNA binding site [nucleotide binding] 316385004401 active site 316385004402 putative aminobenzoyl-glutamate transporter; Provisional; Region: abgT; PRK11339 316385004403 p-Aminobenzoyl-glutamate transporter family; Region: ydaH; TIGR00819 316385004404 M20 Peptidase Aminoacylase 1-like protein 2 aminobenzoyl-glutamate utilization protein B subfamily; Region: M20_Acy1L2_AbgB; cd05673 316385004405 amidohydrolase; Region: amidohydrolases; TIGR01891 316385004406 putative metal binding site [ion binding]; other site 316385004407 M20 Peptidases Aminoacyclase-1 indole-3-acetic-L-aspartic acid hydrolase from bacteria and archaea; Region: M20_Acy1_IAAspH_bact; cd05665 316385004408 amidohydrolase; Region: amidohydrolases; TIGR01891 316385004409 putative metal binding site [ion binding]; other site 316385004410 dimer interface [polypeptide binding]; other site 316385004411 putative DNA-binding transcriptional regulator; Provisional; Region: PRK09791 316385004412 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 316385004413 The C-terminal substrate binding domain of LysR-type transcriptional regulator TdcA, which is involved in the degradation of L-serine and L-threonine, contains the type 2 periplasmic binding fold; Region: PBP2_TdcA; cd08418 316385004414 putative substrate binding pocket [chemical binding]; other site 316385004415 putative dimerization interface [polypeptide binding]; other site 316385004416 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2840 316385004417 Smr domain; Region: Smr; pfam01713 316385004418 PAS domain S-box; Region: sensory_box; TIGR00229 316385004419 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 316385004420 putative active site [active] 316385004421 heme pocket [chemical binding]; other site 316385004422 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 316385004423 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 316385004424 metal binding site [ion binding]; metal-binding site 316385004425 active site 316385004426 I-site; other site 316385004427 Mg2+ and Co2+ transporters [Inorganic ion transport and metabolism]; Region: CorA; COG0598 316385004428 Salmonella typhimurium Zn2+ transporter ZntB-like subgroup; Region: ZntB-like_1; cd12833 316385004429 Cl binding site [ion binding]; other site 316385004430 oligomer interface [polypeptide binding]; other site 316385004431 ATP-dependent RNA helicase DbpA; Provisional; Region: PRK11776 316385004432 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 316385004433 ATP binding site [chemical binding]; other site 316385004434 Mg++ binding site [ion binding]; other site 316385004435 motif III; other site 316385004436 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 316385004437 nucleotide binding region [chemical binding]; other site 316385004438 ATP-binding site [chemical binding]; other site 316385004439 RNA recognition motif in Escherichia coli RNA helicase dbpA and similar proteins; Region: RRM_EcDbpA_like; cd12501 316385004440 putative RNA binding site [nucleotide binding]; other site 316385004441 tRNA 2-thiocytidine biosynthesis protein TtcA; Provisional; Region: PRK10696 316385004442 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 316385004443 Ligand Binding Site [chemical binding]; other site 316385004444 Domain of unknown function (DUF3596); Region: DUF3596; pfam12167 316385004445 Integrase [DNA replication, recombination, and repair]; Region: XerC; COG0582 316385004446 phiCTX phage and phage-related integrases, site-specific recombinases, DNA breaking-rejoining enzymes, C-terminal catalytic domain. This CD includes various phage and bacterial integrases, including those similar to phage integrases: Bordetella and...; Region: INT_phiCTX_C; cd01191 316385004447 Int/Topo IB signature motif; other site 316385004448 Putative excisionase (DUF1233); Region: DUF1233; pfam06806 316385004449 hypothetical protein; Provisional; Region: PRK09750 316385004450 restriction alleviation and modification protein; Reviewed; Region: lar; PRK09710 316385004451 recombination and repair protein RecT; Reviewed; Region: recT; PRK09846 316385004452 exonuclease VIII; Reviewed; Region: PRK09709 316385004453 Enterobacterial exodeoxyribonuclease VIII; Region: Exonuc_VIII; pfam06630 316385004454 PDDEXK-like domain of unknown function (DUF3799); Region: DUF3799; pfam12684 316385004455 hypothetical protein; Reviewed; Region: PRK09790 316385004456 FtsZ inhibitor protein; Reviewed; Region: kil; PRK11354 316385004457 Superinfection exclusion protein B; Region: SieB; pfam14163 316385004458 Protein of unknown function (DUF1391); Region: DUF1391; pfam07151 316385004459 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 316385004460 sequence-specific DNA binding site [nucleotide binding]; other site 316385004461 salt bridge; other site 316385004462 Protein of unknown function (DUF1019); Region: DUF1019; pfam06254 316385004463 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3756 316385004464 primosomal protein DnaI; Provisional; Region: PRK02854 316385004465 putative replication protein; Provisional; Region: PRK12377 316385004466 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 316385004467 Walker A motif; other site 316385004468 ATP binding site [chemical binding]; other site 316385004469 Protein of unknown function (DUF1627); Region: DUF1627; pfam07789 316385004470 Bacteriophage lysis protein; Region: Phage_lysis; pfam03245 316385004471 Lipoprotein Rz1 precursor; Region: Rz1; pfam06085 316385004472 Cation transport protein; Region: TrkH; cl17365 316385004473 potassium uptake protein, TrkH family; Region: 2a38; TIGR00933 316385004474 Stage 0 sporulation protein J (antagonist of Soj) containing ParB-like nuclease domain [Transcription]; Region: Spo0J; COG1475 316385004475 ParB-like nuclease domain; Region: ParBc; pfam02195 316385004476 Phage-related minor tail protein [Function unknown]; Region: COG5281 316385004477 Prophage tail length tape measure protein; Region: TMP_2; pfam06791 316385004478 Rac prophage; predicted protein (pseudogene); interrupted by IS5 and N-ter deletion 316385004479 Transposase domain (DUF772); Region: DUF772; pfam05598 316385004480 Transposase and inactivated derivatives, IS5 family [DNA replication, recombination, and repair]; Region: COG3039 316385004481 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 316385004482 Prophage tail fibre N-terminal; Region: phage_tail_N; pfam08400 316385004483 Phage tail fibre repeat; Region: Phage_fiber_2; pfam03406 316385004484 Phage Tail Collar Domain; Region: Collar; pfam07484 316385004485 Caudovirales tail fibre assembly protein; Region: Caudo_TAP; pfam02413 316385004486 multiple promoter invertase; Provisional; Region: mpi; PRK13413 316385004487 Serine Recombinase (SR) family, Resolvase and Invertase subfamily, catalytic domain; members contain a C-terminal DNA binding domain. Serine recombinases catalyze site-specific recombination of DNA molecules by a concerted, four-strand cleavage and...; Region: SR_ResInv; cd03768 316385004488 catalytic residues [active] 316385004489 catalytic nucleophile [active] 316385004490 Presynaptic Site I dimer interface [polypeptide binding]; other site 316385004491 Synaptic Antiparallel dimer interface [polypeptide binding]; other site 316385004492 Synaptic Flat tetramer interface [polypeptide binding]; other site 316385004493 Synaptic Site I dimer interface [polypeptide binding]; other site 316385004494 DNA binding site [nucleotide binding] 316385004495 Helix-turn-helix domain of Hin and related proteins, a family of DNA-binding domains unique to bacteria and represented by the Hin protein of Salmonella. The basic HTH domain is a simple fold comprised of three core helices that form a right-handed...; Region: HTH_Hin_like; cd00569 316385004496 DNA-binding interface [nucleotide binding]; DNA binding site 316385004497 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 316385004498 Ligand Binding Site [chemical binding]; other site 316385004499 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 316385004500 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 316385004501 trimer interface [polypeptide binding]; other site 316385004502 eyelet of channel; other site 316385004503 pyruvate:ferredoxin (flavodoxin) oxidoreductase, homodimeric; Region: pyruv_ox_red; TIGR02176 316385004504 Pyrimidine (PYR) binding domain of pyruvate ferredoxin oxidoreductase (PFOR), indolepyruvate ferredoxin oxidoreductase alpha subunit (IOR-alpha), and related proteins; Region: TPP_PYR_PFOR_IOR-alpha_like; cd07034 316385004505 dimer interface [polypeptide binding]; other site 316385004506 PYR/PP interface [polypeptide binding]; other site 316385004507 TPP binding site [chemical binding]; other site 316385004508 substrate binding site [chemical binding]; other site 316385004509 Pyruvate:ferredoxin oxidoreductase and related 2-oxoacid:ferredoxin oxidoreductases, gamma subunit [Energy production and conversion]; Region: PorG; COG1014 316385004510 Domain of unknown function; Region: EKR; smart00890 316385004511 4Fe-4S binding domain; Region: Fer4_6; pfam12837 316385004512 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 316385004513 Thiamine pyrophosphate (TPP family), PFOR_PNO subfamily, TPP-binding module; composed of proteins similar to the single subunit pyruvate ferredoxin oxidoreductase (PFOR) of Desulfovibrio Africanus, present in bacteria and amitochondriate eukaryotes. This...; Region: TPP_PFOR_PNO; cd03377 316385004514 TPP-binding site [chemical binding]; other site 316385004515 dimer interface [polypeptide binding]; other site 316385004516 Putative hemolysin [General function prediction only]; Region: Hlx; COG3042 316385004517 Domain of unknown function (DUF333); Region: DUF333; pfam03891 316385004518 heat-inducible protein; Provisional; Region: PRK10449 316385004519 D-Lactate and related Dehydrogenases, NAD-binding and catalytic domains; Region: LDH_like_2; cd12183 316385004520 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 316385004521 putative ligand binding site [chemical binding]; other site 316385004522 putative NAD binding site [chemical binding]; other site 316385004523 catalytic site [active] 316385004524 hypothetical protein; Provisional; Region: PRK10695 316385004525 YnbE-like lipoprotein; Region: Lipoprotein_19; pfam13617 316385004526 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3784 316385004527 DNA-binding transcriptional activator FeaR; Provisional; Region: PRK09685 316385004528 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 316385004529 Escherichia coli NAD+-dependent phenylacetaldehyde dehydrogenase PadA-like; Region: ALDH_PADH_NahF; cd07113 316385004530 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 316385004531 NAD(P) binding site [chemical binding]; other site 316385004532 catalytic residues [active] 316385004533 tyramine oxidase; Provisional; Region: tynA; PRK14696 316385004534 Copper amine oxidase N-terminal domain; Region: Cu_amine_oxidN1; pfam07833 316385004535 Copper amine oxidase, N2 domain; Region: Cu_amine_oxidN2; pfam02727 316385004536 Copper amine oxidase, N3 domain; Region: Cu_amine_oxidN3; pfam02728 316385004537 Copper amine oxidase, enzyme domain; Region: Cu_amine_oxid; pfam01179 316385004538 bifunctional aldehyde dehydrogenase/enoyl-CoA hydratase; Provisional; Region: PRK11563 316385004539 N-terminal domain of the monoamine oxidase C dehydratase; Region: ALDH_MaoC-N; cd07128 316385004540 substrate binding site [chemical binding]; other site 316385004541 dimer interface [polypeptide binding]; other site 316385004542 NADP binding site [chemical binding]; other site 316385004543 catalytic residues [active] 316385004544 MaoC_C The C-terminal hot dog fold of the MaoC (monoamine oxidase C) dehydratase regulatory protein. Orthologs of MaoC include PaaZ [Escherichia coli] and PaaN [Pseudomonas putida], which are putative ring-opening enzymes involved in phenylacetic acid...; Region: MaoC_C; cd03452 316385004545 substrate binding site [chemical binding]; other site 316385004546 phenylacetate-CoA oxygenase subunit PaaA; Provisional; Region: paaA; PRK13778 316385004547 phenylacetate-CoA oxygenase, PaaG subunit; Region: PA_CoA_Oxy1; TIGR02156 316385004548 phenylacetate-CoA oxygenase subunit PaaB; Provisional; Region: paaB; PRK13781 316385004549 phenylacetate-CoA oxygenase, PaaI subunit; Region: PA_CoA_Oxy3; TIGR02158 316385004550 Predicted metal-sulfur cluster biosynthetic enzyme [General function prediction only]; Region: PaaD; COG2151 316385004551 phenylacetate-CoA oxygenase, PaaJ subunit; Region: PA_CoA_Oxy4; TIGR02159 316385004552 phenylacetate-CoA oxygenase/reductase, PaaK subunit; Region: PA_CoA_Oxy5; TIGR02160 316385004553 NAD(P) binding domain of ferredoxin reductase like phenylacetic acid (PA) degradation oxidoreductase. PA oxidoreductases of E. coli hydroxylate PA-CoA in the second step of PA degradation. Members of this group typically fuse a ferredoxin reductase-like...; Region: PA_degradation_oxidoreductase_like; cd06214 316385004554 FAD binding pocket [chemical binding]; other site 316385004555 FAD binding motif [chemical binding]; other site 316385004556 phosphate binding motif [ion binding]; other site 316385004557 beta-alpha-beta structure motif; other site 316385004558 NAD(p) ribose binding residues [chemical binding]; other site 316385004559 NAD binding pocket [chemical binding]; other site 316385004560 NAD(P)-pyrophosphate-nicotinamide binding residues [chemical binding]; other site 316385004561 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 316385004562 catalytic loop [active] 316385004563 iron binding site [ion binding]; other site 316385004564 enoyl-CoA hydratase-isomerase; Provisional; Region: PRK09674 316385004565 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 316385004566 substrate binding site [chemical binding]; other site 316385004567 oxyanion hole (OAH) forming residues; other site 316385004568 trimer interface [polypeptide binding]; other site 316385004569 enoyl-CoA hydratase; Provisional; Region: PRK08140 316385004570 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 316385004571 substrate binding site [chemical binding]; other site 316385004572 oxyanion hole (OAH) forming residues; other site 316385004573 trimer interface [polypeptide binding]; other site 316385004574 3-hydroxyacyl-CoA dehydrogenase PaaC; Region: PaaC-3OHAcCoADH; TIGR02279 316385004575 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 316385004576 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 316385004577 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 316385004578 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 316385004579 CoenzymeA binding site [chemical binding]; other site 316385004580 subunit interaction site [polypeptide binding]; other site 316385004581 PHB binding site; other site 316385004582 beta-ketoadipyl CoA thiolase; Validated; Region: PRK09050 316385004583 Thiolase are ubiquitous enzymes that catalyze the reversible thiolytic cleavage of 3-ketoacyl-CoA into acyl-CoA and acetyl-CoA, a 2-step reaction involving a covalent intermediate formed with a catalytic cysteine. They are found in prokaryotes and...; Region: thiolase; cd00751 316385004584 dimer interface [polypeptide binding]; other site 316385004585 active site 316385004586 Phenylacetate-CoA ligase (also known as PaaK); Region: PaaK; cd05913 316385004587 phenylacetate-CoA ligase; Region: PA_CoA_ligase; TIGR02155 316385004588 active site 316385004589 AMP binding site [chemical binding]; other site 316385004590 homodimer interface [polypeptide binding]; other site 316385004591 acyl-activating enzyme (AAE) consensus motif; other site 316385004592 CoA binding site [chemical binding]; other site 316385004593 PaaX-like protein; Region: PaaX; pfam07848 316385004594 phenylacetic acid degradation operon negative regulatory protein PaaX; Region: PaaX_trns_reg; TIGR02277 316385004595 PaaX-like protein C-terminal domain; Region: PaaX_C; pfam08223 316385004596 phenylacetic acid degradation protein PaaY; Region: PaaY; TIGR02287 316385004597 paaY-like: This group is composed by uncharacterized proteins with similarity to the protein product of the E. coli paaY gene, which is part of the paa gene cluster responsible for phenylacetic acid degradation. Proteins in this group are expected to...; Region: LbH_paaY_like; cd04745 316385004598 putative trimer interface [polypeptide binding]; other site 316385004599 putative metal binding site [ion binding]; other site 316385004600 predicted outer membrane protein (pseudogene); interrupted by IS2 and IS30 316385004601 IS2 transposase TnpB; Reviewed; Region: PRK09409 316385004602 HTH-like domain; Region: HTH_21; pfam13276 316385004603 Integrase core domain; Region: rve; pfam00665 316385004604 Integrase core domain; Region: rve_3; pfam13683 316385004605 IS2 repressor TnpA; Reviewed; Region: PRK09413 316385004606 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 316385004607 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 316385004608 Helix-turn-helix domain; Region: HTH_38; pfam13936 316385004609 Integrase core domain; Region: rve; pfam00665 316385004610 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 316385004611 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 316385004612 active site 316385004613 catalytic tetrad [active] 316385004614 Polymer-forming cytoskeletal; Region: Bactofilin; pfam04519 316385004615 Protein of unknown function (DUF2773); Region: DUF2773; pfam10971 316385004616 Phosphatidylglycerophosphate synthase [Lipid metabolism]; Region: PgsA; COG0558 316385004617 Predicted CDP-diglyceride synthetase/phosphatidate cytidylyltransferase [General function prediction only]; Region: COG4589 316385004618 CDP-diglyceride synthetase [Lipid metabolism]; Region: CdsA; COG0575 316385004619 Lysophospholipase [Lipid metabolism]; Region: PldB; COG2267 316385004620 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 316385004621 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 316385004622 S-adenosylmethionine binding site [chemical binding]; other site 316385004623 PAP2_like proteins, Aur1_like subfamily. Yeast Aur1p or Ipc1p is necessary for the addition of inositol phosphate to ceramide, an essential step in yeast sphingolipid synthesis, and is the target of several antifungal compounds such as aureobasidin; Region: PAP2_Aur1_like; cd03386 316385004624 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 316385004625 active site 316385004626 Dual specificity phosphatases (DSP); Ser/Thr and Tyr protein phosphatases. Structurally similar to tyrosine-specific phosphatases but with a shallower active site cleft and a distinctive active site signature motif, HCxxGxxR. Characterized as VHR- or...; Region: DSPc; cd00127 316385004627 active site 316385004628 catalytic residues [active] 316385004629 azoreductase; Reviewed; Region: PRK00170 316385004630 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 316385004631 ATP-dependent RNA helicase HrpA; Provisional; Region: PRK11131 316385004632 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 316385004633 ATP binding site [chemical binding]; other site 316385004634 putative Mg++ binding site [ion binding]; other site 316385004635 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 316385004636 nucleotide binding region [chemical binding]; other site 316385004637 ATP-binding site [chemical binding]; other site 316385004638 Helicase associated domain (HA2); Region: HA2; pfam04408 316385004639 Oligonucleotide/oligosaccharide-binding (OB)-fold; Region: OB_NTP_bind; pfam07717 316385004640 Domain of unknown function (DUF3418); Region: DUF3418; pfam11898 316385004641 Uncharacterized conserved protein [Function unknown]; Region: COG1434 316385004642 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 316385004643 putative active site [active] 316385004644 Escherichia coli lactaldehyde dehydrogenase AldA-like; Region: ALDH_LactADH-AldA; cd07088 316385004645 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 316385004646 NAD binding site [chemical binding]; other site 316385004647 catalytic residues [active] 316385004648 substrate binding site [chemical binding]; other site 316385004649 glyceraldehyde-3-phosphate dehydrogenase C (pseudogene); interrupted by frameshift and in-frame stop 316385004650 cytochrome b561; Provisional; Region: PRK11513 316385004651 hypothetical protein; Provisional; Region: PRK10040 316385004652 small toxic polypeptide; Provisional; Region: PRK09738 316385004653 methyl-accepting chemotaxis protein II; Provisional; Region: PRK15048 316385004654 ligand binding domain of Tar- and Tsr-related chemoreceptors; Region: Tar_Tsr_LBD; cd00181 316385004655 dimer interface [polypeptide binding]; other site 316385004656 ligand binding site [chemical binding]; other site 316385004657 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 316385004658 dimerization interface [polypeptide binding]; other site 316385004659 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 316385004660 dimer interface [polypeptide binding]; other site 316385004661 putative CheW interface [polypeptide binding]; other site 316385004662 pca operon transcription factor PcaQ; Region: TF_pcaQ; TIGR02424 316385004663 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 316385004664 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 316385004665 dimerization interface [polypeptide binding]; other site 316385004666 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5383 316385004667 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5383 316385004668 Periplasmic glucans biosynthesis protein [Inorganic ion transport and metabolism]; Region: MdoG; COG3131 316385004669 glucan biosynthesis protein D; Provisional; Region: mdoD; PRK13273 316385004670 hypothetical protein; Provisional; Region: PRK11415 316385004671 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 316385004672 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 316385004673 Coenzyme A binding pocket [chemical binding]; other site 316385004674 Left-handed parallel beta-Helix (LbetaH or LbH) domain: The alignment contains 5 turns, each containing three imperfect tandem repeats of a hexapeptide repeat motif (X-[STAV]-X-[LIV]-[GAED]-X). Proteins containing hexapeptide repeats are often enzymes...; Region: LbetaH; cd00208 316385004675 putative trimer interface [polypeptide binding]; other site 316385004676 Left-handed parallel beta-Helix (LbetaH or LbH) domain: The alignment contains 5 turns, each containing three imperfect tandem repeats of a hexapeptide repeat motif (X-[STAV]-X-[LIV]-[GAED]-X). Proteins containing hexapeptide repeats are often enzymes...; Region: LbetaH; cl00160 316385004677 putative CoA binding site [chemical binding]; other site 316385004678 putative trimer interface [polypeptide binding]; other site 316385004679 putative CoA binding site [chemical binding]; other site 316385004680 Tellurite resistance protein and related permeases [Inorganic ion transport and metabolism]; Region: TehA; COG1275 316385004681 Tellurite-resistance/Dicarboxylate Transporter (TDT) family includes TehA protein; Region: TDT_TehA; cd09324 316385004682 gating phenylalanine in ion channel; other site 316385004683 tellurite resistance protein TehB; Provisional; Region: PRK11207 316385004684 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 316385004685 S-adenosylmethionine binding site [chemical binding]; other site 316385004686 Protein of unknown function (DUF3313); Region: DUF3313; pfam11769 316385004687 predicted transposase (pseudogene); interrupted by in-frame stop 316385004688 Helix-turn-helix domain; Region: HTH_OrfB_IS605; pfam12323 316385004689 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG0675 316385004690 Probable transposase; Region: OrfB_IS605; pfam01385 316385004691 transposase, IS605 OrfB family, central region; Region: tspaseT_teng_C; TIGR01766 316385004692 Uncharacterized protein involved in benzoate metabolism [Secondary metabolites biosynthesis, transport, and catabolism]; Region: BenE; COG3135 316385004693 benzoate transporter; Region: benE; TIGR00843 316385004694 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 316385004695 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 316385004696 non-specific DNA binding site [nucleotide binding]; other site 316385004697 salt bridge; other site 316385004698 sequence-specific DNA binding site [nucleotide binding]; other site 316385004699 Cupin domain; Region: Cupin_2; pfam07883 316385004700 Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]; Region: COG0826 316385004701 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 316385004702 Peptidase family U32; Region: Peptidase_U32; pfam01136 316385004703 Collagenase; Region: DUF3656; pfam12392 316385004704 Protein of unknown function (DUF2554); Region: DUF2554; pfam10829 316385004705 YcfA-like protein; Region: YcfA; pfam07927 316385004706 Predicted nuclease of the RNAse H fold, HicB family [General function prediction only]; Region: COG1598 316385004707 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 316385004708 sequence-specific DNA binding site [nucleotide binding]; other site 316385004709 salt bridge; other site 316385004710 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 316385004711 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 316385004712 DNA-binding site [nucleotide binding]; DNA binding site 316385004713 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 316385004714 pyridoxal 5'-phosphate binding site [chemical binding]; other site 316385004715 homodimer interface [polypeptide binding]; other site 316385004716 catalytic residue [active] 316385004717 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 316385004718 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 316385004719 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 316385004720 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 316385004721 Walker A/P-loop; other site 316385004722 ATP binding site [chemical binding]; other site 316385004723 Q-loop/lid; other site 316385004724 ABC transporter signature motif; other site 316385004725 Walker B; other site 316385004726 D-loop; other site 316385004727 H-loop/switch region; other site 316385004728 TOBE domain; Region: TOBE_2; pfam08402 316385004729 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 316385004730 dimer interface [polypeptide binding]; other site 316385004731 conserved gate region; other site 316385004732 putative PBP binding loops; other site 316385004733 ABC-ATPase subunit interface; other site 316385004734 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 316385004735 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 316385004736 ABC-ATPase subunit interface; other site 316385004737 gamma-aminobutyraldehyde dehydrogenase; Provisional; Region: PRK13473 316385004738 Escherichia coli NAD+-dependent gamma-aminobutyraldehyde dehydrogenase YdcW-like; Region: ALDH_ABALDH-YdcW; cd07092 316385004739 tetrameric interface [polypeptide binding]; other site 316385004740 NAD binding site [chemical binding]; other site 316385004741 catalytic residues [active] 316385004742 substrate binding site [chemical binding]; other site 316385004743 Protein of unknown function (DUF2566); Region: DUF2566; pfam10753 316385004744 Protein of unknown function (DUF2526); Region: DUF2526; pfam10735 316385004745 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3238 316385004746 Sortase and related acyltransferases [Cell envelope biogenesis, outer membrane]; Region: COG1247 316385004747 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 316385004748 Putative NADP-dependent oxidoreductases [General function prediction only]; Region: COG2130 316385004749 Prostaglandin dehydrogenases; Region: PGDH; cd05288 316385004750 NAD(P) binding site [chemical binding]; other site 316385004751 substrate binding site [chemical binding]; other site 316385004752 dimer interface [polypeptide binding]; other site 316385004753 colanic acid/biofilm transcriptional regulator; Provisional; Region: PRK11414 316385004754 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 316385004755 DNA-binding site [nucleotide binding]; DNA binding site 316385004756 FCD domain; Region: FCD; pfam07729 316385004757 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 316385004758 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 316385004759 N-terminal plug; other site 316385004760 ligand-binding site [chemical binding]; other site 316385004761 PQQ-like domain; Region: PQQ_2; pfam13360 316385004762 L-asparagine permease; Provisional; Region: PRK15049 316385004763 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 316385004764 C-terminal domain interface [polypeptide binding]; other site 316385004765 GSH binding site (G-site) [chemical binding]; other site 316385004766 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 316385004767 dimer interface [polypeptide binding]; other site 316385004768 C-terminal, alpha helical domain of Class Beta Glutathione S-transferases; Region: GST_C_Beta; cd03188 316385004769 dimer interface [polypeptide binding]; other site 316385004770 N-terminal domain interface [polypeptide binding]; other site 316385004771 substrate binding pocket (H-site) [chemical binding]; other site 316385004772 rhsE element core protein RshE 316385004773 predicted protein (pseudogene) 316385004774 DDE_Tnp_1-associated; Region: DDE_Tnp_1_assoc; pfam13808 316385004775 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 316385004776 Transposase [DNA replication, recombination, and repair]; Region: COG5433 316385004777 Transposase [DNA replication, recombination, and repair]; Region: COG5433 316385004778 4-oxalocrotonate tautomerase; Provisional; Region: PRK01271 316385004779 active site 1 [active] 316385004780 dimer interface [polypeptide binding]; other site 316385004781 hexamer interface [polypeptide binding]; other site 316385004782 active site 2 [active] 316385004783 Conserved protein/domain typically associated with flavoprotein oxygenases, DIM6/NTAB family [General function prediction only]; Region: COG1853 316385004784 N-hydroxyarylamine O-acetyltransferase; Provisional; Region: PRK15047 316385004785 hypothetical protein; Provisional; Region: PRK10281 316385004786 respiratory nitrate reductase, gamma subunit; Region: narI; TIGR00351 316385004787 nitrate reductase 2 subunit delta; Provisional; Region: PRK15054 316385004788 Nitrate reductase beta subunit [Energy production and conversion]; Region: NarY; COG1140 316385004789 Nitrate reductase alpha subunit [Energy production and conversion]; Region: NarG; COG5013 316385004790 Respiratory nitrate reductase A (NarGHI), alpha chain (NarG) and related proteins. Under anaerobic conditions in the presence of nitrate, E. coli synthesizes the cytoplasmic membrane-bound quinol-nitrate oxidoreductase (NarGHI), which reduces nitrate to...; Region: MopB_Nitrate-R-NarG-like; cd02750 316385004791 [4Fe-4S] binding site [ion binding]; other site 316385004792 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 316385004793 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 316385004794 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 316385004795 Respiratory nitrate reductase A (NarGHI), alpha chain (NarG) and related proteins. Under anaerobic conditions in the presence of nitrate, E. coli synthesizes the cytoplasmic membrane-bound quinol-nitrate oxidoreductase (NarGHI), which reduces nitrate to...; Region: MopB_CT_Nitrate-R-NarG-like; cd02776 316385004796 molybdopterin cofactor binding site; other site 316385004797 nitrate/nitrite transport protein NarU; Provisional; Region: PRK15034 316385004798 Leucine-rich repeat (LRR) protein [Function unknown]; Region: COG4886 316385004799 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 316385004800 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 316385004801 aromatic amino acid exporter; Provisional; Region: PRK11689 316385004802 formate dehydrogenase, alpha subunit, proteobacterial-type; Region: formate-DH-alph; TIGR01553 316385004803 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 316385004804 [4Fe-4S] binding site [ion binding]; other site 316385004805 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 316385004806 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 316385004807 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 316385004808 molybdopterin cofactor binding site; other site 316385004809 formate dehydrogenase, beta subunit, Fe-S containing; Region: FDH-beta; TIGR01582 316385004810 Formate dehydrogenase N, transmembrane; Region: Form-deh_trans; pfam09163 316385004811 formate dehydrogenase-N subunit gamma; Provisional; Region: PRK10179 316385004812 formate dehydrogenase, gamma subunit; Region: formate-DH-gamm; TIGR01583 316385004813 Plasmid maintenance system antidote protein [General function prediction only]; Region: VapI; COG3093 316385004814 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 316385004815 non-specific DNA binding site [nucleotide binding]; other site 316385004816 salt bridge; other site 316385004817 sequence-specific DNA binding site [nucleotide binding]; other site 316385004818 ethanol-active dehydrogenase/acetaldehyde-active reductase; Provisional; Region: PRK09422 316385004819 Cinnamyl alcohol dehydrogenases (CAD); Region: CAD3; cd08297 316385004820 NAD binding site [chemical binding]; other site 316385004821 substrate binding site [chemical binding]; other site 316385004822 catalytic Zn binding site [ion binding]; other site 316385004823 tetramer interface [polypeptide binding]; other site 316385004824 structural Zn binding site [ion binding]; other site 316385004825 malate dehydrogenase; Provisional; Region: PRK13529 316385004826 Malic enzyme, N-terminal domain; Region: malic; pfam00390 316385004827 NAD(P) binding domain of malic enzyme (ME), subgroup 1; Region: NAD_bind_1_malic_enz; cd05312 316385004828 NAD(P) binding site [chemical binding]; other site 316385004829 30S ribosomal subunit S22; Reviewed; Region: rpsV; PRK10057 316385004830 Putative biofilm-dependent modulation protein; Region: BDM; cl11581 316385004831 peroxiredoxin, OsmC subfamily; Region: osmo_induc_OsmC; TIGR03562 316385004832 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppF; COG1124 316385004833 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 316385004834 Walker A/P-loop; other site 316385004835 ATP binding site [chemical binding]; other site 316385004836 Q-loop/lid; other site 316385004837 ABC transporter signature motif; other site 316385004838 Walker B; other site 316385004839 D-loop; other site 316385004840 H-loop/switch region; other site 316385004841 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; pfam08352 316385004842 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 316385004843 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 316385004844 Walker A/P-loop; other site 316385004845 ATP binding site [chemical binding]; other site 316385004846 Q-loop/lid; other site 316385004847 ABC transporter signature motif; other site 316385004848 Walker B; other site 316385004849 D-loop; other site 316385004850 H-loop/switch region; other site 316385004851 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; pfam08352 316385004852 D-ala-D-ala transporter subunit; Provisional; Region: PRK09881 316385004853 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 316385004854 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 316385004855 dimer interface [polypeptide binding]; other site 316385004856 conserved gate region; other site 316385004857 putative PBP binding loops; other site 316385004858 ABC-ATPase subunit interface; other site 316385004859 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 316385004860 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 316385004861 dimer interface [polypeptide binding]; other site 316385004862 conserved gate region; other site 316385004863 putative PBP binding loops; other site 316385004864 ABC-ATPase subunit interface; other site 316385004865 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 316385004866 The substrate-binding component of an uncharacterized ABC-type nickel/dipeptide/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like_7; cd08512 316385004867 D-alanyl-D-alanine dipeptidase; Provisional; Region: PRK10178 316385004868 cyclic-di-GMP phosphodiesterase; Provisional; Region: PRK11359 316385004869 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 316385004870 putative active site [active] 316385004871 heme pocket [chemical binding]; other site 316385004872 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 316385004873 putative active site [active] 316385004874 heme pocket [chemical binding]; other site 316385004875 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 316385004876 metal binding site [ion binding]; metal-binding site 316385004877 active site 316385004878 I-site; other site 316385004879 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 316385004880 Globin domain present in Globin-Coupled-Sensors (GCS). These domains detect changes in intracellular concentrations of oxygen, carbon monoxyde, or nitrous oxide, which result in aerotaxis and/or gene regulation. One subgroup, the HemATs, are aerotactic...; Region: sensor_globin; cd01068 316385004881 heme-binding site [chemical binding]; other site 316385004882 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 316385004883 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 316385004884 metal binding site [ion binding]; metal-binding site 316385004885 active site 316385004886 I-site; other site 316385004887 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1649 316385004888 Uncharacterized BCR, COG1649; Region: DUF187; pfam02638 316385004889 glutamate:gamma-aminobutyrate antiporter; Region: 2A0307_GadC; TIGR00910 316385004890 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 316385004891 pyridoxal 5'-phosphate binding site [chemical binding]; other site 316385004892 catalytic residue [active] 316385004893 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 316385004894 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 316385004895 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 316385004896 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 316385004897 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 316385004898 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 316385004899 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 316385004900 ABC-type uncharacterized transport system, permease and ATPase components [General function prediction only]; Region: COG4178 316385004901 ABC transporter transmembrane region 2; Region: ABC_membrane_2; cl00549 316385004902 ATP-binding cassette domain of peroxisomal transporter, subfamily D; Region: ABCD_peroxisomal_ALDP; cd03223 316385004903 anaerobic sulfatase-maturating enzyme; Region: sulfatase_rSAM; TIGR03942 316385004904 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 316385004905 FeS/SAM binding site; other site 316385004906 radical SAM additional 4Fe4S-binding SPASM domain; Region: rSAM_more_4Fe4S; TIGR04085 316385004907 Arylsulfatase A and related enzymes [Inorganic ion transport and metabolism]; Region: AslA; COG3119 316385004908 Sulfatase; Region: Sulfatase; pfam00884 316385004909 transcriptional regulator YdeO; Provisional; Region: PRK09940 316385004910 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 316385004911 putative oxidoreductase; Provisional; Region: PRK09939 316385004912 The MopB_ydeP CD includes a group of related uncharacterized bacterial molybdopterin-binding oxidoreductase-like domains with a putative molybdopterin cofactor binding site. These members belong to the molybdopterin_binding (MopB) superfamily of proteins; Region: MopB_ydeP; cd02767 316385004913 putative molybdopterin cofactor binding site [chemical binding]; other site 316385004914 The MopB_CT_ydeP CD includes a group of related uncharacterized bacterial molybdopterin-binding oxidoreductase-like domains with a putative molybdopterin cofactor binding site. This CD is of the conserved molybdopterin_binding C-terminal (MopB_CT) region...; Region: MopB_CT_ydeP; cd02787 316385004915 putative molybdopterin cofactor binding site; other site 316385004916 Mannose binding domain of FimH and related proteins; Region: FimH_man-bind; cd10466 316385004917 mannosyl binding site [chemical binding]; other site 316385004918 Fimbrial protein; Region: Fimbrial; pfam00419 316385004919 P pilus assembly protein, pilin FimA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimA; COG3539 316385004920 Helix-turn-helix domain; Region: HTH_18; pfam12833 316385004921 HipA N-terminal domain; Region: Couple_hipA; pfam13657 316385004922 Toxin module HipA, protein kinase of phosphatidylinositol 3/4-kinase superfamily [General function prediction only]; Region: HipA; COG3550 316385004923 HipA-like N-terminal domain; Region: HipA_N; pfam07805 316385004924 HipA-like C-terminal domain; Region: HipA_C; pfam07804 316385004925 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 316385004926 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 316385004927 non-specific DNA binding site [nucleotide binding]; other site 316385004928 salt bridge; other site 316385004929 sequence-specific DNA binding site [nucleotide binding]; other site 316385004930 outer membrane autotransporter barrel domain; Region: autotrans_barl; TIGR01414 316385004931 Pertactin-like passenger domains (virulence factors), C-terminal, subgroup 2, of autotransporter proteins of the type V secretion system of Gram-negative bacteria. This subgroup includes the passenger domains of the nonprotease autotransporters, Ag43; Region: PL2_Passenger_AT; cd01344 316385004932 Autotransporter beta-domain; Region: Autotransporter; pfam03797 316385004933 putative lipoprotein; Provisional; Region: PRK09707 316385004934 Extended Signal Peptide of Type V secretion system; Region: ESPR; pfam13018 316385004935 autoinducer-2 (AI-2) kinase; Provisional; Region: PRK10939 316385004936 Autoinducer-2 kinases; a subfamily of the FGGY family of carbohydrate kinases; Region: FGGY_AI-2K; cd07775 316385004937 putative N- and C-terminal domain interface [polypeptide binding]; other site 316385004938 putative active site [active] 316385004939 putative MgATP binding site [chemical binding]; other site 316385004940 catalytic site [active] 316385004941 metal binding site [ion binding]; metal-binding site 316385004942 putative carbohydrate binding site [chemical binding]; other site 316385004943 transcriptional regulator LsrR; Provisional; Region: PRK15418 316385004944 helix_turn_helix, cAMP Regulatory protein C-terminus; DNA binding domain of prokaryotic regulatory proteins belonging to the catabolite activator protein family; Region: HTH_CRP; cl17320 316385004945 Putative sugar-binding domain; Region: Sugar-bind; pfam04198 316385004946 autoinducer 2 ABC transporter ATP-binding protein LsrA; Provisional; Region: PRK15439 316385004947 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 316385004948 Walker A/P-loop; other site 316385004949 ATP binding site [chemical binding]; other site 316385004950 Q-loop/lid; other site 316385004951 ABC transporter signature motif; other site 316385004952 Walker B; other site 316385004953 D-loop; other site 316385004954 H-loop/switch region; other site 316385004955 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 316385004956 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 316385004957 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 316385004958 TM-ABC transporter signature motif; other site 316385004959 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 316385004960 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 316385004961 TM-ABC transporter signature motif; other site 316385004962 autoinducer 2-binding protein lsrB; Provisional; Region: PRK15408 316385004963 Periplasmic binding domain of autoinducer-2 (AI-2) receptor LsrB from Salmonella typhimurium and its close homologs; Region: PBP1_LsrB_Quorum_Sensing; cd06302 316385004964 ligand binding site [chemical binding]; other site 316385004965 DhnA-type fructose-1,6-bisphosphate aldolase and related enzymes [Carbohydrate transport and metabolism]; Region: FbaB; COG1830 316385004966 Class I fructose-1,6-bisphosphate (FBP) aldolases of the archaeal type (DhnA homologs); Region: DhnA; cd00958 316385004967 putative active site; other site 316385004968 catalytic residue [active] 316385004969 autoinducer-2 (AI-2) modifying protein LsrG; Provisional; Region: PRK10486 316385004970 Trans-aconitate methyltransferase [General function prediction only]; Region: Tam; COG4106 316385004971 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 316385004972 S-adenosylmethionine binding site [chemical binding]; other site 316385004973 Predicted membrane protein [Function unknown]; Region: COG3781 316385004974 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 316385004975 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 316385004976 metal binding site [ion binding]; metal-binding site 316385004977 active site 316385004978 I-site; other site 316385004979 Domain of unknown function (DUF4186); Region: DUF4186; pfam13811 316385004980 Glutaminase [Amino acid transport and metabolism]; Region: GlsA; COG2066 316385004981 glutaminase; Provisional; Region: PRK00971 316385004982 putative succinate semialdehyde dehydrogenase; Provisional; Region: PRK13968 316385004983 Mycobacterium tuberculosis succinate-semialdehyde dehydrogenase 1-like; Region: ALDH_SSADH1_GabD1; cd07100 316385004984 NAD(P) binding site [chemical binding]; other site 316385004985 catalytic residues [active] 316385004986 Transcriptional regulator [Transcription]; Region: LysR; COG0583 316385004987 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 316385004988 The C-terminal substrate binding domain of LysR-type transcriptional regulators, YofA and SoxR, contains the type 2 periplasmic binding fold; Region: PBP2_YofA_SoxR_like; cd08442 316385004989 putative dimerization interface [polypeptide binding]; other site 316385004990 putative arabinose transporter; Provisional; Region: PRK03545 316385004991 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 316385004992 putative substrate translocation pore; other site 316385004993 inner membrane protein; Provisional; Region: PRK10995 316385004994 DNA-binding transcriptional repressor MarR; Provisional; Region: PRK11512 316385004995 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 316385004996 DNA-binding transcriptional activator MarA; Provisional; Region: PRK11511 316385004997 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 316385004998 hypothetical protein; Provisional; Region: PRK10106 316385004999 O-acetylserine/cysteine export protein; Provisional; Region: PRK11453 316385005000 EamA-like transporter family; Region: EamA; pfam00892 316385005001 EamA-like transporter family; Region: EamA; pfam00892 316385005002 putative transporter; Provisional; Region: PRK10054 316385005003 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 316385005004 putative substrate translocation pore; other site 316385005005 diguanylate cyclase; Provisional; Region: PRK09894 316385005006 MCP-signal associated domain; Region: MCPsignal_assoc; pfam13682 316385005007 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 316385005008 metal binding site [ion binding]; metal-binding site 316385005009 active site 316385005010 I-site; other site 316385005011 hypothetical protein; Provisional; Region: PRK10053 316385005012 hypothetical protein; Validated; Region: PRK03657 316385005013 dipeptidyl carboxypeptidase II; Provisional; Region: PRK10280 316385005014 Peptidase family M3 dipeptidyl carboxypeptidase (DCP); Region: M3A_DCP; cd06456 316385005015 active site 316385005016 Zn binding site [ion binding]; other site 316385005017 malonic semialdehyde reductase; Provisional; Region: PRK10538 316385005018 classical (c) SDR, subgroup 5; Region: SDR_c5; cd05346 316385005019 putative NAD(P) binding site [chemical binding]; other site 316385005020 homodimer interface [polypeptide binding]; other site 316385005021 homotetramer interface [polypeptide binding]; other site 316385005022 active site 316385005023 Transcriptional regulators [Transcription]; Region: GntR; COG1802 316385005024 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 316385005025 DNA-binding site [nucleotide binding]; DNA binding site 316385005026 FCD domain; Region: FCD; pfam07729 316385005027 putative selenium-binding protein YdfZ; Region: YdfZ_fam; TIGR03318 316385005028 Mannitol-1-phosphate/altronate dehydrogenases [Carbohydrate transport and metabolism]; Region: MtlD; COG0246 316385005029 Mannitol dehydrogenase Rossmann domain; Region: Mannitol_dh; pfam01232 316385005030 Mannitol dehydrogenase C-terminal domain; Region: Mannitol_dh_C; pfam08125 316385005031 metabolite-proton symporter; Region: 2A0106; TIGR00883 316385005032 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 316385005033 putative substrate translocation pore; other site 316385005034 multiple promoter invertase; Provisional; Region: mpi; PRK13413 316385005035 Serine Recombinase (SR) family, Resolvase and Invertase subfamily, catalytic domain; members contain a C-terminal DNA binding domain. Serine recombinases catalyze site-specific recombination of DNA molecules by a concerted, four-strand cleavage and...; Region: SR_ResInv; cd03768 316385005036 catalytic residues [active] 316385005037 catalytic nucleophile [active] 316385005038 Presynaptic Site I dimer interface [polypeptide binding]; other site 316385005039 Synaptic Antiparallel dimer interface [polypeptide binding]; other site 316385005040 Synaptic Flat tetramer interface [polypeptide binding]; other site 316385005041 Synaptic Site I dimer interface [polypeptide binding]; other site 316385005042 DNA binding site [nucleotide binding] 316385005043 Helix-turn-helix domain of Hin and related proteins, a family of DNA-binding domains unique to bacteria and represented by the Hin protein of Salmonella. The basic HTH domain is a simple fold comprised of three core helices that form a right-handed...; Region: HTH_Hin_like; cd00569 316385005044 DNA-binding interface [nucleotide binding]; DNA binding site 316385005045 Caudovirales tail fibre assembly protein; Region: Caudo_TAP; pfam02413 316385005046 Phage Tail Collar Domain; Region: Collar; pfam07484 316385005047 Phage DNA packaging protein Nu1; Region: Phage_Nu1; pfam07471 316385005048 Domain of unknown function (DUF3950); Region: DUF3950; pfam13132 316385005049 Protein of unknown function (DUF1398); Region: DUF1398; pfam07166 316385005050 GnsA/GnsB family; Region: GnsAB; pfam08178 316385005051 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 316385005052 DNA-binding site [nucleotide binding]; DNA binding site 316385005053 RNA-binding motif; other site 316385005054 Protein of unknown function (DUF2514); Region: DUF2514; pfam10721 316385005055 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 316385005056 catalytic residues [active] 316385005057 Protein of unknown function (DUF1327); Region: DUF1327; pfam07041 316385005058 Lysis protein S; Region: Lysis_S; pfam04971 316385005059 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 316385005060 DNA-binding site [nucleotide binding]; DNA binding site 316385005061 RNA-binding motif; other site 316385005062 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 316385005063 DNA-binding site [nucleotide binding]; DNA binding site 316385005064 RNA-binding motif; other site 316385005065 Antitermination protein; Region: Antiterm; pfam03589 316385005066 Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cd10719 316385005067 DnaJ central domain; Region: DnaJ_CXXCXGXG; pfam00684 316385005068 Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cd10719 316385005069 Hok/gef family; Region: HOK_GEF; pfam01848 316385005070 Cytotoxic translational repressor of toxin-antitoxin stability system [Translation, ribosomal structure and biogenesis / Cell division and chromosome partitioning]; Region: RelE; COG2026 316385005071 bifunctional antitoxin/transcriptional repressor RelB; Provisional; Region: PRK11235 316385005072 Protein of unknown function (DUF1019); Region: DUF1019; pfam06254 316385005073 DNA-binding transcriptional regulator DicC; Provisional; Region: PRK09744 316385005074 transcriptional repressor DicA; Reviewed; Region: PRK09706 316385005075 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 316385005076 non-specific DNA binding site [nucleotide binding]; other site 316385005077 salt bridge; other site 316385005078 sequence-specific DNA binding site [nucleotide binding]; other site 316385005079 Protein of unknown function (DUF1391); Region: DUF1391; pfam07151 316385005080 DicB protein; Region: DicB; pfam05358 316385005081 Protein of unknown function (DUF1482); Region: DUF1482; pfam07358 316385005082 Qin prophage; IS2 insertion element transposase InsAB', C-ter fragment (pseudogene) 316385005083 putative oxidoreductase; Provisional; Region: PRK10083 316385005084 Alcohol dehydrogenases of the MDR family; Region: Zn_ADH7; cd08261 316385005085 putative NAD(P) binding site [chemical binding]; other site 316385005086 catalytic Zn binding site [ion binding]; other site 316385005087 structural Zn binding site [ion binding]; other site 316385005088 bifunctional D-altronate/D-mannonate dehydratase; Provisional; Region: PRK15072 316385005089 The starvation sensing protein RpsA from E.coli and its homologs are lactonizing enzymes whose putative targets are homoserine lactone (HSL)-derivative. They are part of the mandelate racemase (MR)-like subfamily of the enolase superfamily. Enzymes of...; Region: rpsA; cd03322 316385005090 putative active site pocket [active] 316385005091 putative metal binding site [ion binding]; other site 316385005092 hypothetical protein; Provisional; Region: PRK02237 316385005093 hypothetical protein; Provisional; Region: PRK13659 316385005094 spermidine N1-acetyltransferase; Provisional; Region: PRK15130 316385005095 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 316385005096 Coenzyme A binding pocket [chemical binding]; other site 316385005097 Uncharacterized protein family (UPF0257); Region: UPF0257; pfam06788 316385005098 Protein of unknown function (DUF1161); Region: DUF1161; pfam06649 316385005099 anaerobic dimethyl sulfoxide reductase, A subunit, DmsA/YnfE family; Region: dmsA_ynfE; TIGR02166 316385005100 This CD (MopB_DmsA-EC) includes the DmsA enzyme of the dmsABC operon encoding the anaerobic dimethylsulfoxide reductase (DMSOR) of Escherichia coli and other related DMSOR-like enzymes. Unlike other DMSOR-like enzymes, this group has a predicted...; Region: MopB_DmsA-EC; cd02770 316385005101 putative [Fe4-S4] binding site [ion binding]; other site 316385005102 putative molybdopterin cofactor binding site [chemical binding]; other site 316385005103 The MopB_CT_DmsA-EC CD includes the DmsA enzyme of the dmsABC operon encoding the anaerobic dimethylsulfoxide reductase (DMSOR) of Escherichia coli and other related DMSOR-like enzymes. Unlike other DMSOR-like enzymes, this group has a predicted...; Region: MopB_CT_DmsA-EC; cd02794 316385005104 putative molybdopterin cofactor binding site; other site 316385005105 anaerobic dimethyl sulfoxide reductase, A subunit, DmsA/YnfE family; Region: dmsA_ynfE; TIGR02166 316385005106 This CD (MopB_DmsA-EC) includes the DmsA enzyme of the dmsABC operon encoding the anaerobic dimethylsulfoxide reductase (DMSOR) of Escherichia coli and other related DMSOR-like enzymes. Unlike other DMSOR-like enzymes, this group has a predicted...; Region: MopB_DmsA-EC; cd02770 316385005107 putative [Fe4-S4] binding site [ion binding]; other site 316385005108 putative molybdopterin cofactor binding site [chemical binding]; other site 316385005109 The MopB_CT_DmsA-EC CD includes the DmsA enzyme of the dmsABC operon encoding the anaerobic dimethylsulfoxide reductase (DMSOR) of Escherichia coli and other related DMSOR-like enzymes. Unlike other DMSOR-like enzymes, this group has a predicted...; Region: MopB_CT_DmsA-EC; cd02794 316385005110 putative molybdopterin cofactor binding site; other site 316385005111 DMSO reductase, iron-sulfur subunit; Region: DMSO_dmsB; TIGR02951 316385005112 4Fe-4S binding domain; Region: Fer4; cl02805 316385005113 DMSO reductase anchor subunit (DmsC); Region: DmsC; pfam04976 316385005114 twin-argninine leader-binding protein DmsD; Provisional; Region: PRK11621 316385005115 Chloride channel protein EriC [Inorganic ion transport and metabolism]; Region: EriC; COG0038 316385005116 CLC voltage-gated chloride channel. The ClC chloride channels catalyse the selective flow of Cl- ions across cell membranes, thereby regulating electrical excitation in skeletal muscle and the flow of salt and water across epithelial barriers. This...; Region: Voltage_gated_ClC; cd00400 316385005117 Cl- selectivity filter; other site 316385005118 Cl- binding residues [ion binding]; other site 316385005119 pore gating glutamate residue; other site 316385005120 dimer interface [polypeptide binding]; other site 316385005121 putative dithiobiotin synthetase; Provisional; Region: PRK12374 316385005122 AAA domain; Region: AAA_26; pfam13500 316385005123 Iron dependent repressor, N-terminal DNA binding domain; Region: Fe_dep_repress; pfam01325 316385005124 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 316385005125 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 316385005126 nucleotide binding site [chemical binding]; other site 316385005127 DNA-binding transcriptional activator XapR; Provisional; Region: PRK09986 316385005128 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 316385005129 The C-terminal substrate binding domain of LysR-type transcriptional regulators involved in the catabolism of aromatic compounds and that of other related regulators, contains type 2 periplasmic binding fold; Region: PBP2_LTTR_aromatics_like; cd08414 316385005130 dimerization interface [polypeptide binding]; other site 316385005131 substrate binding pocket [chemical binding]; other site 316385005132 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 316385005133 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 316385005134 putative substrate translocation pore; other site 316385005135 V8-like Glu-specific endopeptidase [Amino acid transport and metabolism]; Region: COG3591 316385005136 multidrug efflux system protein MdtI; Provisional; Region: PRK10650 316385005137 multidrug efflux system protein MdtJ; Provisional; Region: PRK10452 316385005138 pheromone autoinducer 2 transporter; Reviewed; Region: tqsA; PRK12287 316385005139 Domain of unknown function DUF20; Region: UPF0118; pfam01594 316385005140 pyridine nucleotide transhydrogenase; Provisional; Region: pntB; PRK09444 316385005141 NAD(P) transhydrogenase beta subunit; Region: PNTB; pfam02233 316385005142 NAD(P) transhydrogenase subunit alpha; Provisional; Region: pntA; PRK09424 316385005143 Rubrum transdehydrogenase NAD-binding and catalytic domains; Region: Rubrum_tdh; cd05304 316385005144 ligand binding site [chemical binding]; other site 316385005145 homodimer interface [polypeptide binding]; other site 316385005146 NAD(P) binding site [chemical binding]; other site 316385005147 trimer interface B [polypeptide binding]; other site 316385005148 trimer interface A [polypeptide binding]; other site 316385005149 Domain of unknown function (DUF3814); Region: DUF3814; pfam12769 316385005150 Protein of unknown function (DUF1471); Region: DUF1471; pfam07338 316385005151 Protein of unknown function (DUF1471); Region: DUF1471; pfam07338 316385005152 Protein of unknown function (DUF1471); Region: DUF1471; pfam07338 316385005153 transporter, basic amino acid/polyamine antiporter (APA) family; Region: 2A0302; TIGR00905 316385005154 Spore germination protein; Region: Spore_permease; cl17796 316385005155 dihydromonapterin reductase; Provisional; Region: PRK06483 316385005156 pteridine reductase (PR), classical (c) SDRs; Region: PR_SDR_c; cd05357 316385005157 NADP binding site [chemical binding]; other site 316385005158 substrate binding pocket [chemical binding]; other site 316385005159 active site 316385005160 GlpM protein; Region: GlpM; pfam06942 316385005161 DNA-binding transcriptional regulator RstA; Provisional; Region: PRK10701 316385005162 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 316385005163 active site 316385005164 phosphorylation site [posttranslational modification] 316385005165 intermolecular recognition site; other site 316385005166 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 316385005167 DNA binding site [nucleotide binding] 316385005168 sensor protein RstB; Provisional; Region: PRK10604 316385005169 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 316385005170 dimerization interface [polypeptide binding]; other site 316385005171 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 316385005172 dimer interface [polypeptide binding]; other site 316385005173 phosphorylation site [posttranslational modification] 316385005174 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 316385005175 ATP binding site [chemical binding]; other site 316385005176 Mg2+ binding site [ion binding]; other site 316385005177 G-X-G motif; other site 316385005178 DNA replication terminus site-binding protein; Provisional; Region: PRK02951 316385005179 fumarate hydratase; Reviewed; Region: fumC; PRK00485 316385005180 Class II fumarases; Region: Fumarase_classII; cd01362 316385005181 active site 316385005182 tetramer interface [polypeptide binding]; other site 316385005183 fumarate hydratase; Provisional; Region: PRK15389 316385005184 Tartrate dehydratase alpha subunit/Fumarate hydratase class I, N-terminal domain [Energy production and conversion]; Region: TtdA; COG1951 316385005185 Fumarase C-terminus; Region: Fumerase_C; pfam05683 316385005186 mannose-6-phosphate isomerase; Provisional; Region: PRK15131 316385005187 Alpha-Mannosidase Binding Domain of Atg19/34; Region: ABD; cl15429 316385005188 mannose-6-phosphate isomerase, class I; Region: manA; TIGR00218 316385005189 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5339 316385005190 Bacterial protein of unknown function (DUF945); Region: DUF945; pfam06097 316385005191 putative outer membrane porin protein; Provisional; Region: PRK11379 316385005192 glucuronide transporter; Provisional; Region: PRK09848 316385005193 melibiose:sodium symporter; Provisional; Region: PRK10429; cl15392 316385005194 beta-D-glucuronidase; Provisional; Region: PRK10150 316385005195 Glycosyl hydrolases family 2, sugar binding domain; Region: Glyco_hydro_2_N; pfam02837 316385005196 Glycosyl hydrolases family 2; Region: Glyco_hydro_2; pfam00703 316385005197 Glycosyl hydrolases family 2, TIM barrel domain; Region: Glyco_hydro_2_C; pfam02836 316385005198 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 316385005199 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 316385005200 7-alpha-hydroxysteroid dehydrogenase; Validated; Region: PRK06113 316385005201 7 alpha-hydroxysteroid dehydrogenase (7 alpha-HSDH), classical (c) SDRs; Region: 7_alpha_HSDH_SDR_c; cd05365 316385005202 NAD binding site [chemical binding]; other site 316385005203 substrate binding site [chemical binding]; other site 316385005204 homotetramer interface [polypeptide binding]; other site 316385005205 homodimer interface [polypeptide binding]; other site 316385005206 active site 316385005207 DNA-binding transcriptional repressor MalI; Provisional; Region: PRK10014 316385005208 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 316385005209 DNA binding site [nucleotide binding] 316385005210 domain linker motif; other site 316385005211 Ligand-binding domain of MalI, a transcription regulator of the maltose system of Escherichia coli and its close homologs from other bacteria; Region: PBP1_MalI_like; cd06289 316385005212 putative dimerization interface [polypeptide binding]; other site 316385005213 putative ligand binding site [chemical binding]; other site 316385005214 bifunctional PTS system maltose and glucose-specific transporter subunits IICB; Provisional; Region: PRK10110 316385005215 PTS system, maltose and glucose-specific subfamily, IIC component; Region: pts-Glc; TIGR00852 316385005216 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 316385005217 active site turn [active] 316385005218 phosphorylation site [posttranslational modification] 316385005219 Bifunctional PLP-dependent enzyme with beta-cystathionase and maltose regulon repressor activities [Amino acid transport and metabolism]; Region: MalY; COG1168 316385005220 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 316385005221 pyridoxal 5'-phosphate binding site [chemical binding]; other site 316385005222 homodimer interface [polypeptide binding]; other site 316385005223 catalytic residue [active] 316385005224 Adenosine deaminase [Nucleotide transport and metabolism]; Region: Add; COG1816 316385005225 Adenosine deaminase (ADA) is a monomeric zinc dependent enzyme which catalyzes the irreversible hydrolytic deamination of both adenosine, as well as desoxyadenosine, to ammonia and inosine or desoxyinosine, respectively. ADA plays an important role in...; Region: ADA; cd01320 316385005226 active site 316385005227 purine riboside binding site [chemical binding]; other site 316385005228 putative oxidoreductase; Provisional; Region: PRK11579 316385005229 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 316385005230 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 316385005231 oriC-binding nucleoid-associated protein; Provisional; Region: PRK10391 316385005232 Protein of unknown function (DUF2569); Region: DUF2569; pfam10754 316385005233 electron transport complex protein RsxA; Provisional; Region: PRK05151 316385005234 electron transport complex protein RnfB; Provisional; Region: PRK05113 316385005235 Putative Fe-S cluster; Region: FeS; pfam04060 316385005236 4Fe-4S binding domain; Region: Fer4; pfam00037 316385005237 Predicted NADH:ubiquinone oxidoreductase, subunit RnfC [Energy production and conversion]; Region: RnfC; COG4656 316385005238 SLBB domain; Region: SLBB; pfam10531 316385005239 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 316385005240 electron transport complex protein RnfD; Reviewed; Region: rnfD; PRK00816 316385005241 electron transport complex protein RnfG; Validated; Region: PRK01908 316385005242 electron transport complex RsxE subunit; Provisional; Region: PRK12405 316385005243 endonuclease III; Provisional; Region: PRK10702 316385005244 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 316385005245 minor groove reading motif; other site 316385005246 helix-hairpin-helix signature motif; other site 316385005247 substrate binding pocket [chemical binding]; other site 316385005248 active site 316385005249 iron-sulpphur binding domain in DNA-(apurinic or apyrimidinic site) lyase (subfamily of ENDO3); Region: FES; smart00525 316385005250 Dipeptide/tripeptide permease [Amino acid transport and metabolism]; Region: PTR2; COG3104 316385005251 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 316385005252 putative substrate translocation pore; other site 316385005253 POT family; Region: PTR2; pfam00854 316385005254 glutathionine S-transferase; Provisional; Region: PRK10542 316385005255 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 316385005256 C-terminal domain interface [polypeptide binding]; other site 316385005257 GSH binding site (G-site) [chemical binding]; other site 316385005258 dimer interface [polypeptide binding]; other site 316385005259 C-terminal, alpha helical domain of Class Beta Glutathione S-transferases; Region: GST_C_Beta; cd03188 316385005260 N-terminal domain interface [polypeptide binding]; other site 316385005261 dimer interface [polypeptide binding]; other site 316385005262 substrate binding pocket (H-site) [chemical binding]; other site 316385005263 pyridoxamine kinase; Validated; Region: PRK05756 316385005264 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 316385005265 dimer interface [polypeptide binding]; other site 316385005266 pyridoxal binding site [chemical binding]; other site 316385005267 ATP binding site [chemical binding]; other site 316385005268 tyrosyl-tRNA synthetase; Validated; Region: PRK05912 316385005269 catalytic core domain of tyrosinyl-tRNA synthetase; Region: TyrRS_core; cd00805 316385005270 active site 316385005271 HIGH motif; other site 316385005272 dimer interface [polypeptide binding]; other site 316385005273 KMSKS motif; other site 316385005274 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 316385005275 RNA binding surface [nucleotide binding]; other site 316385005276 pyridoxamine 5'-phosphate oxidase; Provisional; Region: PRK05679 316385005277 Pyridoxamine 5'-phosphate oxidase; Region: Pyridox_oxidase; pfam01243 316385005278 Pyridoxine 5'-phosphate oxidase C-terminal dimerisation region; Region: PNPOx_C; pfam10590 316385005279 lysozyme inhibitor; Provisional; Region: PRK11372 316385005280 Membrane-bound lysozyme-inhibitor of c-type lysozyme; Region: MliC; pfam09864 316385005281 Uncharacterized protein family (UPF0075); Region: UPF0075; pfam03702 316385005282 Outer membrane lipoprotein [Cell envelope biogenesis, outer membrane]; Region: SlyB; COG3133 316385005283 transcriptional regulator SlyA; Provisional; Region: PRK03573 316385005284 Winged helix DNA-binding domain; Region: HTH_27; pfam13463 316385005285 Multidrug resistance efflux pump [Defense mechanisms]; Region: EmrA; COG1566 316385005286 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 316385005287 HlyD family secretion protein; Region: HlyD_3; pfam13437 316385005288 Fusaric acid resistance protein family; Region: FUSC; pfam04632 316385005289 Fusaric acid resistance protein-like; Region: FUSC_2; pfam13515 316385005290 Cu/Zn superoxide dismutase [Inorganic ion transport and metabolism]; Region: SodC; COG2032 316385005291 Copper/zinc superoxide dismutase (SOD). superoxide dismutases catalyse the conversion of superoxide radicals to molecular oxygen. Three evolutionarily distinct families of SODs are known, of which the copper/zinc-binding family is one. Defects in the...; Region: Cu-Zn_Superoxide_Dismutase; cd00305 316385005292 E-class dimer interface [polypeptide binding]; other site 316385005293 P-class dimer interface [polypeptide binding]; other site 316385005294 active site 316385005295 Cu2+ binding site [ion binding]; other site 316385005296 Zn2+ binding site [ion binding]; other site 316385005297 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 316385005298 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 316385005299 active site 316385005300 catalytic tetrad [active] 316385005301 Predicted Fe-S protein [General function prediction only]; Region: COG3313 316385005302 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 316385005303 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 316385005304 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 316385005305 Old yellow enzyme (OYE)-like FMN binding domain. OYE was the first flavin-dependent enzyme identified, however its true physiological role remains elusive to this day. Each monomer of OYE contains FMN as a non-covalently bound cofactor, uses NADPH as a...; Region: OYE_like_FMN; cd02933 316385005306 FMN binding site [chemical binding]; other site 316385005307 active site 316385005308 substrate binding site [chemical binding]; other site 316385005309 catalytic residue [active] 316385005310 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 316385005311 Glyoxalase I catalyzes the isomerization of the hemithioacetal, formed by a 2-oxoaldehyde and glutathione, to S-D-lactoylglutathione; Region: Glyoxalase_I; cd07233 316385005312 dimer interface [polypeptide binding]; other site 316385005313 active site 316385005314 metal binding site [ion binding]; metal-binding site 316385005315 glutathione binding site [chemical binding]; other site 316385005316 DNA polymerase III, epsilon subunit and related 3'-5' exonucleases [DNA replication, recombination, and repair]; Region: DnaQ; COG0847 316385005317 DEDDh 3'-5' exonuclease domain of RNase T; Region: RNaseT; cd06134 316385005318 dimer interface [polypeptide binding]; other site 316385005319 catalytic site [active] 316385005320 putative active site [active] 316385005321 putative substrate binding site [chemical binding]; other site 316385005322 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 316385005323 putative ATP-dependent helicase Lhr; Provisional; Region: PRK09751 316385005324 ATP binding site [chemical binding]; other site 316385005325 putative Mg++ binding site [ion binding]; other site 316385005326 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 316385005327 nucleotide binding region [chemical binding]; other site 316385005328 ATP-binding site [chemical binding]; other site 316385005329 DEAD/H associated; Region: DEAD_assoc; pfam08494 316385005330 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 316385005331 putative GSH binding site [chemical binding]; other site 316385005332 catalytic residues [active] 316385005333 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 316385005334 NlpC/P60 family; Region: NLPC_P60; pfam00877 316385005335 superoxide dismutase; Provisional; Region: PRK10543 316385005336 Iron/manganese superoxide dismutases, alpha-hairpin domain; Region: Sod_Fe_N; pfam00081 316385005337 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 316385005338 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 316385005339 Major Facilitator Superfamily; Region: MFS_1; pfam07690 316385005340 putative substrate translocation pore; other site 316385005341 putative DNA-binding transcriptional regulator; Provisional; Region: PRK11074 316385005342 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 316385005343 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 316385005344 dimerization interface [polypeptide binding]; other site 316385005345 putative transporter; Provisional; Region: PRK11043 316385005346 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 316385005347 putative substrate translocation pore; other site 316385005348 cyclopropane fatty acyl phospholipid synthase; Provisional; Region: PRK11705 316385005349 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 316385005350 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 316385005351 S-adenosylmethionine binding site [chemical binding]; other site 316385005352 riboflavin synthase subunit alpha; Provisional; Region: PRK13020 316385005353 Lumazine binding domain; Region: Lum_binding; pfam00677 316385005354 Lumazine binding domain; Region: Lum_binding; pfam00677 316385005355 multidrug efflux protein; Reviewed; Region: PRK01766 316385005356 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Vibrio cholerae NorM; Region: MATE_NorM_like; cd13131 316385005357 cation binding site [ion binding]; other site 316385005358 hypothetical protein; Provisional; Region: PRK09945 316385005359 Type V secretory pathway, adhesin AidA [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: AidA; COG3468 316385005360 putative monooxygenase; Provisional; Region: PRK11118 316385005361 hypothetical protein; Provisional; Region: PRK09897 316385005362 FAD-NAD(P)-binding; Region: NAD_binding_9; pfam13454 316385005363 hypothetical protein; Provisional; Region: PRK09946 316385005364 thiosulfate reductase cytochrome B subunit; Provisional; Region: PRK15006 316385005365 Thiosulfate reductase cytochrome B subunit (membrane anchoring protein) [Energy production and conversion]; Region: COG4117 316385005366 cytochrome c nitrite reductase, Fe-S protein; Region: cyt_nit_nrfC; TIGR03149 316385005367 hypothetical protein; Provisional; Region: PRK09947 316385005368 putative oxidoreductase; Provisional; Region: PRK09849 316385005369 Aldehyde ferredoxin oxidoreductase, N-terminal domain; Region: AFOR_N; pfam02730 316385005370 Aldehyde ferredoxin oxidoreductase, domains 2 & 3; Region: AFOR_C; pfam01314 316385005371 hypothetical protein; Provisional; Region: PRK09898 316385005372 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 316385005373 hypothetical protein; Provisional; Region: PRK10292 316385005374 pyruvate kinase; Provisional; Region: PRK09206 316385005375 Pyruvate kinase (PK): Large allosteric enzyme that regulates glycolysis through binding of the substrate, phosphoenolpyruvate, and one or more allosteric effectors. Like other allosteric enzymes, PK has a high substrate affinity R state and a low...; Region: Pyruvate_Kinase; cd00288 316385005376 domain interfaces; other site 316385005377 active site 316385005378 murein lipoprotein; Provisional; Region: PRK15396 316385005379 L,D-transpeptidase; Provisional; Region: PRK10190 316385005380 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 316385005381 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 316385005382 cysteine desufuration protein SufE; Provisional; Region: PRK09296 316385005383 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 316385005384 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 316385005385 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 316385005386 catalytic residue [active] 316385005387 cysteine desulfurase activator complex subunit SufD; Provisional; Region: PRK10948 316385005388 FeS assembly protein SufD; Region: sufD; TIGR01981 316385005389 cysteine desulfurase ATPase component; Reviewed; Region: sufC; PRK09580 316385005390 ABC-type transport system involved in Fe-S cluster assembly, ATPase component; Region: ABC_FeS_Assembly; cd03217 316385005391 Walker A/P-loop; other site 316385005392 ATP binding site [chemical binding]; other site 316385005393 Q-loop/lid; other site 316385005394 ABC transporter signature motif; other site 316385005395 Walker B; other site 316385005396 D-loop; other site 316385005397 H-loop/switch region; other site 316385005398 cysteine desulfurase activator complex subunit SufB; Provisional; Region: PRK11814 316385005399 putative ABC transporter; Region: ycf24; CHL00085 316385005400 iron-sulfur cluster assembly scaffold protein; Provisional; Region: sufA; PRK09504 316385005401 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 316385005402 CoenzymeA binding site [chemical binding]; other site 316385005403 subunit interaction site [polypeptide binding]; other site 316385005404 PHB binding site; other site 316385005405 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 316385005406 FAD binding domain; Region: FAD_binding_4; pfam01565 316385005407 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 316385005408 putative inner membrane protein; Provisional; Region: PRK10983 316385005409 Domain of unknown function DUF20; Region: UPF0118; pfam01594 316385005410 Domain of unknown function (DUF1870); Region: DUF1870; pfam08965 316385005411 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 316385005412 Major Facilitator Superfamily; Region: MFS_1; pfam07690 316385005413 putative substrate translocation pore; other site 316385005414 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 316385005415 putative substrate translocation pore; other site 316385005416 quinate/shikimate dehydrogenase; Reviewed; Region: PRK12749 316385005417 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 316385005418 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 316385005419 shikimate binding site; other site 316385005420 NAD(P) binding site [chemical binding]; other site 316385005421 3-dehydroquinate dehydratase [Amino acid transport and metabolism]; Region: AroD; COG0710 316385005422 Type I 3-dehydroquinase, (3-dehydroquinate dehydratase or DHQase); Region: DHQase_I; cd00502 316385005423 active site 316385005424 catalytic residue [active] 316385005425 dimer interface [polypeptide binding]; other site 316385005426 putative acyl-CoA dehydrogenase; Provisional; Region: PRK12341 316385005427 Acyl-CoA dehydrogenase; Region: ACAD; cd00567 316385005428 active site 316385005429 Cupin domain; Region: Cupin_2; pfam07883 316385005430 Winged helix DNA-binding domain (DUF1495); Region: DUF1495; cl01336 316385005431 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 316385005432 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 316385005433 The electron transfer flavoprotein (ETF) serves as a specific electron acceptor for various mitochondrial dehydrogenases. ETF transfers electrons to the main respiratory chain via ETF-ubiquinone oxidoreductase. ETF is an heterodimer that consists of an...; Region: ETF_beta; cd01714 316385005434 Ligand binding site [chemical binding]; other site 316385005435 Electron transfer flavoprotein domain; Region: ETF; pfam01012 316385005436 electron transfer flavoprotein subunit YdiR; Provisional; Region: PRK11916 316385005437 Electron transfer flavoprotein domain; Region: ETF; smart00893 316385005438 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 316385005439 oxidoreductase; Provisional; Region: PRK10015 316385005440 Ferredoxin-like protein [Energy production and conversion]; Region: FixX; COG2440 316385005441 short chain acyl-CoA synthetase; Reviewed; Region: PRK06087 316385005442 Cyclohexanecarboxylate-CoA ligase (also called cyclohex-1-ene-1-carboxylate:CoA ligase); Region: CHC_CoA_lg; cd05903 316385005443 acyl-activating enzyme (AAE) consensus motif; other site 316385005444 putative AMP binding site [chemical binding]; other site 316385005445 putative active site [active] 316385005446 putative CoA binding site [chemical binding]; other site 316385005447 phosphoenolpyruvate synthase; Validated; Region: PRK06464 316385005448 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 316385005449 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 316385005450 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 316385005451 PEP synthetase regulatory protein; Provisional; Region: PRK05339 316385005452 phospho-2-dehydro-3-deoxyheptonate aldolase; Provisional; Region: PRK12756 316385005453 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 316385005454 Hemin uptake protein [Inorganic ion transport and metabolism]; Region: HemP; COG4256 316385005455 Uncharacterized conserved protein [Function unknown]; Region: COG0397 316385005456 hypothetical protein; Validated; Region: PRK00029 316385005457 c-di-GMP phosphodiesterase class I (EAL domain) [Signal transduction mechanisms]; Region: Rtn; COG2200 316385005458 NlpC/P60 family; Region: NLPC_P60; pfam00877 316385005459 vitamin B12-transporter ATPase; Provisional; Region: PRK03695 316385005460 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 316385005461 Walker A/P-loop; other site 316385005462 ATP binding site [chemical binding]; other site 316385005463 Q-loop/lid; other site 316385005464 ABC transporter signature motif; other site 316385005465 Walker B; other site 316385005466 D-loop; other site 316385005467 H-loop/switch region; other site 316385005468 Glutathione (GSH) peroxidase family; tetrameric selenoenzymes that catalyze the reduction of a variety of hydroperoxides including lipid peroxidases, using GSH as a specific electron donor substrate. GSH peroxidase contains one selenocysteine residue per...; Region: GSH_Peroxidase; cd00340 316385005469 catalytic residues [active] 316385005470 dimer interface [polypeptide binding]; other site 316385005471 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 316385005472 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 316385005473 ABC-ATPase subunit interface; other site 316385005474 dimer interface [polypeptide binding]; other site 316385005475 putative PBP binding regions; other site 316385005476 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 316385005477 IHF dimer interface [polypeptide binding]; other site 316385005478 IHF - DNA interface [nucleotide binding]; other site 316385005479 phenylalanyl-tRNA synthetase subunit beta; Reviewed; Region: pheT; PRK00629 316385005480 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 316385005481 putative tRNA-binding site [nucleotide binding]; other site 316385005482 B3/4 domain; Region: B3_4; pfam03483 316385005483 tRNA synthetase B5 domain; Region: B5; smart00874 316385005484 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 316385005485 dimer interface [polypeptide binding]; other site 316385005486 motif 1; other site 316385005487 motif 3; other site 316385005488 motif 2; other site 316385005489 Ferredoxin-fold anticodon binding domain; Region: FDX-ACB; pfam03147 316385005490 phenylalanyl-tRNA synthetase subunit alpha; Validated; Region: pheS; PRK00488 316385005491 Aminoacyl tRNA synthetase class II, N-terminal domain; Region: Phe_tRNA-synt_N; pfam02912 316385005492 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 316385005493 dimer interface [polypeptide binding]; other site 316385005494 motif 1; other site 316385005495 active site 316385005496 motif 2; other site 316385005497 motif 3; other site 316385005498 Ribosomal protein L20; Region: Ribosomal_L20; cd07026 316385005499 23S rRNA binding site [nucleotide binding]; other site 316385005500 L21 binding site [polypeptide binding]; other site 316385005501 L13 binding site [polypeptide binding]; other site 316385005502 50S ribosomal protein L35; Reviewed; Region: rpmI; PRK00172 316385005503 threonyl-tRNA synthetase; Reviewed; Region: thrS; PRK00413 316385005504 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 316385005505 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; pfam07973 316385005506 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 316385005507 active site 316385005508 dimer interface [polypeptide binding]; other site 316385005509 motif 1; other site 316385005510 motif 2; other site 316385005511 motif 3; other site 316385005512 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 316385005513 anticodon binding site; other site 316385005514 Putative salt-induced outer membrane protein [Cell envelope biogenesis, outer membrane]; Region: COG3137 316385005515 6-phosphofructokinase 2; Provisional; Region: PRK10294 316385005516 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 316385005517 putative substrate binding site [chemical binding]; other site 316385005518 putative ATP binding site [chemical binding]; other site 316385005519 Protein of unknown function (DUF2622); Region: DUF2622; pfam11080 316385005520 Phosphotransferase enzyme family; Region: APH; pfam01636 316385005521 Aminoglycoside 3'-phosphotransferase (APH) and Choline Kinase (ChoK) family. The APH/ChoK family is part of a larger superfamily that includes the catalytic domains of other kinases, such as the typical serine/threonine/tyrosine protein kinases (PKs)...; Region: APH_ChoK_like; cd05120 316385005522 active site 316385005523 ATP binding site [chemical binding]; other site 316385005524 Aminoglycoside 3'-phosphotransferase (APH) and Choline Kinase (ChoK) family. The APH/ChoK family is part of a larger superfamily that includes the catalytic domains of other kinases, such as the typical serine/threonine/tyrosine protein kinases (PKs)...; Region: APH_ChoK_like; cl17270 316385005525 YniB-like protein; Region: YniB; pfam14002 316385005526 2-deoxyglucose-6-phosphatase; Provisional; Region: PRK10826 316385005527 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 316385005528 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 316385005529 motif II; other site 316385005530 inner membrane protein; Provisional; Region: PRK11648 316385005531 Predicted Na+/dicarboxylate symporter [General function prediction only]; Region: COG1823 316385005532 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 316385005533 cell division modulator; Provisional; Region: PRK10113 316385005534 hydroperoxidase II; Provisional; Region: katE; PRK11249 316385005535 Clade 2 of the heme-binding enzyme catalase; Region: catalase_clade_2; cd08155 316385005536 tetramer interface [polypeptide binding]; other site 316385005537 heme binding pocket [chemical binding]; other site 316385005538 Type 1 glutamine amidotransferase (GATase1)-like domain found in at the C-terminal of several large catalases; Region: GATase1_catalase; cd03132 316385005539 domain interactions; other site 316385005540 Enterococcus faecalis EF3048 and similar proteins; Region: YdjC_EF3048_like; cd10803 316385005541 putative active site [active] 316385005542 YdjC motif; other site 316385005543 Mg binding site [ion binding]; other site 316385005544 putative homodimer interface [polypeptide binding]; other site 316385005545 Alpha-galactosidases/6-phospho-beta-glucosidases, family 4 of glycosyl hydrolases [Carbohydrate transport and metabolism]; Region: CelF; COG1486 316385005546 Glycoside Hydrolases Family 4; Phospho-beta-glucosidase; Region: GH4_P_beta_glucosidase; cd05296 316385005547 NAD binding site [chemical binding]; other site 316385005548 sugar binding site [chemical binding]; other site 316385005549 divalent metal binding site [ion binding]; other site 316385005550 tetramer (dimer of dimers) interface [polypeptide binding]; other site 316385005551 dimer interface [polypeptide binding]; other site 316385005552 DNA-binding transcriptional regulator ChbR; Provisional; Region: PRK10296 316385005553 Cupin domain; Region: Cupin_2; pfam07883 316385005554 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 316385005555 PTS_IIA, PTS system, lactose/cellobiose specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This...; Region: PTS_IIA_lac; cd00215 316385005556 methionine cluster; other site 316385005557 active site 316385005558 phosphorylation site [posttranslational modification] 316385005559 metal binding site [ion binding]; metal-binding site 316385005560 PTS system N,N'-diacetylchitobiose-specific transporter subunit IIC; Provisional; Region: PRK10297 316385005561 cellobiose phosphotransferase system IIC component; Reviewed; Region: celD; PRK09592 316385005562 PTS_IIB_chitobiose_lichenan: subunit IIB of enzyme II (EII) of the N,N-diacetylchitobiose-specific and lichenan-specific phosphoenolpyruvate:carbohydrate phosphotransferase system (PTS). In these systems, EII is either a lichenan- or an N; Region: PTS_IIB_chitobiose_lichenan; cd05564 316385005563 active site 316385005564 P-loop; other site 316385005565 phosphorylation site [posttranslational modification] 316385005566 DNA-binding transcriptional activator OsmE; Provisional; Region: PRK11251 316385005567 NAD+ synthetase; Region: nadE; TIGR00552 316385005568 NAD+ synthase is a homodimer, which catalyzes the final step in de novo nicotinamide adenine dinucleotide (NAD+) biosynthesis, an amide transfer from either ammonia or glutamine to nicotinic acid adenine dinucleotide (NaAD). The conversion of NaAD to NAD...; Region: NAD_synthase; cd00553 316385005569 homodimer interface [polypeptide binding]; other site 316385005570 NAD binding pocket [chemical binding]; other site 316385005571 ATP binding pocket [chemical binding]; other site 316385005572 Mg binding site [ion binding]; other site 316385005573 active-site loop [active] 316385005574 nucleotide excision repair endonuclease; Provisional; Region: PRK10545 316385005575 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 316385005576 GIY-YIG motif/motif A; other site 316385005577 active site 316385005578 catalytic site [active] 316385005579 putative DNA binding site [nucleotide binding]; other site 316385005580 metal binding site [ion binding]; metal-binding site 316385005581 hypothetical protein; Provisional; Region: PRK11396 316385005582 CpxP component of the bacterial Cpx-two-component system and related proteins; Region: CpxP_like; cd09916 316385005583 dimer interface [polypeptide binding]; other site 316385005584 Peptidase M14 Succinylglutamate desuccinylase (ASTE) subfamily; Region: M14_ASTE; cd03855 316385005585 Succinylglutamate desuccinylase / Aspartoacylase family; Region: AstE_AspA; pfam04952 316385005586 putative active site [active] 316385005587 Zn binding site [ion binding]; other site 316385005588 succinylarginine dihydrolase; Provisional; Region: PRK13281 316385005589 succinylglutamic semialdehyde dehydrogenase; Reviewed; Region: astD; PRK09457 316385005590 N-succinylglutamate 5-semialdehyde dehydrogenase, AstD-like; Region: ALDH_SGSD_AstD; cd07095 316385005591 NAD(P) binding site [chemical binding]; other site 316385005592 catalytic residues [active] 316385005593 arginine succinyltransferase; Provisional; Region: PRK10456 316385005594 Arginine/ornithine N-succinyltransferase beta subunit [Amino acid transport and metabolism]; Region: AstA; COG3138 316385005595 bifunctional succinylornithine transaminase/acetylornithine transaminase; Provisional; Region: PRK12381 316385005596 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 316385005597 inhibitor-cofactor binding pocket; inhibition site 316385005598 pyridoxal 5'-phosphate binding site [chemical binding]; other site 316385005599 catalytic residue [active] 316385005600 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 316385005601 putative catalytic site [active] 316385005602 putative phosphate binding site [ion binding]; other site 316385005603 active site 316385005604 metal binding site A [ion binding]; metal-binding site 316385005605 DNA binding site [nucleotide binding] 316385005606 putative AP binding site [nucleotide binding]; other site 316385005607 putative metal binding site B [ion binding]; other site 316385005608 Uncharacterized conserved protein [Function unknown]; Region: COG0398 316385005609 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 316385005610 Uncharacterized conserved protein [Function unknown]; Region: COG0398 316385005611 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 316385005612 Uncharacterized conserved protein [Function unknown]; Region: COG2128 316385005613 Carboxymuconolactone decarboxylase family; Region: CMD; pfam02627 316385005614 ABC-type uncharacterized transport system, periplasmic component [General function prediction only]; Region: COG4134 316385005615 hypothetical protein; Provisional; Region: PRK11622 316385005616 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4135 316385005617 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 316385005618 dimer interface [polypeptide binding]; other site 316385005619 conserved gate region; other site 316385005620 putative PBP binding loops; other site 316385005621 ABC-ATPase subunit interface; other site 316385005622 ABC-type uncharacterized transport system, ATPase component [General function prediction only]; Region: COG4136 316385005623 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 316385005624 Walker A/P-loop; other site 316385005625 ATP binding site [chemical binding]; other site 316385005626 Q-loop/lid; other site 316385005627 ABC transporter signature motif; other site 316385005628 Walker B; other site 316385005629 D-loop; other site 316385005630 H-loop/switch region; other site 316385005631 Rhodanese-related sulfurtransferase [Inorganic ion transport and metabolism]; Region: SseA; COG2897 316385005632 Thiosulfate sulfurtransferase (TST), N-terminal, inactive domain. TST contains 2 copies of the Rhodanese Homology Domain; this is the 1st repeat, which does not contain the catalytically active Cys residue. The role of the 1st repeat is uncertain, but it...; Region: TST_Repeat_1; cd01448 316385005633 active site residue [active] 316385005634 Thiosulfate sulfurtransferase (TST), C-terminal, catalytic domain. TST contains 2 copies of the Rhodanese Homology Domain; this is the second repeat. Only the second repeat contains the catalytically active Cys residue; Region: TST_Repeat_2; cd01449 316385005635 active site residue [active] 316385005636 Phosphatidylglycerophosphate synthase [Lipid metabolism]; Region: PgsA; COG0558 316385005637 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 316385005638 active site 316385005639 8-oxo-dGMP binding site [chemical binding]; other site 316385005640 nudix motif; other site 316385005641 metal binding site [ion binding]; metal-binding site 316385005642 Protein of unknown function (DUF1496); Region: DUF1496; pfam07383 316385005643 glutamate dehydrogenase; Provisional; Region: PRK09414 316385005644 Glu/Leu/Phe/Val dehydrogenase, dimerisation domain; Region: ELFV_dehydrog_N; pfam02812 316385005645 NAD(P) binding domain of glutamate dehydrogenase, subgroup 2; Region: NAD_bind_2_Glu_DH; cd05313 316385005646 NAD(P) binding site [chemical binding]; other site 316385005647 hypothetical protein; Provisional; Region: PRK11380 316385005648 DNA topoisomerase III; Provisional; Region: PRK07726 316385005649 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 316385005650 active site 316385005651 putative interdomain interaction site [polypeptide binding]; other site 316385005652 putative metal-binding site [ion binding]; other site 316385005653 putative nucleotide binding site [chemical binding]; other site 316385005654 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 316385005655 domain I; other site 316385005656 DNA binding groove [nucleotide binding] 316385005657 phosphate binding site [ion binding]; other site 316385005658 domain II; other site 316385005659 domain III; other site 316385005660 nucleotide binding site [chemical binding]; other site 316385005661 catalytic site [active] 316385005662 domain IV; other site 316385005663 selenophosphate synthetase; Provisional; Region: PRK00943 316385005664 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 316385005665 dimerization interface [polypeptide binding]; other site 316385005666 putative ATP binding site [chemical binding]; other site 316385005667 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 316385005668 putative FMN binding site [chemical binding]; other site 316385005669 protease 4; Provisional; Region: PRK10949 316385005670 Signal peptide peptidase A (SppA) 67K type, a serine protease, has catalytic Ser-Lys dyad; Region: S49_SppA_67K_type; cd07018 316385005671 tandem repeat interface [polypeptide binding]; other site 316385005672 oligomer interface [polypeptide binding]; other site 316385005673 active site residues [active] 316385005674 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_SppA_1; cd07019 316385005675 tandem repeat interface [polypeptide binding]; other site 316385005676 oligomer interface [polypeptide binding]; other site 316385005677 active site residues [active] 316385005678 Type I (cytosolic) bacterial L-asparaginase; Region: L-asparaginase_I; cd08963 316385005679 active site 316385005680 homodimer interface [polypeptide binding]; other site 316385005681 Nicotinamidase/pyrazinamidase (PZase). Nicotinamidase, a ubiquitous enzyme in prokaryotes, converts nicotinamide to nicotinic acid (niacin) and ammonia, which in turn can be recycled to make nicotinamide adenine dinucleotide (NAD). The same enzyme is...; Region: nicotinamidase; cd01011 316385005682 Isochorismatase family; Region: Isochorismatase; pfam00857 316385005683 catalytic triad [active] 316385005684 metal binding site [ion binding]; metal-binding site 316385005685 conserved cis-peptide bond; other site 316385005686 Sugar (and other) transporter; Region: Sugar_tr; pfam00083 316385005687 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 316385005688 putative substrate translocation pore; other site 316385005689 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 316385005690 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 316385005691 helix_turn_helix, Deoxyribose operon repressor; Region: HTH_DEOR; smart00420 316385005692 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 316385005693 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 316385005694 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 316385005695 active site 316385005696 catalytic tetrad [active] 316385005697 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 316385005698 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 316385005699 substrate binding site [chemical binding]; other site 316385005700 ATP binding site [chemical binding]; other site 316385005701 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 316385005702 Sorbitol dehydrogenase; Region: sorbitol_DH; cd05285 316385005703 inhibitor binding site; inhibition site 316385005704 catalytic Zn binding site [ion binding]; other site 316385005705 structural Zn binding site [ion binding]; other site 316385005706 NADP binding site [chemical binding]; other site 316385005707 tetramer interface [polypeptide binding]; other site 316385005708 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 316385005709 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 316385005710 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 316385005711 Alcohol dehydrogenases of the MDR family; Region: Zn_ADH4; cd08258 316385005712 putative NAD(P) binding site [chemical binding]; other site 316385005713 catalytic Zn binding site [ion binding]; other site 316385005714 structural Zn binding site [ion binding]; other site 316385005715 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3139 316385005716 methionine sulfoxide reductase B; Provisional; Region: PRK00222 316385005717 SelR domain; Region: SelR; pfam01641 316385005718 glyceraldehyde-3-phosphate dehydrogenase A; Provisional; Region: gapA; PRK15425 316385005719 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; smart00846 316385005720 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 316385005721 D-hexose-6-phosphate epimerase-like; Region: D-hex-6-P-epi_like; cd09020 316385005722 active site 316385005723 phosphate binding residues; other site 316385005724 catalytic residues [active] 316385005725 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 316385005726 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 316385005727 active site 316385005728 catalytic tetrad [active] 316385005729 Outer membrane protein V [Cell envelope biogenesis, outer membrane]; Region: OmpV; COG3713 316385005730 PrkA family serine protein kinase; Provisional; Region: PRK15455 316385005731 AAA ATPase domain; Region: AAA_16; pfam13191 316385005732 PrkA serine protein kinase C-terminal domain; Region: PrkA; pfam06798 316385005733 hypothetical protein; Provisional; Region: PRK05325 316385005734 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 316385005735 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 316385005736 metal binding site [ion binding]; metal-binding site 316385005737 active site 316385005738 I-site; other site 316385005739 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 316385005740 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 316385005741 metal binding site [ion binding]; metal-binding site 316385005742 active site 316385005743 I-site; other site 316385005744 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 316385005745 putative deacylase active site [active] 316385005746 Predicted membrane protein [Function unknown]; Region: COG2707 316385005747 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 316385005748 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 316385005749 cyanate transporter; Region: CynX; TIGR00896 316385005750 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 316385005751 Uncharacterized conserved protein [Function unknown]; Region: COG3189 316385005752 Putative hemolysin [General function prediction only]; Region: Hlx; COG3042 316385005753 Prokaryotic membrane lipoprotein lipid attachment site; Region: LPAM_1; pfam08139 316385005754 Domain of unknown function (DUF333); Region: DUF333; pfam03891 316385005755 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 316385005756 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 316385005757 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 316385005758 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 316385005759 metal binding site [ion binding]; metal-binding site 316385005760 active site 316385005761 I-site; other site 316385005762 hypothetical protein; Provisional; Region: PRK10457 316385005763 Domain of unknown function (DUF1869); Region: DUF1869; pfam08956 316385005764 Uncharacterized protein/domain, possibly involved in tellurite resistance [Inorganic ion transport and metabolism]; Region: TehB; COG3615 316385005765 leucine export protein LeuE; Provisional; Region: PRK10958 316385005766 transcriptional activator TtdR; Provisional; Region: PRK09801 316385005767 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 316385005768 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_9; cd08479 316385005769 putative effector binding pocket; other site 316385005770 putative dimerization interface [polypeptide binding]; other site 316385005771 Isocitrate/isopropylmalate dehydrogenase [Amino acid transport and metabolism]; Region: LeuB; COG0473 316385005772 tartrate dehydrogenase; Region: TTC; TIGR02089 316385005773 putative transporter; Provisional; Region: PRK09950 316385005774 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 316385005775 Rieske non-heme iron oxygenase (RO) family, N-terminal Rieske domain of the oxygenase alpha subunit; The RO family comprise a large class of aromatic ring-hydroxylating dioxygenases found predominantly in microorganisms. These enzymes enable...; Region: Rieske_RO_Alpha_N; cd03469 316385005776 [2Fe-2S] cluster binding site [ion binding]; other site 316385005777 C-terminal catalytic domain of the oxygenase alpha subunit of an uncharacterized subgroup of Rieske-type non-heme iron aromatic ring-hydroxylating oxygenases; Region: RHO_alpha_C_2; cd08886 316385005778 putative alpha subunit interface [polypeptide binding]; other site 316385005779 putative active site [active] 316385005780 putative substrate binding site [chemical binding]; other site 316385005781 Fe binding site [ion binding]; other site 316385005782 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 316385005783 Phthalate dioxygenase reductase (PDR) is an FMN-dependent reductase that mediates electron transfer from NADH to FMN to an iron sulfur cluster. PDR has an an N-terminal ferrredoxin reductase (FNR)-like NAD(H) binding domain and a C-terminal iron-sulfur; Region: PDR_like; cd06185 316385005784 FMN-binding pocket [chemical binding]; other site 316385005785 flavin binding motif; other site 316385005786 phosphate binding motif [ion binding]; other site 316385005787 beta-alpha-beta structure motif; other site 316385005788 NAD binding pocket [chemical binding]; other site 316385005789 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 316385005790 catalytic loop [active] 316385005791 iron binding site [ion binding]; other site 316385005792 ribonuclease D; Provisional; Region: PRK10829 316385005793 DEDDy 3'-5' exonuclease domain of Ribonuclease D and similar proteins; Region: RNaseD_exo; cd06142 316385005794 catalytic site [active] 316385005795 putative active site [active] 316385005796 putative substrate binding site [chemical binding]; other site 316385005797 Helicase and RNase D C-terminal; Region: HRDC; smart00341 316385005798 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK08974 316385005799 Prokaryotic long-chain fatty acid CoA synthetases similar to Escherichia coli FadD; Region: FC-FACS_FadD_like; cd05936 316385005800 acyl-activating enzyme (AAE) consensus motif; other site 316385005801 putative AMP binding site [chemical binding]; other site 316385005802 putative active site [active] 316385005803 putative CoA binding site [chemical binding]; other site 316385005804 outer membrane lipoprotein, Slp family; Region: slp; TIGR00752 316385005805 Inactive homolog of metal-dependent proteases, putative molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: COG1214 316385005806 Glycoprotease family; Region: Peptidase_M22; pfam00814 316385005807 Rad3-related DNA helicases [Transcription / DNA replication, recombination, and repair]; Region: DinG; COG1199 316385005808 DEAD/DEAH box helicase; Region: DEAD; pfam00270 316385005809 DEAD_2; Region: DEAD_2; pfam06733 316385005810 Helicase C-terminal domain; Region: Helicase_C_2; pfam13307 316385005811 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 316385005812 homotrimer interaction site [polypeptide binding]; other site 316385005813 putative active site [active] 316385005814 Domain of unknown function (DUF1889); Region: DUF1889; pfam08986 316385005815 hypothetical protein; Provisional; Region: PRK05114 316385005816 Coenzyme A pyrophosphatase (CoAse), a member of the Nudix hydrolase superfamily, functions to catalyze the elimination of oxidized inactive CoA, which can inhibit CoA-utilizing enzymes. The need of CoAses mainly arises under conditions of oxidative...; Region: CoAse; cd03426 316385005817 putative active site [active] 316385005818 putative CoA binding site [chemical binding]; other site 316385005819 nudix motif; other site 316385005820 metal binding site [ion binding]; metal-binding site 316385005821 L-serine deaminase; Provisional; Region: PRK15023 316385005822 Serine dehydratase beta chain; Region: SDH_beta; pfam03315 316385005823 Serine dehydratase alpha chain; Region: SDH_alpha; pfam03313 316385005824 phage resistance protein; Provisional; Region: PRK10551 316385005825 CSS motif domain associated with EAL; Region: CSS-motif; pfam12792 316385005826 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 316385005827 Membrane protein TerC, possibly involved in tellurium resistance [Inorganic ion transport and metabolism]; Region: TerC; COG0861 316385005828 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 316385005829 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 316385005830 Transporter associated domain; Region: CorC_HlyC; smart01091 316385005831 PTS system mannose-specific transporter subunits IIAB; Provisional; Region: PRK15088 316385005832 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 316385005833 active pocket/dimerization site; other site 316385005834 active site 316385005835 phosphorylation site [posttranslational modification] 316385005836 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 316385005837 active site 316385005838 phosphorylation site [posttranslational modification] 316385005839 PTS system mannose-specific transporter subunit IIC; Provisional; Region: PRK15065 316385005840 PTS system mannose-specific transporter subunit IID; Provisional; Region: PRK11103 316385005841 Predicted membrane protein [Function unknown]; Region: COG4811 316385005842 hypothetical protein; Provisional; Region: PRK11469 316385005843 Domain of unknown function DUF; Region: DUF204; pfam02659 316385005844 Domain of unknown function DUF; Region: DUF204; pfam02659 316385005845 23S rRNA methyltransferase A; Provisional; Region: rrmA; PRK11088 316385005846 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 316385005847 S-adenosylmethionine binding site [chemical binding]; other site 316385005848 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 316385005849 DNA-binding site [nucleotide binding]; DNA binding site 316385005850 RNA-binding motif; other site 316385005851 Protein of unknown function (DUF2627); Region: DUF2527; pfam10736 316385005852 YebO-like protein; Region: YebO; pfam13974 316385005853 PhoPQ regulatory protein; Provisional; Region: PRK10299 316385005854 YobH-like protein; Region: YobH; pfam13996 316385005855 DNA-binding transcriptional regulator KdgR; Provisional; Region: PRK15090 316385005856 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 316385005857 dimerization interface [polypeptide binding]; other site 316385005858 putative Zn2+ binding site [ion binding]; other site 316385005859 putative DNA binding site [nucleotide binding]; other site 316385005860 Bacterial transcriptional regulator; Region: IclR; pfam01614 316385005861 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 316385005862 Major Facilitator Superfamily; Region: MFS_1; pfam07690 316385005863 putative substrate translocation pore; other site 316385005864 Predicted integral membrane protein [Function unknown]; Region: COG5521 316385005865 heat shock protein HtpX; Provisional; Region: PRK05457 316385005866 carboxy-terminal protease; Provisional; Region: PRK11186 316385005867 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 316385005868 protein binding site [polypeptide binding]; other site 316385005869 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 316385005870 Catalytic dyad [active] 316385005871 C-terminal domain of tail specific protease (DUF3340); Region: DUF3340; pfam11818 316385005872 ProP expression regulator; Provisional; Region: PRK04950 316385005873 ProQ/FINO family; Region: ProQ; pfam04352 316385005874 GAF domain-containing protein [Signal transduction mechanisms]; Region: COG1956 316385005875 GAF domain; Region: GAF_2; pfam13185 316385005876 integral membrane protein, PqiA family; Region: pqiA_fam; TIGR00155 316385005877 Paraquat-inducible protein A; Region: PqiA; pfam04403 316385005878 Paraquat-inducible protein A; Region: PqiA; pfam04403 316385005879 Paraquat-inducible protein B [General function prediction only]; Region: PqiB; COG3008 316385005880 mce related protein; Region: MCE; pfam02470 316385005881 mce related protein; Region: MCE; pfam02470 316385005882 mce related protein; Region: MCE; pfam02470 316385005883 mce related protein; Region: MCE; pfam02470 316385005884 mce related protein; Region: MCE; pfam02470 316385005885 rRNA (cytosine-C(5)-)-methyltransferase RsmF; Reviewed; Region: yebU; PRK11933 316385005886 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 316385005887 S-adenosylmethionine binding site [chemical binding]; other site 316385005888 pre-rRNA processing and ribosome biogenesis; Region: Nol1_Nop2_Fmu_2; pfam13636 316385005889 Protein of unknown function (DUF1480); Region: DUF1480; pfam07351 316385005890 Protein of unknown function (DUF1482); Region: DUF1482; pfam07358 316385005891 serine/threonine protein phosphatase 1; Provisional; Region: pphA; PRK11439 316385005892 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 316385005893 Protein of unknown function (DUF2511); Region: DUF2511; pfam10709 316385005894 Putative copper export protein [Inorganic ion transport and metabolism]; Region: PcoD; COG1276 316385005895 hypothetical protein; Provisional; Region: PRK10301 316385005896 DNA polymerase III subunit theta; Reviewed; Region: PRK10969 316385005897 Predicted amidohydrolase [General function prediction only]; Region: COG0388 316385005898 Carbon-nitrogen hydrolase; Region: CN_hydrolase; pfam00795 316385005899 exodeoxyribonuclease X; Provisional; Region: PRK07983 316385005900 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 316385005901 active site 316385005902 catalytic site [active] 316385005903 substrate binding site [chemical binding]; other site 316385005904 protease 2; Provisional; Region: PRK10115 316385005905 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 316385005906 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2979 316385005907 tellurium resistance terB-like protein, subgroup 3; Region: terB_like_YebE; cd07178 316385005908 putative metal binding site [ion binding]; other site 316385005909 hypothetical protein; Provisional; Region: PRK13680 316385005910 DNA damage-inducible protein YebG; Provisional; Region: PRK10061 316385005911 phosphoribosylglycinamide formyltransferase 2; Validated; Region: purT; PRK09288 316385005912 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 316385005913 ATP-grasp domain; Region: ATP-grasp; pfam02222 316385005914 keto-hydroxyglutarate-aldolase/keto-deoxy- phosphogluconate aldolase; Provisional; Region: PRK05718 316385005915 KDPG and KHG aldolase; Region: KDPG_aldolase; cd00452 316385005916 active site 316385005917 intersubunit interface [polypeptide binding]; other site 316385005918 catalytic residue [active] 316385005919 phosphogluconate dehydratase; Validated; Region: PRK09054 316385005920 6-phosphogluconate dehydratase; Region: edd; TIGR01196 316385005921 glucose-6-phosphate 1-dehydrogenase; Validated; Region: PRK05722 316385005922 Glucose-6-phosphate dehydrogenase, NAD binding domain; Region: G6PD_N; pfam00479 316385005923 Glucose-6-phosphate dehydrogenase, C-terminal domain; Region: G6PD_C; pfam02781 316385005924 DNA-binding transcriptional regulator HexR; Provisional; Region: PRK11302 316385005925 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 316385005926 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 316385005927 putative active site [active] 316385005928 pyruvate kinase; Provisional; Region: PRK05826 316385005929 Pyruvate kinase (PK): Large allosteric enzyme that regulates glycolysis through binding of the substrate, phosphoenolpyruvate, and one or more allosteric effectors. Like other allosteric enzymes, PK has a high substrate affinity R state and a low...; Region: Pyruvate_Kinase; cd00288 316385005930 domain interfaces; other site 316385005931 active site 316385005932 Bacterial lipid A biosynthesis acyltransferase; Region: Lip_A_acyltrans; pfam03279 316385005933 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 316385005934 putative acyl-acceptor binding pocket; other site 316385005935 putative peptidase; Provisional; Region: PRK11649 316385005936 Opacity-associated protein A N-terminal motif; Region: OapA_N; pfam08525 316385005937 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 316385005938 Peptidase family M23; Region: Peptidase_M23; pfam01551 316385005939 high-affinity zinc transporter periplasmic component; Reviewed; Region: znuA; PRK09545 316385005940 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 316385005941 metal binding site [ion binding]; metal-binding site 316385005942 high-affinity zinc transporter ATPase; Reviewed; Region: znuC; PRK09544 316385005943 ATP-binding cassette domain of the metal-type transporters; Region: ABC_Metallic_Cations; cd03235 316385005944 ABC-type Mn2+/Zn2+ transport systems, permease components [Inorganic ion transport and metabolism]; Region: ZnuB; COG1108 316385005945 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 316385005946 ABC-ATPase subunit interface; other site 316385005947 dimer interface [polypeptide binding]; other site 316385005948 putative PBP binding regions; other site 316385005949 Holliday junction DNA helicase RuvB; Reviewed; Region: ruvB; PRK00080 316385005950 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 316385005951 Walker A motif; other site 316385005952 ATP binding site [chemical binding]; other site 316385005953 Walker B motif; other site 316385005954 arginine finger; other site 316385005955 Holliday junction DNA helicase ruvB C-terminus; Region: RuvB_C; pfam05491 316385005956 Holliday junction DNA helicase RuvA; Reviewed; Region: ruvA; PRK00116 316385005957 RuvA N terminal domain; Region: RuvA_N; pfam01330 316385005958 RuvA, C-terminal domain; Region: RuvA_C; pfam07499 316385005959 hypothetical protein; Provisional; Region: PRK11470 316385005960 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 316385005961 active site 316385005962 putative DNA-binding cleft [nucleotide binding]; other site 316385005963 dimer interface [polypeptide binding]; other site 316385005964 hypothetical protein; Validated; Region: PRK00110 316385005965 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 316385005966 nudix motif; other site 316385005967 aspartyl-tRNA synthetase; Validated; Region: aspS; PRK00476 316385005968 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 316385005969 dimer interface [polypeptide binding]; other site 316385005970 anticodon binding site; other site 316385005971 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 316385005972 homodimer interface [polypeptide binding]; other site 316385005973 motif 1; other site 316385005974 active site 316385005975 motif 2; other site 316385005976 GAD domain; Region: GAD; pfam02938 316385005977 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 316385005978 motif 3; other site 316385005979 Isochorismatase family; Region: Isochorismatase; pfam00857 316385005980 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 316385005981 catalytic triad [active] 316385005982 conserved cis-peptide bond; other site 316385005983 hypothetical protein; Provisional; Region: PRK10302 316385005984 Uncharacterized relative of glutathione S-transferase, MAPEG superfamily [General function prediction only]; Region: COG3788 316385005985 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 316385005986 S-adenosylmethionine binding site [chemical binding]; other site 316385005987 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 316385005988 S-adenosylmethionine binding site [chemical binding]; other site 316385005989 Tat (twin-arginine translocation) pathway signal sequence; Region: TAT_signal_seq; TIGR01409 316385005990 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 316385005991 molybdopterin guanine dinucleotide-containing S/N-oxide reductases; Region: bisC_fam; TIGR00509 316385005992 molybdopterin cofactor binding site [chemical binding]; other site 316385005993 substrate binding site [chemical binding]; other site 316385005994 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 316385005995 molybdopterin cofactor binding site; other site 316385005996 trimethylamine-N-oxide reductase c-type cytochrome TorC; Region: torC; TIGR02162 316385005997 cytochrome c-type protein NapC; Provisional; Region: PRK10617; cl17554 316385005998 copper homeostasis protein CutC; Provisional; Region: PRK11572 316385005999 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 316385006000 putative metal binding site [ion binding]; other site 316385006001 Arginyl tRNA synthetase N terminal dom; Region: Arg_tRNA_synt_N; smart01016 316385006002 arginyl-tRNA synthetase; Region: argS; TIGR00456 316385006003 catalytic core domain of arginyl-tRNA synthetases; Region: ArgRS_core; cd00671 316385006004 active site 316385006005 HIGH motif; other site 316385006006 KMSK motif region; other site 316385006007 Anticodon-binding domain of arginyl tRNA synthetases; Region: Anticodon_Ia_Arg; cd07956 316385006008 tRNA binding surface [nucleotide binding]; other site 316385006009 anticodon binding site; other site 316385006010 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3755 316385006011 Flagellar protein FlhE; Region: FlhE; pfam06366 316385006012 flagellar biosynthesis protein FlhA; Validated; Region: flhA; PRK06012 316385006013 FHIPEP family; Region: FHIPEP; pfam00771 316385006014 flagellar biosynthesis protein FlhB; Reviewed; Region: flhB; PRK05702 316385006015 Uncharacterized homolog of the cytoplasmic domain of flagellar protein FhlB [Function unknown]; Region: COG2257 316385006016 chemotaxis regulator CheZ; Provisional; Region: PRK11166 316385006017 chemotaxis regulatory protein CheY; Provisional; Region: PRK10610 316385006018 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 316385006019 active site 316385006020 phosphorylation site [posttranslational modification] 316385006021 intermolecular recognition site; other site 316385006022 dimerization interface [polypeptide binding]; other site 316385006023 chemotaxis-specific methylesterase; Provisional; Region: PRK00742 316385006024 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 316385006025 active site 316385006026 phosphorylation site [posttranslational modification] 316385006027 intermolecular recognition site; other site 316385006028 dimerization interface [polypeptide binding]; other site 316385006029 CheB methylesterase; Region: CheB_methylest; pfam01339 316385006030 chemotaxis methyltransferase CheR; Provisional; Region: PRK10611 316385006031 CheR methyltransferase, all-alpha domain; Region: CheR_N; pfam03705 316385006032 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 316385006033 S-adenosylmethionine binding site [chemical binding]; other site 316385006034 methyl-accepting protein IV; Provisional; Region: PRK09793 316385006035 ligand binding domain of Tar- and Tsr-related chemoreceptors; Region: Tar_Tsr_LBD; cd00181 316385006036 dimer interface [polypeptide binding]; other site 316385006037 ligand binding site [chemical binding]; other site 316385006038 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 316385006039 dimerization interface [polypeptide binding]; other site 316385006040 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 316385006041 dimer interface [polypeptide binding]; other site 316385006042 putative CheW interface [polypeptide binding]; other site 316385006043 methyl-accepting chemotaxis protein II; Provisional; Region: PRK15048 316385006044 ligand binding domain of Tar- and Tsr-related chemoreceptors; Region: Tar_Tsr_LBD; cd00181 316385006045 dimer interface [polypeptide binding]; other site 316385006046 ligand binding site [chemical binding]; other site 316385006047 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 316385006048 dimerization interface [polypeptide binding]; other site 316385006049 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 316385006050 dimer interface [polypeptide binding]; other site 316385006051 putative CheW interface [polypeptide binding]; other site 316385006052 CheW, a small regulator protein, unique to the chemotaxis signalling in prokaryotes and archea. CheW interacts with the histidine kinase CheA, most likely with the related regulatory domain of CheA. CheW is proposed to form signalling arrays together...; Region: CheW; cd00732 316385006053 putative CheA interaction surface; other site 316385006054 flagellar motor protein MotB; Validated; Region: motB; PRK09041 316385006055 Membrane MotB of proton-channel complex MotA/MotB; Region: MotB_plug; pfam13677 316385006056 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 316385006057 ligand binding site [chemical binding]; other site 316385006058 Flagellar motor component [Cell motility and secretion]; Region: MotA; COG1291 316385006059 flagellar motor protein MotA; Validated; Region: PRK09110 316385006060 transcriptional activator FlhD; Provisional; Region: PRK02909 316385006061 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 316385006062 Ligand Binding Site [chemical binding]; other site 316385006063 alpha,alpha-trehalose-phosphate synthase [UDP-forming]; Region: trehalose_OtsA; TIGR02400 316385006064 Trehalose-6-Phosphate Synthase (TPS) is a glycosyltransferase that catalyses the synthesis of alpha,alpha-1,1-trehalose-6-phosphate from glucose-6-phosphate using a UDP-glucose donor. It is a key enzyme in the trehalose synthesis pathway. Trehalose is a...; Region: GT1_TPS; cd03788 316385006065 active site 316385006066 homotetramer interface [polypeptide binding]; other site 316385006067 trehalose-6-phosphate phosphatase; Provisional; Region: PRK10187 316385006068 Trehalose-6-phosphatase [Carbohydrate transport and metabolism]; Region: OtsB; COG1877 316385006069 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 316385006070 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 316385006071 TM-ABC transporter signature motif; other site 316385006072 L-arabinose transporter ATP-binding protein; Provisional; Region: araG; PRK11288 316385006073 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 316385006074 Walker A/P-loop; other site 316385006075 ATP binding site [chemical binding]; other site 316385006076 Q-loop/lid; other site 316385006077 ABC transporter signature motif; other site 316385006078 Walker B; other site 316385006079 D-loop; other site 316385006080 H-loop/switch region; other site 316385006081 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 316385006082 Periplasmic binding proteins and sugar binding domain of LacI family; Region: Peripla_BP_1; pfam00532 316385006083 Periplasmic L-arabinose-binding protein (ABP), a member of a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein superfamily; Region: PBP1_arabinose_binding; cd01540 316385006084 ligand binding site [chemical binding]; other site 316385006085 nonheme-containing ferritins; Region: Nonheme_Ferritin; cd01055 316385006086 Ferritin-like domain; Region: Ferritin; pfam00210 316385006087 ferroxidase diiron center [ion binding]; other site 316385006088 Protein of unknown function (DUF2766); Region: DUF2766; pfam10964 316385006089 YecR-like lipoprotein; Region: YecR; pfam13992 316385006090 nonheme-containing ferritins; Region: Nonheme_Ferritin; cd01055 316385006091 Ferritin-like domain; Region: Ferritin; pfam00210 316385006092 ferroxidase diiron center [ion binding]; other site 316385006093 probable metal-binding protein; Region: matur_matur; TIGR03853 316385006094 tyrosine transporter TyrP; Provisional; Region: PRK15132 316385006095 aromatic amino acid transport protein; Region: araaP; TIGR00837 316385006096 hypothetical protein; Provisional; Region: PRK10396 316385006097 yecA family protein; Region: ygfB_yecA; TIGR02292 316385006098 SEC-C motif; Region: SEC-C; pfam02810 316385006099 phosphatidylglycerophosphate synthetase; Provisional; Region: PRK10832 316385006100 excinuclease ABC subunit C; Validated; Region: uvrC; PRK00558 316385006101 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 316385006102 GIY-YIG motif/motif A; other site 316385006103 active site 316385006104 catalytic site [active] 316385006105 putative DNA binding site [nucleotide binding]; other site 316385006106 metal binding site [ion binding]; metal-binding site 316385006107 UvrB/uvrC motif; Region: UVR; pfam02151 316385006108 UvrC Helix-hairpin-helix N-terminal; Region: UvrC_HhH_N; pfam08459 316385006109 Helix-hairpin-helix motif; Region: HHH; pfam00633 316385006110 response regulator; Provisional; Region: PRK09483 316385006111 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 316385006112 active site 316385006113 phosphorylation site [posttranslational modification] 316385006114 intermolecular recognition site; other site 316385006115 dimerization interface [polypeptide binding]; other site 316385006116 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 316385006117 DNA binding residues [nucleotide binding] 316385006118 dimerization interface [polypeptide binding]; other site 316385006119 hypothetical protein; Provisional; Region: PRK10613 316385006120 DNA-binding transcriptional activator SdiA; Provisional; Region: PRK10188 316385006121 Autoinducer binding domain; Region: Autoind_bind; pfam03472 316385006122 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 316385006123 DNA binding residues [nucleotide binding] 316385006124 dimerization interface [polypeptide binding]; other site 316385006125 putative amino-acid ABC transporter ATP-binding protein YecC; Provisional; Region: PRK11264 316385006126 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 316385006127 Walker A/P-loop; other site 316385006128 ATP binding site [chemical binding]; other site 316385006129 Q-loop/lid; other site 316385006130 ABC transporter signature motif; other site 316385006131 Walker B; other site 316385006132 D-loop; other site 316385006133 H-loop/switch region; other site 316385006134 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 316385006135 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 316385006136 dimer interface [polypeptide binding]; other site 316385006137 conserved gate region; other site 316385006138 putative PBP binding loops; other site 316385006139 ABC-ATPase subunit interface; other site 316385006140 D-cysteine desulfhydrase; Validated; Region: PRK03910 316385006141 Aminocyclopropane-1-carboxylate deaminase (ACCD): Pyridoxal phosphate (PLP)-dependent enzyme which catalyzes the conversion of 1-aminocyclopropane-L-carboxylate (ACC), a precursor of the plant hormone ethylene, to alpha-ketobutyrate and ammonia; Region: ACCD; cd06449 316385006142 pyridoxal 5'-phosphate binding site [chemical binding]; other site 316385006143 catalytic residue [active] 316385006144 cystine transporter subunit; Provisional; Region: PRK11260 316385006145 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 316385006146 substrate binding pocket [chemical binding]; other site 316385006147 membrane-bound complex binding site; other site 316385006148 hinge residues; other site 316385006149 flagella biosynthesis protein FliZ; Provisional; Region: PRK11582 316385006150 flagellar biosynthesis sigma factor; Validated; Region: fliA; PRK06986 316385006151 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 316385006152 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 316385006153 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 316385006154 DNA binding residues [nucleotide binding] 316385006155 flagellar capping protein; Reviewed; Region: fliD; PRK08032 316385006156 Flagellar hook-associated protein 2 C-terminus; Region: FliD_N; pfam02465 316385006157 Flagellar hook-associated protein 2 C-terminus; Region: FliD_C; pfam07195 316385006158 flagellar biosynthetic protein FliS; Region: fliS; TIGR00208 316385006159 flagellar biosynthesis protein FliT; Provisional; Region: PRK10548 316385006160 cytoplasmic alpha-amylase; Reviewed; Region: PRK09441 316385006161 Alpha amylase catalytic domain found in bacterial and fungal Alpha amylases (also called 1,4-alpha-D-glucan-4-glucanohydrolase); Region: AmyAc_bac_fung_AmyA; cd11318 316385006162 active site 316385006163 Na/Ca binding site [ion binding]; other site 316385006164 catalytic site [active] 316385006165 lipoprotein; Provisional; Region: PRK10397 316385006166 putative inner membrane protein; Provisional; Region: PRK11099 316385006167 YedF is a bacterial SirA-like protein of unknown function. SirA (also known as UvrY, and YhhP) belongs to a family of a two-component response regulators that controls secondary metabolism and virulence. The other member of this two-component system...; Region: YedF; cd03422 316385006168 CPxP motif; other site 316385006169 hypothetical protein; Provisional; Region: PRK09951 316385006170 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 316385006171 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 316385006172 Coenzyme A binding pocket [chemical binding]; other site 316385006173 predicted defective phage integrase (pseudogene) 316385006174 flagellar hook-basal body protein FliE; Reviewed; Region: fliE; PRK00253 316385006175 flagellar basal-body M-ring protein/flagellar hook-basal body protein (fliF); Region: fliF; TIGR00206 316385006176 Secretory protein of YscJ/FliF family; Region: YscJ_FliF; pfam01514 316385006177 Flagellar M-ring protein C-terminal; Region: YscJ_FliF_C; pfam08345 316385006178 flagellar motor switch protein FliG; Region: fliG; TIGR00207 316385006179 FliG C-terminal domain; Region: FliG_C; pfam01706 316385006180 flagellar assembly protein H; Validated; Region: fliH; PRK05687 316385006181 Essential protein Yae1, N terminal; Region: Yae1_N; pfam09811 316385006182 Flagellar assembly protein FliH; Region: FliH; pfam02108 316385006183 flagellum-specific ATP synthase; Validated; Region: fliI; PRK07960 316385006184 Flagellum-specific ATPase/type III secretory pathway virulence-related protein. This group of ATPases are responsible for the export of flagellum and virulence-related proteins. The bacterial flagellar motor is similar to the F0F1-ATPase, in that they...; Region: ATPase_flagellum-secretory_path_III; cd01136 316385006185 Walker A motif/ATP binding site; other site 316385006186 Walker B motif; other site 316385006187 Flagellar biosynthesis chaperone [Cell motility and secretion / Intracellular trafficking and secretion / Posttranslational modification, protein turnover, chaperones]; Region: FliJ; COG2882 316385006188 flagellar biosynthesis chaperone; Validated; Region: fliJ; PRK05689 316385006189 Flagellar hook-length control protein [Cell motility and secretion]; Region: FliK; COG3144 316385006190 flagellar hook-length control protein; Provisional; Region: PRK10118 316385006191 flagellar basal body-associated protein FliL; Reviewed; Region: fliL; PRK07021 316385006192 flagellar motor switch protein FliM; Validated; Region: fliM; PRK06666 316385006193 Surface presentation of antigens (SPOA); Region: SpoA; pfam01052 316385006194 flagellar motor switch protein FliN; Validated; Region: fliN; PRK07963 316385006195 flagellar motor switch protein; Validated; Region: fliN; PRK05698 316385006196 flagellar biosynthesis protein FliO; Provisional; Region: PRK11486 316385006197 flagellar biosynthesis protein FliP; Reviewed; Region: fliP; PRK05699 316385006198 flagellar biosynthesis protein FliQ; Validated; Region: fliQ; PRK05700 316385006199 flagellar biosynthesis protein FliR; Reviewed; Region: fliR; PRK05701 316385006200 colanic acid capsular biosynthesis activation protein A; Provisional; Region: rcsA; PRK15411 316385006201 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 316385006202 DNA binding residues [nucleotide binding] 316385006203 dimerization interface [polypeptide binding]; other site 316385006204 hypothetical protein; Provisional; Region: PRK10708 316385006205 Protein of unknown function (DUF2525); Region: DUF2525; pfam10733 316385006206 mannosyl-3-phosphoglycerate phosphatase; Reviewed; Region: PRK03669 316385006207 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 316385006208 active site 316385006209 motif I; other site 316385006210 motif II; other site 316385006211 putative diguanylate cyclase YedQ; Provisional; Region: PRK15426 316385006212 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 316385006213 metal binding site [ion binding]; metal-binding site 316385006214 active site 316385006215 I-site; other site 316385006216 Uncharacterized small protein [Function unknown]; Region: COG5475 316385006217 hypothetical protein; Provisional; Region: PRK10062 316385006218 putative DMT superfamily transporter inner membrane protein; Provisional; Region: PRK11272 316385006219 EamA-like transporter family; Region: EamA; pfam00892 316385006220 Very Short Patch Repair (Vsr) Endonuclease. Endonucleases in DNA repair that recognize damaged DNA and cleave the phosphodiester backbone. Vsr endonucleases have a common endonuclease topology that has been tailored for recognition of TG mismatches; Region: Vsr; cd00221 316385006221 additional DNA contacts [nucleotide binding]; other site 316385006222 mismatch recognition site; other site 316385006223 active site 316385006224 zinc binding site [ion binding]; other site 316385006225 DNA intercalation site [nucleotide binding]; other site 316385006226 DNA cytosine methylase; Provisional; Region: PRK10458 316385006227 Cytosine-C5 specific DNA methylases; Methyl transfer reactions play an important role in many aspects of biology. Cytosine-specific DNA methylases are found both in prokaryotes and eukaryotes. DNA methylation, or the covalent addition of a methyl group...; Region: Cyt_C5_DNA_methylase; cd00315 316385006228 cofactor binding site; other site 316385006229 DNA binding site [nucleotide binding] 316385006230 substrate interaction site [chemical binding]; other site 316385006231 Predicted HD superfamily hydrolase [General function prediction only]; Region: COG1418 316385006232 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 316385006233 Zn2+ binding site [ion binding]; other site 316385006234 Mg2+ binding site [ion binding]; other site 316385006235 Dna-J like membrane chaperone protein; Provisional; Region: djlA; PRK09430 316385006236 chaperone protein HchA; Provisional; Region: PRK04155 316385006237 Type 1 glutamine amidotransferase (GATase1)-like domain found in Escherichia coli Hsp31 protein (EcHsp31); Region: GATase1_EcHsp31_like; cd03148 316385006238 dimer interface [polypeptide binding]; other site 316385006239 metal binding site [ion binding]; metal-binding site 316385006240 potential oxyanion hole; other site 316385006241 potential catalytic triad [active] 316385006242 conserved cys residue [active] 316385006243 heavy metal sensor kinase; Region: cztS_silS_copS; TIGR01386 316385006244 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 316385006245 dimer interface [polypeptide binding]; other site 316385006246 phosphorylation site [posttranslational modification] 316385006247 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 316385006248 ATP binding site [chemical binding]; other site 316385006249 Mg2+ binding site [ion binding]; other site 316385006250 G-X-G motif; other site 316385006251 transcriptional regulatory protein YedW; Provisional; Region: PRK11517 316385006252 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 316385006253 active site 316385006254 phosphorylation site [posttranslational modification] 316385006255 intermolecular recognition site; other site 316385006256 dimerization interface [polypeptide binding]; other site 316385006257 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 316385006258 DNA binding site [nucleotide binding] 316385006259 HIUase (5-hydroxyisourate hydrolase) catalyzes the second step in a three-step ureide pathway in which 5-hydroxyisourate (HIU), a product of the uricase (urate oxidase) reaction, is hydrolyzed to 2-oxo-4-hydroxy-4-carboxy-5-ureidoimidazoline (OHCU); Region: TLP_HIUase; cd05822 316385006260 active site 316385006261 homotetramer interface [polypeptide binding]; other site 316385006262 putative sulfite oxidase subunit YedZ; Reviewed; Region: PRK05419 316385006263 zinc/cadmium-binding protein; Provisional; Region: PRK10306 316385006264 Cytochrome B561 [Energy production and conversion]; Region: CybB; COG3038 316385006265 DgsA anti-repressor MtfA; Provisional; Region: PRK15410 316385006266 putative invasin; Provisional; Region: PRK10177 316385006267 Protein of unknown function (DUF3442); Region: DUF3442; pfam11924 316385006268 Bacterial Ig-like domain (group 1); Region: BID_1; smart00634 316385006269 Bacterial Ig-like domain (group 1); Region: BID_1; smart00634 316385006270 Bacterial Ig-like domain (group 1); Region: Big_1; pfam02369 316385006271 Bacterial Ig-like domain (group 1); Region: BID_1; smart00634 316385006272 Bacterial Ig-like domain (group 1); Region: BID_1; smart00634 316385006273 Bacterial Ig-like domain (group 1); Region: Big_1; pfam02369 316385006274 Bacterial Ig-like domain (group 1); Region: Big_1; pfam02369 316385006275 Bacterial Ig-like domain (group 1); Region: Big_1; pfam02369 316385006276 Bacterial Ig-like domain (group 1); Region: BID_1; smart00634 316385006277 Bacterial Ig-like domain (group 1); Region: Big_1; pfam02369 316385006278 Bacterial Ig-like domain (group 1); Region: Big_1; pfam02369 316385006279 Bacterial Ig-like domain (group 1); Region: Big_1; pfam02369 316385006280 Bacterial Ig-like domain (group 1); Region: BID_1; smart00634 316385006281 shikimate transporter; Provisional; Region: PRK09952 316385006282 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 316385006283 putative substrate translocation pore; other site 316385006284 AMP nucleosidase; Provisional; Region: PRK08292 316385006285 Bacterial AMP nucleoside phosphorylase N-terminus; Region: AMNp_N; pfam10423 316385006286 Nucleoside phosphorylase [Nucleotide transport and metabolism]; Region: Pfs; COG0775 316385006287 hypothetical protein; Provisional; Region: PRK12378 316385006288 MATE family multidrug exporter; Provisional; Region: PRK10189 316385006289 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Thermotoga marina NorM; Region: MATE_NorM_like; cd13137 316385006290 transcriptional regulator Cbl; Reviewed; Region: cbl; PRK12679 316385006291 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 316385006292 The C-terminal substrate binding domain of LysR-type transcriptional regulator Cbl, which is required for expression of sulfate starvation-inducible (ssi) genes, contains the type 2 periplasmic binding fold; Region: PBP2_Cbl; cd08444 316385006293 putative substrate binding site [chemical binding]; other site 316385006294 dimerization interface [polypeptide binding]; other site 316385006295 nitrogen assimilation transcriptional regulator; Provisional; Region: PRK11233 316385006296 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 316385006297 The C-teminal substrate binding domain of LysR-like nitrogen assimilation control (NAC) protein, contains the type 2 periplasmic binding fold; Region: PBP2_Nac; cd08433 316385006298 putative dimerization interface [polypeptide binding]; other site 316385006299 L,D-transpeptidase; Provisional; Region: PRK10190 316385006300 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 316385006301 Phosphoribosyltransferase; Region: DBI_PRT; pfam02277 316385006302 Nicotinate-nucleotide-dimethylbenzimidazole phosphoribosyltransferase (DMB-PRT), also called CobT; Region: DMB-PRT_CobT; cd02439 316385006303 putative dimer interface [polypeptide binding]; other site 316385006304 active site pocket [active] 316385006305 putative cataytic base [active] 316385006306 cobalamin 5'-phosphate synthase/cobalamin synthase; Region: cobS; TIGR00317 316385006307 Adenosylcobinamide kinase / adenosylcobinamide phosphate guanyltransferase (CobU). CobU is bifunctional cobalbumin biosynthesis enzymes which display adenosylcobinamide kinase and adenosylcobinamide phosphate guanyltransferase activity. This enzyme is a...; Region: CobU; cd00544 316385006308 homotrimer interface [polypeptide binding]; other site 316385006309 Walker A motif; other site 316385006310 GTP binding site [chemical binding]; other site 316385006311 Walker B motif; other site 316385006312 Transposase domain (DUF772); Region: DUF772; pfam05598 316385006313 Transposase and inactivated derivatives, IS5 family [DNA replication, recombination, and repair]; Region: COG3039 316385006314 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 316385006315 IS2 transposase TnpB; Reviewed; Region: PRK09409 316385006316 HTH-like domain; Region: HTH_21; pfam13276 316385006317 Integrase core domain; Region: rve; pfam00665 316385006318 Integrase core domain; Region: rve_3; pfam13683 316385006319 IS2 repressor TnpA; Reviewed; Region: PRK09413 316385006320 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 316385006321 CP4-44 prophage; predicted GTP-binding protein (pseudogene) 316385006322 Extended Signal Peptide of Type V secretion system; Region: ESPR; pfam13018 316385006323 Type V secretory pathway, adhesin AidA [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: AidA; COG3468 316385006324 hypothetical protein; Provisional; Region: PRK09945 316385006325 Pertactin-like passenger domains (virulence factors), C-terminal, subgroup 2, of autotransporter proteins of the type V secretion system of Gram-negative bacteria. This subgroup includes the passenger domains of the nonprotease autotransporters, Ag43; Region: PL2_Passenger_AT; cd01344 316385006326 outer membrane autotransporter barrel domain; Region: autotrans_barl; TIGR01414 316385006327 Autotransporter beta-domain; Region: Autotransporter; smart00869 316385006328 DNA repair proteins [DNA replication, recombination, and repair]; Region: RadC; COG2003 316385006329 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 316385006330 MPN+ (JAMM) motif; other site 316385006331 Zinc-binding site [ion binding]; other site 316385006332 Protein of unknown function (DUF987); Region: DUF987; pfam06174 316385006333 YagB/YeeU/YfjZ family; Region: YagB_YeeU_YfjZ; pfam06154 316385006334 Protein of unknown function (DUF1219); Region: DUF1219; pfam06755 316385006335 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cd00882 316385006336 G4 box; other site 316385006337 G5 box; other site 316385006338 hypothetical protein; Provisional; Region: PRK05423 316385006339 Predicted membrane protein [Function unknown]; Region: COG1289 316385006340 Fusaric acid resistance protein-like; Region: FUSC_2; pfam13515 316385006341 DNA gyrase inhibitor; Provisional; Region: PRK10016 316385006342 D-alanyl-D-alanine carboxypeptidase; Provisional; Region: dacD; PRK11397 316385006343 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 316385006344 Penicillin-binding protein 5, C-terminal domain; Region: PBP5_C; pfam07943 316385006345 exonuclease I; Provisional; Region: sbcB; PRK11779 316385006346 N-terminal DEDDh 3'-5' exonuclease domain of Escherichia coli exonuclease I and similar proteins; Region: ExoI_N; cd06138 316385006347 active site 316385006348 catalytic site [active] 316385006349 substrate binding site [chemical binding]; other site 316385006350 Exonuclease C-terminal; Region: Exonuc_X-T_C; pfam08411 316385006351 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 316385006352 CPxP motif; other site 316385006353 putative selenium metabolism protein, YedE family; Region: seleno_YedE; TIGR04112 316385006354 Sulphur transport; Region: Sulf_transp; pfam04143 316385006355 Amino acid transporters [Amino acid transport and metabolism]; Region: PotE; COG0531 316385006356 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 316385006357 putative DNA-binding transcriptional regulator; Provisional; Region: PRK11074 316385006358 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 316385006359 dimerization interface [polypeptide binding]; other site 316385006360 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 316385006361 atypical (a) SDRs, subgroup 4; Region: SDR_a4; cd05266 316385006362 putative NAD(P) binding site [chemical binding]; other site 316385006363 Plasmid encoded toxin Txe; Region: Plasmid_Txe; pfam06769 316385006364 antitoxin YefM; Provisional; Region: PRK11409 316385006365 ATP phosphoribosyltransferase; Reviewed; Region: hisG; PRK00489 316385006366 ATP phosphoribosyltransferase; Region: hisG; TIGR00070 316385006367 ATP phosphoribosyltransferase, C-terminal domain; Region: HisG_C-term; TIGR03455 316385006368 Histidinol dehydrogenase; Region: Histidinol_dh; pfam00815 316385006369 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 316385006370 NAD binding site [chemical binding]; other site 316385006371 dimerization interface [polypeptide binding]; other site 316385006372 product binding site; other site 316385006373 substrate binding site [chemical binding]; other site 316385006374 zinc binding site [ion binding]; other site 316385006375 catalytic residues [active] 316385006376 histidinol-phosphate aminotransferase; Provisional; Region: PRK01688 316385006377 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 316385006378 pyridoxal 5'-phosphate binding site [chemical binding]; other site 316385006379 homodimer interface [polypeptide binding]; other site 316385006380 catalytic residue [active] 316385006381 imidazole glycerol-phosphate dehydratase/histidinol phosphatase; Provisional; Region: PRK05446 316385006382 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 316385006383 active site 316385006384 motif I; other site 316385006385 motif II; other site 316385006386 Imidazoleglycerol-phosphate dehydratase; Region: IGPD; cd07914 316385006387 putative active site pocket [active] 316385006388 4-fold oligomerization interface [polypeptide binding]; other site 316385006389 metal binding residues [ion binding]; metal-binding site 316385006390 3-fold/trimer interface [polypeptide binding]; other site 316385006391 imidazole glycerol phosphate synthase subunit HisH; Provisional; Region: hisH; PRK13170 316385006392 Type 1 glutamine amidotransferase (GATase1) domain found in imidazole glycerol phosphate synthase (IGPS); Region: GATase1_IGP_Synthase; cd01748 316385006393 putative active site [active] 316385006394 oxyanion strand; other site 316385006395 catalytic triad [active] 316385006396 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 316385006397 phosphoribosylformimino-5-aminoimidazole carboxamide ribotide isomerase; Region: TIGR00007 316385006398 catalytic residues [active] 316385006399 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 316385006400 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 316385006401 substrate binding site [chemical binding]; other site 316385006402 glutamase interaction surface [polypeptide binding]; other site 316385006403 Phosphoribosyl-AMP cyclohydrolase [Amino acid transport and metabolism]; Region: HisI; COG0139 316385006404 bifunctional phosphoribosyl-AMP cyclohydrolase/phosphoribosyl-ATP pyrophosphatase protein; Reviewed; Region: PRK02759 316385006405 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 316385006406 metal binding site [ion binding]; metal-binding site 316385006407 chain length determinant protein WzzB; Provisional; Region: PRK15471 316385006408 Chain length determinant protein; Region: Wzz; pfam02706 316385006409 UDP-glucose 6-dehydrogenase; Provisional; Region: PRK15057 316385006410 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 316385006411 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 316385006412 UDP binding domain; Region: UDPG_MGDP_dh_C; smart00984 316385006413 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 316385006414 6-phosphogluconate dehydrogenase; Validated; Region: PRK09287 316385006415 6-phosphogluconate dehydrogenase, C-terminal domain; Region: 6PGD; pfam00393 316385006416 Transposase domain (DUF772); Region: DUF772; pfam05598 316385006417 Transposase and inactivated derivatives, IS5 family [DNA replication, recombination, and repair]; Region: COG3039 316385006418 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 316385006419 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 316385006420 Glycosyl transferases group 1; Region: Glycos_transf_1; pfam00534 316385006421 putative lipopolysaccharide biosynthesis O-acetyl transferase WbbJ; Provisional; Region: PRK09677 316385006422 Maltose O-acyltransferase (MAT)-like: This family is composed of maltose O-acetyltransferase, galactoside O-acetyltransferase (GAT), xenobiotic acyltransferase (XAT) and similar proteins. MAT and GAT catalyze the CoA-dependent acetylation of the...; Region: LbH_MAT_like; cd04647 316385006423 trimer interface [polypeptide binding]; other site 316385006424 active site 316385006425 substrate binding site [chemical binding]; other site 316385006426 CoA binding site [chemical binding]; other site 316385006427 beta-1,6-galactofuranosyltransferase; Provisional; Region: PRK09814 316385006428 UDP-galactopyranose mutase [Cell envelope biogenesis, outer membrane]; Region: Glf; COG0562 316385006429 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 316385006430 UDP-galactopyranose mutase; Region: GLF; pfam03275 316385006431 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 316385006432 Wzx, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_Wzx_like; cd13128 316385006433 dTDP-4-dehydrorhamnose 3,5-epimerase; Region: rmlC; TIGR01221 316385006434 G1P_TT_short is the short form of glucose-1-phosphate thymidylyltransferase; Region: G1P_TT_short; cd02538 316385006435 glucose-1-phosphate thymidylyltransferase, short form; Region: rmlA; TIGR01207 316385006436 substrate binding site; other site 316385006437 tetramer interface; other site 316385006438 dTDP-4-dehydrorhamnose reductase; Provisional; Region: PRK09987 316385006439 dTDP-6-deoxy-L-lyxo-4-hexulose reductase and related proteins, extended (e) SDRs; Region: dTDP_HR_like_SDR_e; cd05254 316385006440 NADP binding site [chemical binding]; other site 316385006441 active site 316385006442 putative substrate binding site [chemical binding]; other site 316385006443 dTDP-glucose 4,6 dehydratase; Provisional; Region: PRK10084 316385006444 dTDP-D-glucose 4,6-dehydratase, extended (e) SDRs; Region: dTDP_GD_SDR_e; cd05246 316385006445 NAD binding site [chemical binding]; other site 316385006446 substrate binding site [chemical binding]; other site 316385006447 homodimer interface [polypeptide binding]; other site 316385006448 active site 316385006449 Prokaryotic UGPase catalyses the synthesis of UDP-glucose; Region: UGPase_prokaryotic; cd02541 316385006450 active site 316385006451 tetramer interface; other site 316385006452 putative colanic acid biosynthesis protein; Provisional; Region: wcaM; PRK10123 316385006453 colanic acid biosynthesis glycosyltransferase WcaL; Region: wcaL; TIGR04005 316385006454 This is a family of GT1 glycosyltransferases found specifically in certain bacteria. amsK in Erwinia amylovora, has been reported to be involved in the biosynthesis of amylovoran, a exopolysaccharide acting as a virulence factor; Region: GT1_amsK_like; cd03799 316385006455 putative ADP-binding pocket [chemical binding]; other site 316385006456 Polysaccharide pyruvyl transferase family protein [Cell wall/membrane/envelope biogenesis]; Region: WcaK; COG2327 316385006457 colanic acid biosynthesis pyruvyl transferase WcaK; Region: wcaK; TIGR04006 316385006458 colanic acid exporter; Provisional; Region: PRK10459 316385006459 Uncharacterized subfamily of the multidrug and toxic compound extrusion (MATE) proteins; Region: MATE_tuaB_like; cd13127 316385006460 putative UDP-glucose lipid carrier transferase; Provisional; Region: PRK10124 316385006461 Sugar transferases involved in lipopolysaccharide synthesis [Cell envelope biogenesis, outer membrane]; Region: WcaJ; COG2148 316385006462 phosphomannomutase CpsG; Provisional; Region: PRK15414 316385006463 The phosphomannomutase/phosphoglucomutase (PMM/PGM) bifunctional enzyme catalyzes the reversible conversion of 1-phospho to 6-phospho-sugars (e.g. between mannose-1-phosphate and mannose-6-phosphate or glucose-1-phosphate and glucose-6-phosphate) via a...; Region: PMM_PGM; cd03089 316385006464 active site 316385006465 substrate binding site [chemical binding]; other site 316385006466 metal binding site [ion binding]; metal-binding site 316385006467 mannose-1-phosphate guanyltransferase; Provisional; Region: cpsB; PRK15460 316385006468 GDP-M1P_Guanylyltransferase catalyzes the formation of GDP-Mannose; Region: GDP-M1P_Guanylyltransferase; cd02509 316385006469 Substrate binding site; other site 316385006470 Mannose-6-phosphate isomerase; Region: MannoseP_isomer; pfam01050 316385006471 colanic acid biosynthesis glycosyl transferase WcaI; Region: wcaI; TIGR04007 316385006472 This family is most closely related to the GT1 family of glycosyltransferases. wbuB in E. coli is involved in the biosynthesis of the O26 O-antigen. It has been proposed to function as an N-acetyl-L-fucosamine (L-FucNAc) transferase; Region: GT1_wbuB_like; cd03794 316385006473 GDP-mannose glycosyl hydrolase (AKA GDP-mannose mannosyl hydrolase (GDPMH)) is a member of the Nudix hydrolase superfamily. This class of enzymes is unique from other members of the superfamily in two aspects. First, it contains a modified Nudix...; Region: GDPMH; cd03430 316385006474 active site 316385006475 GDP-Mannose binding site [chemical binding]; other site 316385006476 dimer interface [polypeptide binding]; other site 316385006477 modified nudix motif 316385006478 metal binding site [ion binding]; metal-binding site 316385006479 GDP-fucose synthetase, extended (e) SDRs; Region: GDP_FS_SDR_e; cd05239 316385006480 GDP-4-keto-6-deoxymannose-3, 5-epimerase-4-reductase; Region: PLN02725 316385006481 NADP binding site [chemical binding]; other site 316385006482 active site 316385006483 putative substrate binding site [chemical binding]; other site 316385006484 GDP-D-mannose dehydratase [Cell envelope biogenesis, outer membrane]; Region: Gmd; COG1089 316385006485 GDP-mannose 4,6 dehydratase, extended (e) SDRs; Region: GDP_MD_SDR_e; cd05260 316385006486 NADP-binding site; other site 316385006487 homotetramer interface [polypeptide binding]; other site 316385006488 substrate binding site [chemical binding]; other site 316385006489 homodimer interface [polypeptide binding]; other site 316385006490 active site 316385006491 colanic acid biosynthesis acetyltransferase WcaF; Region: WcaF; TIGR04008 316385006492 wcaF-like: This group is composed of the protein product of the E. coli wcaF gene and similar proteins. WcaF is part of the gene cluster responsible for the biosynthesis of the extracellular polysaccharide colanic acid. The wcaF protein is predicted to...; Region: LbH_wcaF_like; cd05825 316385006493 putative trimer interface [polypeptide binding]; other site 316385006494 putative active site [active] 316385006495 putative substrate binding site [chemical binding]; other site 316385006496 putative CoA binding site [chemical binding]; other site 316385006497 putative glycosyl transferase; Provisional; Region: PRK10063 316385006498 WfgS and WfeV are involved in O-antigen biosynthesis; Region: GT_2_WfgS_like; cd06433 316385006499 metal-binding site 316385006500 putative colanic acid polymerase WcaD; Region: WcaD; TIGR04010 316385006501 colanic acid biosynthesis glycosyl transferase WcaC; Region: WcaC; TIGR04015 316385006502 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 316385006503 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 316385006504 putative acyl transferase; Provisional; Region: PRK10191 316385006505 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 316385006506 trimer interface [polypeptide binding]; other site 316385006507 active site 316385006508 substrate binding site [chemical binding]; other site 316385006509 CoA binding site [chemical binding]; other site 316385006510 putative glycosyl transferase; Provisional; Region: PRK10018 316385006511 Glycosyl transferase family 2; Region: Glycos_transf_2; pfam00535 316385006512 active site 316385006513 tyrosine kinase; Provisional; Region: PRK11519 316385006514 Chain length determinant protein; Region: Wzz; pfam02706 316385006515 Chain length determinant protein; Region: Wzz; cl15801 316385006516 G-rich domain on putative tyrosine kinase; Region: GNVR; pfam13807 316385006517 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 316385006518 Low molecular weight phosphatase family; Region: LMWPc; cd00115 316385006519 Low molecular weight phosphotyrosine protein phosphatase; Region: LMWPc; pfam01451 316385006520 active site 316385006521 polysaccharide export protein Wza; Provisional; Region: PRK15078 316385006522 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 316385006523 SLBB domain; Region: SLBB; pfam10531 316385006524 Membrane protein TerC, possibly involved in tellurium resistance [Inorganic ion transport and metabolism]; Region: TerC; COG0861 316385006525 FOG: CBS domain [General function prediction only]; Region: COG0517 316385006526 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 316385006527 Transporter associated domain; Region: CorC_HlyC; smart01091 316385006528 putative assembly protein; Provisional; Region: PRK10833 316385006529 AsmA-like C-terminal region; Region: AsmA_2; pfam13502 316385006530 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 316385006531 trimer interface [polypeptide binding]; other site 316385006532 active site 316385006533 Uridine kinase [Nucleotide transport and metabolism]; Region: Udk; COG0572 316385006534 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 316385006535 ATP-binding site [chemical binding]; other site 316385006536 Sugar specificity; other site 316385006537 Pyrimidine base specificity; other site 316385006538 Predicted integral membrane sensor domain [Signal transduction mechanisms]; Region: COG3447 316385006539 putative diguanylate cyclase; Provisional; Region: PRK09776 316385006540 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 316385006541 putative active site [active] 316385006542 heme pocket [chemical binding]; other site 316385006543 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 316385006544 putative active site [active] 316385006545 heme pocket [chemical binding]; other site 316385006546 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 316385006547 putative active site [active] 316385006548 heme pocket [chemical binding]; other site 316385006549 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 316385006550 metal binding site [ion binding]; metal-binding site 316385006551 active site 316385006552 I-site; other site 316385006553 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 316385006554 3-methyl-adenine DNA glycosylase II; Provisional; Region: PRK10308 316385006555 AlkA N-terminal domain; Region: AlkA_N; smart01009 316385006556 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 316385006557 minor groove reading motif; other site 316385006558 helix-hairpin-helix signature motif; other site 316385006559 substrate binding pocket [chemical binding]; other site 316385006560 active site 316385006561 putative chaperone; Provisional; Region: PRK11678 316385006562 Escherichia coli YegD, a putative chaperone protein, and related proteins; Region: YegD_like; cd10231 316385006563 nucleotide binding site [chemical binding]; other site 316385006564 putative NEF/HSP70 interaction site [polypeptide binding]; other site 316385006565 SBD interface [polypeptide binding]; other site 316385006566 Uncharacterized protein with protein kinase and helix-hairpin-helix DNA-binding domains [General function prediction only]; Region: COG4248 316385006567 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 316385006568 substrate binding site [chemical binding]; other site 316385006569 activation loop (A-loop); other site 316385006570 Y-family of DNA polymerases; Region: PolY; cl12025 316385006571 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3779 316385006572 Uncharacterized protein conserved in bacteria (DUF2314); Region: DUF2314; pfam10077 316385006573 Protein phosphatase 2C; Region: PP2C_2; pfam13672 316385006574 VWA subfamily: Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b...; Region: vWA_subfamily; cd01464 316385006575 metal ion-dependent adhesion site (MIDAS); other site 316385006576 multidrug efflux system subunit MdtA; Provisional; Region: PRK11556 316385006577 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 316385006578 HlyD family secretion protein; Region: HlyD_3; pfam13437 316385006579 multidrug efflux system subunit MdtB; Provisional; Region: PRK10503 316385006580 Protein export membrane protein; Region: SecD_SecF; cl14618 316385006581 multidrug efflux system subunit MdtC; Provisional; Region: PRK10614 316385006582 putative transporter; Provisional; Region: PRK10504 316385006583 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 316385006584 putative substrate translocation pore; other site 316385006585 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 316385006586 signal transduction histidine-protein kinase BaeS; Provisional; Region: PRK10549 316385006587 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 316385006588 dimerization interface [polypeptide binding]; other site 316385006589 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 316385006590 dimer interface [polypeptide binding]; other site 316385006591 phosphorylation site [posttranslational modification] 316385006592 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 316385006593 ATP binding site [chemical binding]; other site 316385006594 Mg2+ binding site [ion binding]; other site 316385006595 G-X-G motif; other site 316385006596 DNA-binding transcriptional regulator BaeR; Provisional; Region: PRK10710 316385006597 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 316385006598 active site 316385006599 phosphorylation site [posttranslational modification] 316385006600 intermolecular recognition site; other site 316385006601 dimerization interface [polypeptide binding]; other site 316385006602 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 316385006603 DNA binding site [nucleotide binding] 316385006604 Uncharacterized conserved protein [Function unknown]; Region: COG3422 316385006605 Domain of unknown function (DUF1508); Region: DUF1508; pfam07411 316385006606 putative protease; Provisional; Region: PRK15452 316385006607 Peptidase family U32; Region: Peptidase_U32; pfam01136 316385006608 DNA-binding transcriptional regulator; Provisional; Region: PRK09678 316385006609 Ogr/Delta-like zinc finger; Region: Ogr_Delta; pfam04606 316385006610 lipid kinase; Reviewed; Region: PRK13054 316385006611 Diacylglycerol kinase catalytic domain; Region: DAGK_cat; pfam00781 316385006612 Transposase; Region: HTH_Tnp_1; cl17663 316385006613 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 316385006614 putative transposase OrfB; Reviewed; Region: PHA02517 316385006615 HTH-like domain; Region: HTH_21; pfam13276 316385006616 Integrase core domain; Region: rve; pfam00665 316385006617 Integrase core domain; Region: rve_2; pfam13333 316385006618 galactitol-1-phosphate dehydrogenase; Provisional; Region: PRK10309 316385006619 NAD(P)-dependent sugar dehydrogenases; Region: sugar_DH; cd08236 316385006620 putative NAD(P) binding site [chemical binding]; other site 316385006621 catalytic Zn binding site [ion binding]; other site 316385006622 Phosphotransferase system, galactitol-specific IIC component [Carbohydrate transport and metabolism]; Region: GatC; COG3775 316385006623 PTS system, galactitol-specific IIC component; Region: EIIC-GAT; TIGR00827 316385006624 PTS_IIB_galactitol: subunit IIB of enzyme II (EII) of the galactitol-specific phosphoenolpyruvate:carbohydrate phosphotransferase system (PTS). In this system, EII is a galactitol-specific permease with two cytoplasmic domains (IIA and IIB) and a...; Region: PTS_IIB_galactitol; cd05566 316385006625 active site 316385006626 P-loop; other site 316385006627 phosphorylation site [posttranslational modification] 316385006628 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 316385006629 active site 316385006630 phosphorylation site [posttranslational modification] 316385006631 Tagatose-1,6-bisphosphate (TBP) aldolase and related Type B Class II aldolases. TBP aldolase is a tetrameric class II aldolase that catalyzes the reversible condensation of dihydroxyacetone phosphate with glyceraldehyde 3-phsophate to produce tagatose 1; Region: TBP_aldolase_IIB; cd00947 316385006632 fructose-bisphosphate aldolase; Provisional; Region: PRK09197 316385006633 intersubunit interface [polypeptide binding]; other site 316385006634 active site 316385006635 zinc binding site [ion binding]; other site 316385006636 Na+ binding site [ion binding]; other site 316385006637 fructose-bisphosphate aldolase; Provisional; Region: PRK09250 316385006638 Class I fructose-1,6-bisphosphate (FBP) aldolases of the archaeal type (DhnA homologs); Region: DhnA; cd00958 316385006639 putative active site; other site 316385006640 catalytic residue [active] 316385006641 nucleoside transporter; Region: 2A0110; TIGR00889 316385006642 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 316385006643 putative substrate translocation pore; other site 316385006644 ADP-ribosylglycohydrolase [Posttranslational modification, protein turnover, chaperones]; Region: DraG; COG1397 316385006645 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 316385006646 YegV-like sugar kinase. Found only in bacteria, YegV-like kinase is part of the ribokinase/pfkB sugar kinase superfamily. Its oligomerization state is unknown at this time; Region: YegV_kinase_like; cd01944 316385006647 substrate binding site [chemical binding]; other site 316385006648 ATP binding site [chemical binding]; other site 316385006649 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 316385006650 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 316385006651 DNA-binding site [nucleotide binding]; DNA binding site 316385006652 UTRA domain; Region: UTRA; pfam07702 316385006653 Lyzozyme M1 (1,4-beta-N-acetylmuramidase) [Cell envelope biogenesis, outer membrane]; Region: Acm; COG3757 316385006654 YegX is an uncharacterized bacterial protein with a glycosyl hydrolase family 25 (GH25) catalytic domain that is similar in sequence to the CH-type (Chalaropsis-type) lysozymes of the GH25 family of endolysins; Region: GH25_YegX-like; cd06524 316385006655 active site 316385006656 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 316385006657 dimer interface [polypeptide binding]; other site 316385006658 substrate binding site [chemical binding]; other site 316385006659 ATP binding site [chemical binding]; other site 316385006660 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 316385006661 substrate binding site [chemical binding]; other site 316385006662 multimerization interface [polypeptide binding]; other site 316385006663 ATP binding site [chemical binding]; other site 316385006664 Transcriptional regulators RcnR and FrmR, and related domains; this domain family was previously known as part of DUF156; Region: RcnR-FrmR-like_DUF156; cd10153 316385006665 putative metal binding site [ion binding]; other site 316385006666 putative homodimer interface [polypeptide binding]; other site 316385006667 putative homotetramer interface [polypeptide binding]; other site 316385006668 putative homodimer-homodimer interface [polypeptide binding]; other site 316385006669 putative allosteric switch controlling residues; other site 316385006670 nickel/cobalt efflux protein RcnA; Provisional; Region: PRK10019 316385006671 Predicted integral membrane protein [Function unknown]; Region: COG5455 316385006672 fimbrial outer membrane usher protein; Provisional; Region: PRK15217 316385006673 PapC N-terminal domain; Region: PapC_N; pfam13954 316385006674 Type VII secretion system (T7SS), usher protein; Region: Usher; pfam00577 316385006675 PapC C-terminal domain; Region: PapC_C; pfam13953 316385006676 putative fimbrial assembly chaperone protein StcB; Provisional; Region: PRK15253 316385006677 Gram-negative pili assembly chaperone, N-terminal domain; Region: Pili_assembly_N; pfam00345 316385006678 Gram-negative pili assembly chaperone, C-terminal domain; Region: Pili_assembly_C; pfam02753 316385006679 P pilus assembly protein, pilin FimA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimA; COG3539 316385006680 Protein of unknown function (DUF2574); Region: DUF2574; pfam10836 316385006681 antiporter inner membrane protein; Provisional; Region: PRK11670 316385006682 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 316385006683 Walker A motif; other site 316385006684 methionyl-tRNA synthetase; Reviewed; Region: metG; PRK00133 316385006685 catalytic core domain of methioninyl-tRNA synthetases; Region: MetRS_core; cd00814 316385006686 active site 316385006687 HIGH motif; other site 316385006688 KMSKS motif; other site 316385006689 Anticodon-binding domain of methionyl tRNA synthetases; Region: Anticodon_Ia_Met; cd07957 316385006690 tRNA binding surface [nucleotide binding]; other site 316385006691 anticodon binding site; other site 316385006692 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 316385006693 dimer interface [polypeptide binding]; other site 316385006694 putative tRNA-binding site [nucleotide binding]; other site 316385006695 Domain of unknown function (DUF4132); Region: DUF4132; pfam13569 316385006696 MoxR-like ATPases [General function prediction only]; Region: COG0714 316385006697 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 316385006698 Walker A motif; other site 316385006699 ATP binding site [chemical binding]; other site 316385006700 Walker B motif; other site 316385006701 arginine finger; other site 316385006702 VWA domain containing CoxE-like protein; Region: VWA_CoxE; pfam05762 316385006703 VWA YIEM type: Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b...; Region: VWA_YIEM_type; cd01462 316385006704 metal ion-dependent adhesion site (MIDAS); other site 316385006705 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4808 316385006706 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4807 316385006707 Protein of unknown function (DUF1456); Region: DUF1456; pfam07308 316385006708 Protein of unknown function (DUF1456); Region: DUF1456; pfam07308 316385006709 putative two-component response-regulatory protein YehT; Provisional; Region: PRK11697 316385006710 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 316385006711 active site 316385006712 phosphorylation site [posttranslational modification] 316385006713 intermolecular recognition site; other site 316385006714 dimerization interface [polypeptide binding]; other site 316385006715 LytTr DNA-binding domain; Region: LytTR; pfam04397 316385006716 Putative regulator of cell autolysis [Signal transduction mechanisms]; Region: LytS; COG3275 316385006717 5TMR of 5TMR-LYT; Region: 5TM-5TMR_LYT; pfam07694 316385006718 GAF domain; Region: GAF; pfam01590 316385006719 Histidine kinase; Region: His_kinase; pfam06580 316385006720 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 316385006721 ATP binding site [chemical binding]; other site 316385006722 Mg2+ binding site [ion binding]; other site 316385006723 G-X-G motif; other site 316385006724 transcriptional regulator MirA; Provisional; Region: PRK15043 316385006725 Helix-Turn-Helix DNA binding domain of MlrA-like transcription regulators; Region: HTH_MlrA-like; cd04763 316385006726 DNA binding residues [nucleotide binding] 316385006727 hypothetical protein; Provisional; Region: PRK13681 316385006728 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 316385006729 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 316385006730 dimer interface [polypeptide binding]; other site 316385006731 conserved gate region; other site 316385006732 putative PBP binding loops; other site 316385006733 ABC-ATPase subunit interface; other site 316385006734 ABC-type proline/glycine betaine transport systems, ATPase components [Amino acid transport and metabolism]; Region: OpuBA; COG1125 316385006735 ATP-binding cassette domain of the osmoprotectant transporter; Region: ABC_OpuCA_Osmoprotection; cd03295 316385006736 Walker A/P-loop; other site 316385006737 ATP binding site [chemical binding]; other site 316385006738 Q-loop/lid; other site 316385006739 ABC transporter signature motif; other site 316385006740 Walker B; other site 316385006741 D-loop; other site 316385006742 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-called...; Region: CBS_pair; cd02205 316385006743 H-loop/switch region; other site 316385006744 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 316385006745 dimer interface [polypeptide binding]; other site 316385006746 conserved gate region; other site 316385006747 ABC-ATPase subunit interface; other site 316385006748 Periplasmic glycine betaine/choline-binding (lipo)protein of an ABC-type transport system (osmoprotectant binding protein) [Cell envelope biogenesis, outer membrane]; Region: OpuBC; COG1732 316385006749 beta-D-glucoside glucohydrolase; Provisional; Region: PRK15098 316385006750 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; pfam00933 316385006751 Fibronectin type III-like domain; Region: Fn3-like; pfam14310 316385006752 D-lactate dehydrogenase; Provisional; Region: PRK11183 316385006753 FAD binding domain; Region: FAD_binding_4; pfam01565 316385006754 D-lactate dehydrogenase, membrane binding; Region: Lact-deh-memb; pfam09330 316385006755 D-alanyl-D-alanine endopeptidase; Provisional; Region: pbpG; PRK11669 316385006756 D-alanyl-D-alanine carboxypeptidase; Region: Peptidase_S11; pfam00768 316385006757 Protein of unknown function (DUF1282); Region: DUF1282; pfam06930 316385006758 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 316385006759 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 316385006760 oxidoreductase; Provisional; Region: PRK12743 316385006761 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 316385006762 NAD(P) binding site [chemical binding]; other site 316385006763 active site 316385006764 Outer membrane efflux protein; Region: OEP; pfam02321 316385006765 Outer membrane efflux protein; Region: OEP; pfam02321 316385006766 multidrug resistance outer membrane protein MdtQ; Provisional; Region: PRK11459 316385006767 tRNA-dihydrouridine synthase C; Provisional; Region: PRK10550 316385006768 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 316385006769 FMN binding site [chemical binding]; other site 316385006770 active site 316385006771 catalytic residues [active] 316385006772 substrate binding site [chemical binding]; other site 316385006773 hypothetical protein; Provisional; Region: PRK01821 316385006774 hypothetical protein; Provisional; Region: PRK10711 316385006775 cytidine deaminase; Provisional; Region: PRK09027 316385006776 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 316385006777 active site 316385006778 catalytic motif [active] 316385006779 Zn binding site [ion binding]; other site 316385006780 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 316385006781 active site 316385006782 catalytic motif [active] 316385006783 Zn binding site [ion binding]; other site 316385006784 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 316385006785 putative active site [active] 316385006786 Protein of unknown function (DUF2542); Region: DUF2542; pfam10808 316385006787 dihydropyrimidine dehydrogenase subunit A; Provisional; Region: PRK11749 316385006788 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 316385006789 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 316385006790 dihydropyrimidine dehydrogenase subunit B; Validated; Region: PRK08318 316385006791 Dihydropyrimidine dehydrogenase (DHPD) FMN-binding domain. DHPD catalyzes the first step in pyrimidine degradation: the NADPH-dependent reduction of uracil and thymine to the corresponding 5,6-dihydropyrimidines. DHPD contains two FAD, two FMN, and...; Region: DHPD_FMN; cd02940 316385006792 homodimer interface [polypeptide binding]; other site 316385006793 active site 316385006794 FMN binding site [chemical binding]; other site 316385006795 substrate binding site [chemical binding]; other site 316385006796 4Fe-4S binding domain; Region: Fer4; pfam00037 316385006797 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 316385006798 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 316385006799 TM-ABC transporter signature motif; other site 316385006800 methyl-galactoside ABC transporter galactose-binding periplasmic protein MglB; Provisional; Region: PRK15395 316385006801 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 316385006802 ligand binding site [chemical binding]; other site 316385006803 calcium binding site [ion binding]; other site 316385006804 DNA-binding transcriptional regulator GalS; Provisional; Region: PRK10401 316385006805 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 316385006806 DNA binding site [nucleotide binding] 316385006807 domain linker motif; other site 316385006808 Ligand binding domain of DNA transcription iso-repressor GalS, which is one of two regulatory proteins involved in galactose transport and metabolism; Region: PBP1_GalS_like; cd06270 316385006809 dimerization interface (closed form) [polypeptide binding]; other site 316385006810 ligand binding site [chemical binding]; other site 316385006811 Predicted membrane protein [Function unknown]; Region: COG2311 316385006812 hypothetical protein; Provisional; Region: PRK10835 316385006813 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 316385006814 homodecamer interface [polypeptide binding]; other site 316385006815 GTP cyclohydrolase I; Provisional; Region: PLN03044 316385006816 active site 316385006817 putative catalytic site residues [active] 316385006818 zinc binding site [ion binding]; other site 316385006819 GTP-CH-I/GFRP interaction surface; other site 316385006820 S-formylglutathione hydrolase; Region: fghA_ester_D; TIGR02821 316385006821 S-formylglutathione hydrolase; Region: PLN02442 316385006822 catecholate siderophore receptor CirA; Provisional; Region: PRK10064 316385006823 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 316385006824 N-terminal plug; other site 316385006825 ligand-binding site [chemical binding]; other site 316385006826 lysine transporter; Provisional; Region: PRK10836 316385006827 putative DNA-binding transcriptional regulator; Provisional; Region: PRK10837 316385006828 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 316385006829 C-terminal substrate binding domain of LysR-type transcriptional regulator CysL, which activates the transcription of the cysJI operon encoding sulfite reductase, contains the type 2 periplasmic binding fold; Region: PBP2_CysL_like; cd08420 316385006830 putative dimerization interface [polypeptide binding]; other site 316385006831 conserved hypothetical integral membrane protein; Region: TIGR00698 316385006832 endonuclease IV; Provisional; Region: PRK01060 316385006833 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 316385006834 AP (apurinic/apyrimidinic) site pocket; other site 316385006835 DNA interaction; other site 316385006836 Metal-binding active site; metal-binding site 316385006837 putative kinase; Provisional; Region: PRK09954 316385006838 Winged helix-turn-helix DNA-binding; Region: HTH_24; pfam13412 316385006839 YeiC-like sugar kinase. Found in eukaryotes and bacteria, YeiC-like kinase is part of the ribokinase/pfkB sugar kinase superfamily. Its oligomerization state is unknown at this time; Region: YeiC_kinase_like; cd01941 316385006840 substrate binding site [chemical binding]; other site 316385006841 ATP binding site [chemical binding]; other site 316385006842 Nucleoside permease [Nucleotide transport and metabolism]; Region: NupC; COG1972 316385006843 Na+ dependent nucleoside transporter N-terminus; Region: Nucleos_tra2_N; pfam01773 316385006844 Nucleoside recognition; Region: Gate; pfam07670 316385006845 Na+ dependent nucleoside transporter C-terminus; Region: Nucleos_tra2_C; pfam07662 316385006846 nuc_hydro_IU_UC_XIUA: inosine-uridine preferring, xanthosine-inosine-uridine-adenosine-preferring and, uridine-cytidine preferring nucleoside hydrolases. Nucleoside hydrolases cleave the N-glycosidic bond in nucleosides generating ribose and the...; Region: nuc_hydro_IU_UC_XIUA; cd02651 316385006847 active site 316385006848 tetramer interface [polypeptide binding]; other site 316385006849 DNA-binding transcriptional activator YeiL; Provisional; Region: PRK10402 316385006850 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 316385006851 ligand binding site [chemical binding]; other site 316385006852 flexible hinge region; other site 316385006853 helix_turn_helix, cAMP Regulatory protein C-terminus; DNA binding domain of prokaryotic regulatory proteins belonging to the catabolite activator protein family; Region: HTH_CRP; cl17320 316385006854 Nucleoside permease [Nucleotide transport and metabolism]; Region: NupC; COG1972 316385006855 Na+ dependent nucleoside transporter N-terminus; Region: Nucleos_tra2_N; pfam01773 316385006856 Nucleoside recognition; Region: Gate; pfam07670 316385006857 Na+ dependent nucleoside transporter C-terminus; Region: Nucleos_tra2_C; pfam07662 316385006858 Indigoidine synthase A like protein; Region: Indigoidine_A; pfam04227 316385006859 YeiC-like sugar kinase. Found in eukaryotes and bacteria, YeiC-like kinase is part of the ribokinase/pfkB sugar kinase superfamily. Its oligomerization state is unknown at this time; Region: YeiC_kinase_like; cd01941 316385006860 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 316385006861 substrate binding site [chemical binding]; other site 316385006862 ATP binding site [chemical binding]; other site 316385006863 PTS system fructose-specific transporter subunits IIBC; Provisional; Region: PRK10712 316385006864 N-terminal domain of the phosphotransferase system fructose-specific component IIB [Carbohydrate transport and metabolism]; Region: COG3925 316385006865 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 316385006866 active site 316385006867 P-loop; other site 316385006868 phosphorylation site [posttranslational modification] 316385006869 PTS system, fructose subfamily, IIC component; Region: PTS_IIC_fructo; TIGR01427 316385006870 Fructose-1-phosphate kinase and related fructose-6-phosphate kinase (PfkB) [Carbohydrate transport and metabolism]; Region: FruK; COG1105 316385006871 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 316385006872 putative substrate binding site [chemical binding]; other site 316385006873 putative ATP binding site [chemical binding]; other site 316385006874 sugar efflux transporter B; Provisional; Region: PRK15011 316385006875 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 316385006876 putative substrate translocation pore; other site 316385006877 Flagellin N-methylase; Region: FliB; pfam03692 316385006878 elongation factor P; Provisional; Region: PRK04542 316385006879 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 316385006880 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 316385006881 RNA binding site [nucleotide binding]; other site 316385006882 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 316385006883 RNA binding site [nucleotide binding]; other site 316385006884 Mannitol-1-phosphate/altronate dehydrogenases [Carbohydrate transport and metabolism]; Region: MtlD; COG0246 316385006885 Mannitol dehydrogenase Rossmann domain; Region: Mannitol_dh; pfam01232 316385006886 Mannitol dehydrogenase C-terminal domain; Region: Mannitol_dh_C; pfam08125 316385006887 Putative GTPases (G3E family) [General function prediction only]; Region: COG0523 316385006888 CobW/HypB/UreG, nucleotide-binding domain; Region: cobW; pfam02492 316385006889 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; smart00833 316385006890 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 316385006891 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 316385006892 active site 316385006893 outer membrane lipoprotein; Provisional; Region: spr; PRK10838 316385006894 NlpC/P60 family; Region: NLPC_P60; pfam00877 316385006895 phage resistance protein; Provisional; Region: PRK10551 316385006896 CSS motif domain associated with EAL; Region: CSS-motif; pfam12792 316385006897 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 316385006898 ABC-type oligopeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: OppA; COG4166 316385006899 The substrate-binding component of an uncharacterized ABC-type nickel/dipeptide/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like_14; cd08497 316385006900 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4174 316385006901 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 316385006902 dimer interface [polypeptide binding]; other site 316385006903 conserved gate region; other site 316385006904 putative PBP binding loops; other site 316385006905 ABC-ATPase subunit interface; other site 316385006906 microcin C ABC transporter permease; Provisional; Region: PRK15021 316385006907 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 316385006908 dimer interface [polypeptide binding]; other site 316385006909 conserved gate region; other site 316385006910 ABC-ATPase subunit interface; other site 316385006911 microcin C ABC transporter ATP-binding protein YejF; Provisional; Region: PRK15134 316385006912 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 316385006913 Walker A/P-loop; other site 316385006914 ATP binding site [chemical binding]; other site 316385006915 Q-loop/lid; other site 316385006916 ABC transporter signature motif; other site 316385006917 Walker B; other site 316385006918 D-loop; other site 316385006919 H-loop/switch region; other site 316385006920 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 316385006921 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 316385006922 Walker A/P-loop; other site 316385006923 ATP binding site [chemical binding]; other site 316385006924 Q-loop/lid; other site 316385006925 ABC transporter signature motif; other site 316385006926 Walker B; other site 316385006927 D-loop; other site 316385006928 H-loop/switch region; other site 316385006929 hypothetical protein; Provisional; Region: PRK11835 316385006930 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 316385006931 bicyclomycin/multidrug efflux system; Provisional; Region: PRK11102 316385006932 putative substrate translocation pore; other site 316385006933 16S rRNA pseudouridylate synthase A; Provisional; Region: PRK10839 316385006934 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 316385006935 RNA binding surface [nucleotide binding]; other site 316385006936 Pseudouridine synthase, Escherichia coli RsuA like; Region: PseudoU_synth_RsuA; cd02553 316385006937 active site 316385006938 uracil binding [chemical binding]; other site 316385006939 DNA or RNA helicases of superfamily II [Transcription / DNA replication, recombination, and repair]; Region: SSL2; COG1061 316385006940 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 316385006941 ATP binding site [chemical binding]; other site 316385006942 putative Mg++ binding site [ion binding]; other site 316385006943 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 316385006944 nucleotide binding region [chemical binding]; other site 316385006945 ATP-binding site [chemical binding]; other site 316385006946 Ribosomal L40e family; Region: Ribosomal_L40e; cl00671 316385006947 Ribosomal L25/TL5/CTC N-terminal 5S rRNA binding domain; Region: Ribosomal_L25_TL5_CTC; cd00495 316385006948 5S rRNA interface [nucleotide binding]; other site 316385006949 CTC domain interface [polypeptide binding]; other site 316385006950 L16 interface [polypeptide binding]; other site 316385006951 Nucleoid-associated protein [General function prediction only]; Region: COG3081 316385006952 nucleoid-associated protein NdpA; Validated; Region: PRK00378 316385006953 hypothetical protein; Provisional; Region: PRK13689 316385006954 Predicted hydrolase of alkaline phosphatase superfamily [General function prediction only]; Region: COG3083 316385006955 Domain of unknown function (DUF3413); Region: DUF3413; pfam11893 316385006956 Sulfatase; Region: Sulfatase; pfam00884 316385006957 Type V secretory pathway, adhesin AidA [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: AidA; COG3468 316385006958 hypothetical protein; Provisional; Region: PRK09945 316385006959 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 316385006960 outer membrane autotransporter barrel domain; Region: autotrans_barl; TIGR01414 316385006961 Autotransporter beta-domain; Region: Autotransporter; pfam03797 316385006962 Transposase domain (DUF772); Region: DUF772; pfam05598 316385006963 Transposase and inactivated derivatives, IS5 family [DNA replication, recombination, and repair]; Region: COG3039 316385006964 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 316385006965 transcriptional regulator NarP; Provisional; Region: PRK10403 316385006966 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 316385006967 active site 316385006968 phosphorylation site [posttranslational modification] 316385006969 intermolecular recognition site; other site 316385006970 dimerization interface [polypeptide binding]; other site 316385006971 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 316385006972 DNA binding residues [nucleotide binding] 316385006973 dimerization interface [polypeptide binding]; other site 316385006974 Uncharacterized protein involved in biosynthesis of c-type cytochromes [Posttranslational modification, protein turnover, chaperones]; Region: CcmH; COG3088 316385006975 formate-dependent nitrite reductase complex subunit NrfG; Provisional; Region: PRK10370 316385006976 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 316385006977 binding surface 316385006978 TPR motif; other site 316385006979 thiol:disulfide interchange protein DsbE; Provisional; Region: PRK15412 316385006980 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 316385006981 catalytic residues [active] 316385006982 central insert; other site 316385006983 c-type cytochrome biogenesis protein CcmF; Region: nrfE; TIGR00353 316385006984 cytochrome c-type biogenesis protein CcmE; Reviewed; Region: PRK13165 316385006985 Heme exporter protein D [Intracellular trafficking and secretion]; Region: CcmD; COG3114 316385006986 heme exporter protein CcmC; Region: ccmC; TIGR01191 316385006987 heme exporter protein CcmB; Region: ccmB; TIGR01190 316385006988 cytochrome c biogenesis protein CcmA; Provisional; Region: PRK13538 316385006989 Cytochrome c biogenesis ATP-binding export protein; Region: ABC_CcmA_heme_exporter; cd03231 316385006990 Walker A/P-loop; other site 316385006991 ATP binding site [chemical binding]; other site 316385006992 Q-loop/lid; other site 316385006993 ABC transporter signature motif; other site 316385006994 Walker B; other site 316385006995 D-loop; other site 316385006996 H-loop/switch region; other site 316385006997 cytochrome c-type protein NapC; Provisional; Region: PRK10617 316385006998 Nitrate/TMAO reductases, membrane-bound tetraheme cytochrome c subunit [Energy production and conversion]; Region: TorC; COG3005 316385006999 nitrate reductase cytochrome C550 subunit; Provisional; Region: napB; PRK11586 316385007000 quinol dehydrogenase membrane component; Provisional; Region: napH; PRK09477 316385007001 4Fe-4S binding domain; Region: Fer4_5; pfam12801 316385007002 4Fe-4S binding domain; Region: Fer4_6; pfam12837 316385007003 quinol dehydrogenase periplasmic component; Provisional; Region: napG; PRK09476 316385007004 nitrate reductase catalytic subunit; Provisional; Region: PRK13532 316385007005 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 316385007006 [4Fe-4S] binding site [ion binding]; other site 316385007007 molybdopterin cofactor binding site; other site 316385007008 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 316385007009 molybdopterin cofactor binding site; other site 316385007010 assembly protein for periplasmic nitrate reductase; Provisional; Region: PRK10553 316385007011 ferredoxin-type protein; Provisional; Region: PRK10194 316385007012 Protease Inhibitor Ecotin; homodimeric protease inhibitor; Region: Ecotin; cd00242 316385007013 secondary substrate binding site; other site 316385007014 primary substrate binding site; other site 316385007015 inhibition loop; other site 316385007016 dimerization interface [polypeptide binding]; other site 316385007017 malate:quinone oxidoreductase; Validated; Region: PRK05257 316385007018 malate:quinone-oxidoreductase; Region: mal_quin_oxido; TIGR01320 316385007019 multidrug transporter membrane component/ATP-binding component; Provisional; Region: PRK10522 316385007020 ATP-binding cassette domain of multidrug resistance protein-like transporters; Region: ABCC_MRP_Like; cd03228 316385007021 Walker A/P-loop; other site 316385007022 ATP binding site [chemical binding]; other site 316385007023 Q-loop/lid; other site 316385007024 ABC transporter signature motif; other site 316385007025 Walker B; other site 316385007026 D-loop; other site 316385007027 H-loop/switch region; other site 316385007028 alpha-ketoglutarate-dependent dioxygenase AlkB; Provisional; Region: PRK15401 316385007029 bifunctional DNA-binding transcriptional dual regulator/O6-methylguanine-DNA methyltransferase; Provisional; Region: PRK15435 316385007030 Metal binding domain of Ada; Region: Ada_Zn_binding; pfam02805 316385007031 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 316385007032 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 316385007033 6-O-methylguanine DNA methyltransferase, ribonuclease-like domain; Region: Methyltransf_1N; pfam02870 316385007034 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 316385007035 DNA binding site [nucleotide binding] 316385007036 active site 316385007037 thiamine biosynthesis lipoprotein ApbE; Provisional; Region: PRK10461 316385007038 ApbE family; Region: ApbE; pfam02424 316385007039 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 316385007040 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 316385007041 trimer interface [polypeptide binding]; other site 316385007042 eyelet of channel; other site 316385007043 phosphotransfer intermediate protein in two-component regulatory system with RcsBC; Provisional; Region: PRK10618 316385007044 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 316385007045 ATP binding site [chemical binding]; other site 316385007046 G-X-G motif; other site 316385007047 Histidine Phosphotransfer domain, involved in signalling through a two part component systems in which an autophosphorylating histidine protein kinase serves as a phosphoryl donor to a response regulator protein; the response regulator protein is...; Region: HPT; cd00088 316385007048 putative binding surface; other site 316385007049 active site 316385007050 transcriptional regulator RcsB; Provisional; Region: PRK10840 316385007051 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 316385007052 active site 316385007053 phosphorylation site [posttranslational modification] 316385007054 intermolecular recognition site; other site 316385007055 dimerization interface [polypeptide binding]; other site 316385007056 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 316385007057 DNA binding residues [nucleotide binding] 316385007058 dimerization interface [polypeptide binding]; other site 316385007059 hybrid sensory kinase in two-component regulatory system with RcsB and YojN; Provisional; Region: PRK10841 316385007060 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 316385007061 dimer interface [polypeptide binding]; other site 316385007062 phosphorylation site [posttranslational modification] 316385007063 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 316385007064 ATP binding site [chemical binding]; other site 316385007065 Mg2+ binding site [ion binding]; other site 316385007066 G-X-G motif; other site 316385007067 RcsC Alpha-Beta-Loop (ABL); Region: RcsC; pfam09456 316385007068 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 316385007069 active site 316385007070 phosphorylation site [posttranslational modification] 316385007071 intermolecular recognition site; other site 316385007072 dimerization interface [polypeptide binding]; other site 316385007073 sensory histidine kinase AtoS; Provisional; Region: PRK11360 316385007074 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 316385007075 putative active site [active] 316385007076 heme pocket [chemical binding]; other site 316385007077 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 316385007078 dimer interface [polypeptide binding]; other site 316385007079 phosphorylation site [posttranslational modification] 316385007080 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 316385007081 ATP binding site [chemical binding]; other site 316385007082 Mg2+ binding site [ion binding]; other site 316385007083 G-X-G motif; other site 316385007084 acetoacetate metabolism regulatory protein AtoC; Provisional; Region: PRK11361 316385007085 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 316385007086 active site 316385007087 phosphorylation site [posttranslational modification] 316385007088 intermolecular recognition site; other site 316385007089 dimerization interface [polypeptide binding]; other site 316385007090 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 316385007091 Walker A motif; other site 316385007092 ATP binding site [chemical binding]; other site 316385007093 Walker B motif; other site 316385007094 arginine finger; other site 316385007095 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 316385007096 acetyl-CoA:acetoacetyl-CoA transferase subunit alpha; Provisional; Region: PRK09920 316385007097 3-oxoacid CoA-transferase, B subunit; Region: pcaJ_scoB_fam; TIGR02428 316385007098 Short chain fatty acid transporter; Region: SCFA_trans; pfam02667 316385007099 putative acyltransferase; Provisional; Region: PRK05790 316385007100 Thiolase are ubiquitous enzymes that catalyze the reversible thiolytic cleavage of 3-ketoacyl-CoA into acyl-CoA and acetyl-CoA, a 2-step reaction involving a covalent intermediate formed with a catalytic cysteine. They are found in prokaryotes and...; Region: thiolase; cd00751 316385007101 dimer interface [polypeptide binding]; other site 316385007102 active site 316385007103 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4676 316385007104 Uncharacterized protein conserved in bacteria (DUF2135); Region: DUF2135; pfam09906 316385007105 Predicted secreted protein [Function unknown]; Region: COG5445 316385007106 Predicted secreted protein (DUF2300); Region: DUF2300; pfam10062 316385007107 Predicted secreted protein [Function unknown]; Region: COG5445 316385007108 Stage II sporulation protein; Region: SpoIID; pfam08486 316385007109 Predicted secreted protein (DUF2300); Region: DUF2300; pfam10062 316385007110 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3234 316385007111 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4685 316385007112 DNA gyrase subunit A; Validated; Region: PRK05560 316385007113 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 316385007114 CAP-like domain; other site 316385007115 active site 316385007116 primary dimer interface [polypeptide binding]; other site 316385007117 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 316385007118 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 316385007119 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 316385007120 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 316385007121 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 316385007122 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 316385007123 bifunctional 3-demethylubiquinone-9 3-methyltransferase/ 2-octaprenyl-6-hydroxy phenol methylase; Provisional; Region: PRK05134 316385007124 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 316385007125 S-adenosylmethionine binding site [chemical binding]; other site 316385007126 adhesin; Provisional; Region: PRK09752 316385007127 Pertactin-like passenger domains (virulence factors), C-terminal, subgroup 2, of autotransporter proteins of the type V secretion system of Gram-negative bacteria. This subgroup includes the passenger domains of the nonprotease autotransporters, Ag43; Region: PL2_Passenger_AT; cd01344 316385007128 Autotransporter beta-domain; Region: Autotransporter; pfam03797 316385007129 ribonucleotide-diphosphate reductase subunit alpha; Validated; Region: PRK09103 316385007130 ATP cone domain; Region: ATP-cone; pfam03477 316385007131 Class I ribonucleotide reductase; Region: RNR_I; cd01679 316385007132 active site 316385007133 dimer interface [polypeptide binding]; other site 316385007134 catalytic residues [active] 316385007135 effector binding site; other site 316385007136 R2 peptide binding site; other site 316385007137 Ribonucleotide Reductase, R2/beta subunit, ferritin-like diiron-binding domain; Region: RNRR2; cd01049 316385007138 dimer interface [polypeptide binding]; other site 316385007139 putative radical transfer pathway; other site 316385007140 diiron center [ion binding]; other site 316385007141 tyrosyl radical; other site 316385007142 Ferredoxin [Energy production and conversion]; Region: Fdx; COG0633 316385007143 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 316385007144 catalytic loop [active] 316385007145 iron binding site [ion binding]; other site 316385007146 hypothetical protein; Provisional; Region: PRK09902 316385007147 hypothetical protein; Provisional; Region: PRK09729 316385007148 glycerophosphodiester phosphodiesterase; Provisional; Region: glpQ; PRK11143 316385007149 Glycerophosphodiester phosphodiesterase domain of Escherichia coli (GlpQ) and similar proteins; Region: GDPD_EcGlpQ_like; cd08600 316385007150 active site 316385007151 catalytic site [active] 316385007152 metal binding site [ion binding]; metal-binding site 316385007153 sn-glycerol-3-phosphate transporter; Provisional; Region: glpT; PRK11273 316385007154 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 316385007155 putative substrate translocation pore; other site 316385007156 sn-glycerol-3-phosphate dehydrogenase subunit A; Provisional; Region: glpA; PRK11101 316385007157 hydroxyglutarate oxidase; Provisional; Region: PRK11728 316385007158 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; pfam04324 316385007159 Anaerobic glycerol-3-phosphate dehydrogenase [Amino acid transport and metabolism]; Region: GlpB; COG3075 316385007160 anaerobic glycerol-3-phosphate dehydrogenase subunit B; Validated; Region: PRK05329 316385007161 glycerol-3-phosphate dehydrogenase, anaerobic, C subunit; Region: glycerol3P_GlpC; TIGR03379 316385007162 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 316385007163 Cysteine-rich domain; Region: CCG; pfam02754 316385007164 Cysteine-rich domain; Region: CCG; pfam02754 316385007165 hypothetical protein; Provisional; Region: PRK09956 316385007166 Putative transposase, YhgA-like; Region: Transposase_31; pfam04754 316385007167 predicted protein (pseudogene) 316385007168 2-keto-3-deoxy-L-rhamnonate aldolase; Provisional; Region: PRK10128 316385007169 4-hydroxyphenylacetate permease; Region: HpaX; TIGR02332 316385007170 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 316385007171 putative substrate translocation pore; other site 316385007172 L-rhamnonate dehydratase; Provisional; Region: PRK15440 316385007173 Mandelate racemase (MR)-like subfamily of the enolase superfamily, subgroup 2. Enzymes of this subgroup share three conserved carboxylate ligands for the essential divalent metal ion (usually Mg2+), two aspartates and a glutamate, and conserved catalytic...; Region: MR_like_2; cd03327 316385007174 putative active site pocket [active] 316385007175 putative metal binding site [ion binding]; other site 316385007176 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 316385007177 Transcriptional regulator [Transcription]; Region: IclR; COG1414 316385007178 Bacterial transcriptional regulator; Region: IclR; pfam01614 316385007179 hypothetical protein; Provisional; Region: PRK03673 316385007180 Competence-damaged protein. CinA is the first gene in the competence- inducible (cin) operon and is thought to be specifically required at some stage in the process of transformation. This domain is closely related to a domain, found in a variety of...; Region: cinA; cd00885 316385007181 putative MPT binding site; other site 316385007182 Competence-damaged protein; Region: CinA; cl00666 316385007183 YfaZ precursor; Region: YfaZ; pfam07437 316385007184 outer membrane protein; Region: OMP_w_GlyGly; TIGR04219 316385007185 nucleoside triphosphatase NudI; Provisional; Region: PRK15472 316385007186 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; cd07040 316385007187 catalytic core [active] 316385007188 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 316385007189 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 316385007190 inhibitor-cofactor binding pocket; inhibition site 316385007191 pyridoxal 5'-phosphate binding site [chemical binding]; other site 316385007192 catalytic residue [active] 316385007193 undecaprenyl phosphate 4-deoxy-4-formamido-L-arabinose transferase; Provisional; Region: PRK10714 316385007194 Bacterial DPM1_like enzymes are related to eukaryotic DPM1; Region: DPM1_like_bac; cd04187 316385007195 Ligand binding site; other site 316385007196 Putative Catalytic site; other site 316385007197 DXD motif; other site 316385007198 bifunctional UDP-glucuronic acid decarboxylase/UDP-4-amino-4-deoxy-L-arabinose formyltransferase; Validated; Region: PRK08125 316385007199 ArnA, N-terminal formyltransferase domain; Region: FMT_core_ArnA_N; cd08644 316385007200 substrate binding site [chemical binding]; other site 316385007201 cosubstrate binding site; other site 316385007202 catalytic site [active] 316385007203 C-terminal subdomain of the formyltransferase domain on ArnA, which modifies lipid A with 4-amino-4-deoxy-l-arabinose; Region: Arna_FMT_C; cd08702 316385007204 active site 316385007205 hexamer interface [polypeptide binding]; other site 316385007206 Arna decarboxylase_like, extended (e) SDRs; Region: Arna_like_SDR_e; cd05257 316385007207 NAD binding site [chemical binding]; other site 316385007208 substrate binding site [chemical binding]; other site 316385007209 active site 316385007210 4-deoxy-4-formamido-L-arabinose-phosphoundecaprenol deformylase ArnD; Provisional; Region: PRK15394 316385007211 Catalytic domain of Escherichia coli 4-deoxy-4-formamido-L-arabinose-phosphoundecaprenol deformylase ArnD and other bacterial homologs; Region: CE4_ArnD; cd10939 316385007212 putative active site [active] 316385007213 putative catalytic site [active] 316385007214 putative Zn binding site [ion binding]; other site 316385007215 4-amino-4-deoxy-L-arabinose transferase; Provisional; Region: arnT; PRK13279 316385007216 4-amino-4-deoxy-L-arabinose transferase and related glycosyltransferases of PMT family [Cell envelope biogenesis, outer membrane]; Region: ArnT; COG1807 316385007217 4-amino-4-deoxy-L-arabinose-phosphoundecaprenol flippase subunit ArnE; Provisional; Region: PRK15051 316385007218 4-amino-4-deoxy-L-arabinose-phosphoundecaprenol flippase subunit ArnF; Provisional; Region: PRK02971 316385007219 signal transduction protein PmrD; Provisional; Region: PRK15450 316385007220 O-succinylbenzoic acid--CoA ligase; Provisional; Region: PRK09029 316385007221 O-succinylbenzoate-CoA ligase (also known as O-succinylbenzoate-CoA synthase, OSB-CoA synthetase, or MenE); Region: OSB_CoA_lg; cd05912 316385007222 acyl-activating enzyme (AAE) consensus motif; other site 316385007223 putative AMP binding site [chemical binding]; other site 316385007224 putative active site [active] 316385007225 putative CoA binding site [chemical binding]; other site 316385007226 O-succinylbenzoate synthase; Provisional; Region: PRK05105 316385007227 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 316385007228 active site 316385007229 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 316385007230 Enoyl-CoA hydratase/isomerase family; Region: ECH; pfam00378 316385007231 substrate binding site [chemical binding]; other site 316385007232 oxyanion hole (OAH) forming residues; other site 316385007233 trimer interface [polypeptide binding]; other site 316385007234 2-succinyl-6-hydroxy-2, 4-cyclohexadiene-1-carboxylate synthase; Provisional; Region: PRK11126 316385007235 Lipase. Lipases are esterases that can hydrolyze long-chain acyl-triglycerides into di- and monoglycerides, glycerol, and free fatty acids at a water/lipid interface. A typical feature of lipases is "interfacial activation", the process of...; Region: Lipase; cl14883 316385007236 nucleophilic elbow; other site 316385007237 catalytic triad; other site 316385007238 2-succinyl-5-enolpyruvyl-6-hydroxy-3-cyclohexene-1- carboxylate synthase; Validated; Region: PRK07449 316385007239 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 316385007240 dimer interface [polypeptide binding]; other site 316385007241 tetramer interface [polypeptide binding]; other site 316385007242 PYR/PP interface [polypeptide binding]; other site 316385007243 TPP binding site [chemical binding]; other site 316385007244 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 316385007245 TPP-binding site; other site 316385007246 menaquinone-specific isochorismate synthase; Provisional; Region: PRK15012 316385007247 isochorismate synthases; Region: isochor_syn; TIGR00543 316385007248 hypothetical protein; Provisional; Region: PRK10404 316385007249 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 316385007250 Coenzyme A binding pocket [chemical binding]; other site 316385007251 deubiquitinase; Provisional; Region: PRK11836 316385007252 M28 Zn-Peptidases; Region: M28_like_1; cd05640 316385007253 Peptidase family M28; Region: Peptidase_M28; pfam04389 316385007254 metal binding site [ion binding]; metal-binding site 316385007255 Domain of unknown function (DUF1877); Region: DUF1877; pfam08974 316385007256 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 316385007257 NADH:ubiquinone oxidoreductase subunit N; Provisional; Region: PRK05777 316385007258 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 316385007259 NADH:ubiquinone oxidoreductase subunit M; Reviewed; Region: PRK05846 316385007260 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 316385007261 NADH:ubiquinone oxidoreductase subunit L; Reviewed; Region: PRK06590 316385007262 NADH-Ubiquinone oxidoreductase (complex I), chain 5 N-terminus; Region: Oxidored_q1_N; pfam00662 316385007263 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 316385007264 NADH:ubiquinone oxidoreductase subunit K; Validated; Region: PRK05715 316385007265 NADH:ubiquinone oxidoreductase subunit J; Provisional; Region: PRK06638 316385007266 NADH dehydrogenase subunit I; Provisional; Region: PRK05888 316385007267 4Fe-4S binding domain; Region: Fer4; pfam00037 316385007268 4Fe-4S binding domain; Region: Fer4; pfam00037 316385007269 NADH:ubiquinone oxidoreductase subunit H; Provisional; Region: PRK06076 316385007270 NADH dehydrogenase/NADH:ubiquinone oxidoreductase 75 kD subunit (chain G) [Energy production and conversion]; Region: NuoG; COG1034 316385007271 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 316385007272 catalytic loop [active] 316385007273 iron binding site [ion binding]; other site 316385007274 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; pfam10588 316385007275 MopB_NDH-1_NuoG2-N7: The second domain of the NuoG subunit (with a [4Fe-4S] cluster, N7) of the NADH-quinone oxidoreductase/NADH dehydrogenase-1 (NDH-1) found in various bacteria. The NDH-1 is the first energy-transducting complex in the respiratory...; Region: MopB_NDH-1_NuoG2-N7; cd02771 316385007276 [4Fe-4S] binding site [ion binding]; other site 316385007277 MopB_CT_NDH-1_NuoG2-N7: C-terminal region of the NuoG-like subunit (of the variant with a [4Fe-4S] cluster, N7) of the NADH-quinone oxidoreductase/NADH dehydrogenase-1 (NDH-1) found in various bacteria. The NDH-1 is the first energy-transducting complex...; Region: MopB_CT_NDH-1_NuoG2-N7; cd02788 316385007278 NADH dehydrogenase I subunit F; Provisional; Region: PRK11278 316385007279 SLBB domain; Region: SLBB; pfam10531 316385007280 NADH-ubiquinone oxidoreductase-F iron-sulfur binding region; Region: NADH_4Fe-4S; pfam10589 316385007281 NADH dehydrogenase subunit E; Validated; Region: PRK07539 316385007282 TRX-like [2Fe-2S] Ferredoxin (Fd) family, NADH:ubiquinone oxidoreductase (Nuo) subunit E subfamily; Nuo, also called respiratory chain Complex 1, is the entry point for electrons into the respiratory chains of bacteria and the mitochondria of eukaryotes; Region: TRX_Fd_NuoE; cd03064 316385007283 putative dimer interface [polypeptide binding]; other site 316385007284 [2Fe-2S] cluster binding site [ion binding]; other site 316385007285 bifunctional NADH:ubiquinone oxidoreductase subunit C/D; Provisional; Region: PRK11742 316385007286 NADH (or F420H2) dehydrogenase, subunit C; Region: NuoC_fam; TIGR01961 316385007287 NADH dehydrogenase subunit D; Validated; Region: PRK06075 316385007288 NADH:ubiquinone oxidoreductase 20 kD subunit and related Fe-S oxidoreductases [Energy production and conversion]; Region: NuoB; COG0377 316385007289 NADH:ubiquinone oxidoreductase subunit A; Validated; Region: PRK06602 316385007290 DNA-binding transcriptional repressor LrhA; Provisional; Region: PRK15092 316385007291 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 316385007292 The C-terminal substrate domain of LysR-like regulator LrhA (LysR homologue A) and that of closely related homologs, contains the type 2 periplasmic binding fold; Region: PBP2_LrhA_like; cd08439 316385007293 putative dimerization interface [polypeptide binding]; other site 316385007294 aminotransferase AlaT; Validated; Region: PRK09265 316385007295 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 316385007296 pyridoxal 5'-phosphate binding site [chemical binding]; other site 316385007297 homodimer interface [polypeptide binding]; other site 316385007298 catalytic residue [active] 316385007299 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 316385007300 Zn2+ binding site [ion binding]; other site 316385007301 Mg2+ binding site [ion binding]; other site 316385007302 putative phosphatase; Provisional; Region: PRK11587 316385007303 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 316385007304 motif II; other site 316385007305 hypothetical protein; Validated; Region: PRK05445 316385007306 hypothetical protein; Provisional; Region: PRK01816 316385007307 propionate/acetate kinase; Provisional; Region: PRK12379 316385007308 acetate kinase A/propionate kinase 2; Reviewed; Region: PRK00180 316385007309 phosphate acetyltransferase; Reviewed; Region: PRK05632 316385007310 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 316385007311 DRTGG domain; Region: DRTGG; pfam07085 316385007312 phosphate acetyltransferase; Region: pta; TIGR00651 316385007313 hypothetical protein; Provisional; Region: PRK11588 316385007314 C4-dicarboxylate anaerobic carrier; Region: DcuC; pfam03606 316385007315 NUDIX hydrolase YfcD; Provisional; Region: PRK15393 316385007316 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_38; cd04697 316385007317 nudix motif; other site 316385007318 Escherichia coli YfcE and related proteins, metallophosphatase domain; Region: MPP_YfcE; cd00841 316385007319 active site 316385007320 metal binding site [ion binding]; metal-binding site 316385007321 homotetramer interface [polypeptide binding]; other site 316385007322 glutathione S-transferase; Provisional; Region: PRK15113 316385007323 Glutathione S-transferase (GST) family, N-terminal domain; a large, diverse group of cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with a wide range of endogenous and xenobiotic...; Region: GST_N_family; cd00570 316385007324 C-terminal domain interface [polypeptide binding]; other site 316385007325 GSH binding site (G-site) [chemical binding]; other site 316385007326 dimer interface [polypeptide binding]; other site 316385007327 C-terminal, alpha helical domain of an unknown subfamily 4 of Glutathione S-transferases; Region: GST_C_4; cd03195 316385007328 N-terminal domain interface [polypeptide binding]; other site 316385007329 putative dimer interface [polypeptide binding]; other site 316385007330 putative substrate binding pocket (H-site) [chemical binding]; other site 316385007331 GSH-dependent disulfide bond oxidoreductase; Provisional; Region: PRK13972 316385007332 GST_N family, Ure2p-like subfamily; composed of the Saccharomyces cerevisiae Ure2p and related GSTs. Ure2p is a regulator for nitrogen catabolism in yeast. It represses the expression of several gene products involved in the use of poor nitrogen sources...; Region: GST_N_Ure2p_like; cd03048 316385007333 C-terminal domain interface [polypeptide binding]; other site 316385007334 GSH binding site (G-site) [chemical binding]; other site 316385007335 dimer interface [polypeptide binding]; other site 316385007336 C-terminal, alpha helical domain of Escherichia coli YfcG Glutathione S-transferases and related uncharacterized proteins; Region: GST_C_YfcG_like; cd10291 316385007337 N-terminal domain interface [polypeptide binding]; other site 316385007338 putative dimer interface [polypeptide binding]; other site 316385007339 active site 316385007340 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 316385007341 homooctamer interface [polypeptide binding]; other site 316385007342 active site 316385007343 atypical (a) SDRs, subgroup 8; Region: SDR_a8; cd05242 316385007344 Predicted nucleoside-diphosphate sugar epimerase [General function prediction only]; Region: COG1090 316385007345 putative NAD(P) binding site [chemical binding]; other site 316385007346 putative active site [active] 316385007347 putative transposase; Provisional; Region: PRK09857 316385007348 Putative transposase, YhgA-like; Region: Transposase_31; pfam04754 316385007349 histidine/lysine/arginine/ornithine transporter subunit; Provisional; Region: PRK10619 316385007350 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 316385007351 Walker A/P-loop; other site 316385007352 ATP binding site [chemical binding]; other site 316385007353 Q-loop/lid; other site 316385007354 ABC transporter signature motif; other site 316385007355 Walker B; other site 316385007356 D-loop; other site 316385007357 H-loop/switch region; other site 316385007358 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 316385007359 dimer interface [polypeptide binding]; other site 316385007360 conserved gate region; other site 316385007361 putative PBP binding loops; other site 316385007362 ABC-ATPase subunit interface; other site 316385007363 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 316385007364 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 316385007365 dimer interface [polypeptide binding]; other site 316385007366 conserved gate region; other site 316385007367 putative PBP binding loops; other site 316385007368 ABC-ATPase subunit interface; other site 316385007369 histidine ABC transporter substrate-binding protein HisJ; Provisional; Region: PRK15437 316385007370 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 316385007371 substrate binding pocket [chemical binding]; other site 316385007372 membrane-bound complex binding site; other site 316385007373 hinge residues; other site 316385007374 ABC transporter lysine/arginine/ornithine binding periplasmic protein; Provisional; Region: PRK15010 316385007375 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 316385007376 substrate binding pocket [chemical binding]; other site 316385007377 membrane-bound complex binding site; other site 316385007378 hinge residues; other site 316385007379 3-octaprenyl-4-hydroxybenzoate carboxy-lyase; Provisional; Region: PRK06029 316385007380 Flavoprotein; Region: Flavoprotein; pfam02441 316385007381 amidophosphoribosyltransferase; Provisional; Region: PRK09246 316385007382 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 316385007383 active site 316385007384 tetramer interface [polypeptide binding]; other site 316385007385 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 316385007386 active site 316385007387 colicin V production protein; Provisional; Region: PRK10845 316385007388 Uncharacterized membrane protein, required for colicin V production [General function prediction only]; Region: CvpA; COG1286 316385007389 cell division protein DedD; Provisional; Region: PRK11633 316385007390 Sporulation related domain; Region: SPOR; pfam05036 316385007391 bifunctional folylpolyglutamate synthase/ dihydrofolate synthase; Provisional; Region: PRK10846 316385007392 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 316385007393 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 316385007394 acetyl-CoA carboxylase subunit beta; Validated; Region: PRK05654 316385007395 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189; cl17682 316385007396 hypothetical protein; Provisional; Region: PRK10847 316385007397 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 316385007398 tRNA pseudouridine synthase A; Validated; Region: truA; PRK00021 316385007399 Eukaryotic and bacterial pseudouridine synthases similar to E. coli TruA; Region: PseudoU_synth_EcTruA; cd02570 316385007400 dimerization interface 3.5A [polypeptide binding]; other site 316385007401 active site 316385007402 putative semialdehyde dehydrogenase; Provisional; Region: PRK08040 316385007403 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 316385007404 erythronate-4-phosphate dehydrogenase PdxB; Provisional; Region: PRK15438 316385007405 D-Erythronate-4-Phosphate Dehydrogenase NAD-binding and catalytic domains; Region: ErythrP_dh; cd12158 316385007406 ligand binding site [chemical binding]; other site 316385007407 NAD binding site [chemical binding]; other site 316385007408 catalytic site [active] 316385007409 homodimer interface [polypeptide binding]; other site 316385007410 flagella biosynthesis regulator; Provisional; Region: flk; PRK10715 316385007411 putative transporter; Provisional; Region: PRK12382 316385007412 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 316385007413 putative substrate translocation pore; other site 316385007414 3-oxoacyl-(acyl carrier protein) synthase I; Reviewed; Region: PRK07967 316385007415 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 316385007416 dimer interface [polypeptide binding]; other site 316385007417 active site 316385007418 Uncharacterized conserved protein [Function unknown]; Region: COG4121 316385007419 bifunctional tRNA (mnm(5)s(2)U34)-methyltransferase/FAD-dependent cmnm(5)s(2)U34 oxidoreductase; Reviewed; Region: mnmC; PRK01747 316385007420 YfcL protein; Region: YfcL; pfam08891 316385007421 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3101 316385007422 hypothetical protein; Provisional; Region: PRK10621 316385007423 Predicted permeases [General function prediction only]; Region: COG0730 316385007424 Murein endopeptidase [Cell envelope biogenesis, outer membrane]; Region: MepA; COG3770 316385007425 penicillin-insensitive murein endopeptidase; Reviewed; Region: mepA; PRK09429 316385007426 Chorismate synthase [Amino acid transport and metabolism]; Region: AroC; COG0082 316385007427 Chorismase synthase, the enzyme catalyzing the final step of the shikimate pathway; Region: Chorismate_synthase; cd07304 316385007428 Tetramer interface [polypeptide binding]; other site 316385007429 active site 316385007430 FMN-binding site [chemical binding]; other site 316385007431 HemK family putative methylases; Region: hemK_fam; TIGR00536 316385007432 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 316385007433 S-adenosylmethionine binding site [chemical binding]; other site 316385007434 hypothetical protein; Provisional; Region: PRK04946 316385007435 Smr domain; Region: Smr; pfam01713 316385007436 Protein of unknown function (DUF2544); Region: DUF2544; pfam11245 316385007437 Fimbrial protein; Region: Fimbrial; cl01416 316385007438 Fimbrial protein; Region: Fimbrial; cl01416 316385007439 Fimbrial protein; Region: Fimbrial; cl01416 316385007440 Gram-negative pili assembly chaperone, N-terminal domain; Region: Pili_assembly_N; pfam00345 316385007441 Gram-negative pili assembly chaperone, C-terminal domain; Region: Pili_assembly_C; pfam02753 316385007442 Type VII secretion system (T7SS), usher protein; Region: Usher; pfam00577 316385007443 PapC C-terminal domain; Region: PapC_C; pfam13953 316385007444 PapC N-terminal domain; Region: PapC_N; pfam13954 316385007445 Type VII secretion system (T7SS), usher protein; Region: Usher; pfam00577 316385007446 P pilus assembly protein, pilin FimA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimA; COG3539 316385007447 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 316385007448 catalytic core [active] 316385007449 multifunctional fatty acid oxidation complex subunit alpha; Reviewed; Region: fadJ; PRK11154 316385007450 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 316385007451 substrate binding site [chemical binding]; other site 316385007452 oxyanion hole (OAH) forming residues; other site 316385007453 trimer interface [polypeptide binding]; other site 316385007454 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 316385007455 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 316385007456 3-ketoacyl-CoA thiolase; Reviewed; Region: fadI; PRK08963 316385007457 Thiolase are ubiquitous enzymes that catalyze the reversible thiolytic cleavage of 3-ketoacyl-CoA into acyl-CoA and acetyl-CoA, a 2-step reaction involving a covalent intermediate formed with a catalytic cysteine. They are found in prokaryotes and...; Region: thiolase; cd00751 316385007458 dimer interface [polypeptide binding]; other site 316385007459 active site 316385007460 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3691 316385007461 long-chain fatty acid outer membrane transporter; Provisional; Region: PRK10716 316385007462 ABC transporter outer membrane lipoprotein; Provisional; Region: PRK15091 316385007463 Formate/nitrite family of transporters [Inorganic ion transport and metabolism]; Region: FocA; COG2116 316385007464 integrase; Provisional; Region: PRK09692 316385007465 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 316385007466 active site 316385007467 Int/Topo IB signature motif; other site 316385007468 Predicted membrane protein [Function unknown]; Region: COG2246 316385007469 undecaprenyl phosphate 4-deoxy-4-formamido-L-arabinose transferase; Provisional; Region: PRK10714 316385007470 Bacterial DPM1_like enzymes are related to eukaryotic DPM1; Region: DPM1_like_bac; cd04187 316385007471 Ligand binding site; other site 316385007472 Putative Catalytic site; other site 316385007473 DXD motif; other site 316385007474 CPS-53 (KpLE1) prophage; tail fiber assembly protein fragment (pseudogene) 316385007475 Caudovirales tail fibre assembly protein; Region: Caudo_TAP; pfam02413 316385007476 DNA N-6-adenine-methyltransferase (Dam); Region: Dam; cl05442 316385007477 PerC transcriptional activator; Region: PerC; pfam06069 316385007478 Uncharacterized conserved protein [Function unknown]; Region: COG5532 316385007479 Predicted hydrolases of HD superfamily [General function prediction only]; Region: COG1896 316385007480 Prophage CP4-57 regulatory protein (AlpA); Region: Phage_AlpA; cl17523 316385007481 DNA-binding transcriptional regulator DsdC; Provisional; Region: PRK10086 316385007482 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 316385007483 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 316385007484 dimerization interface [polypeptide binding]; other site 316385007485 substrate binding pocket [chemical binding]; other site 316385007486 permease DsdX; Provisional; Region: PRK09921 316385007487 gluconate transporter; Region: gntP; TIGR00791 316385007488 D-Serine dehydratase is a pyridoxal phosphate (PLP)-dependent enzyme which catalyzes the conversion of L- or D-serine to pyruvate and ammonia. D-serine dehydratase serves as a detoxifying enzyme in most E. coli strains where D-serine is a competitive...; Region: D-Ser-dehyd; cd06447 316385007489 Pyridoxal-phosphate dependent enzyme; Region: PALP; pfam00291 316385007490 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 316385007491 catalytic residue [active] 316385007492 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 316385007493 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 316385007494 putative substrate translocation pore; other site 316385007495 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 316385007496 efflux pump membrane protein (multidrug resistance protein A); Region: 8a0101; TIGR00998 316385007497 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 316385007498 HlyD family secretion protein; Region: HlyD_3; pfam13437 316385007499 DNA-binding transcriptional activator EvgA; Provisional; Region: PRK09958 316385007500 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 316385007501 active site 316385007502 phosphorylation site [posttranslational modification] 316385007503 intermolecular recognition site; other site 316385007504 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 316385007505 DNA binding residues [nucleotide binding] 316385007506 dimerization interface [polypeptide binding]; other site 316385007507 putative CoA-transferase; Provisional; Region: PRK11430 316385007508 CoA-transferase family III; Region: CoA_transf_3; pfam02515 316385007509 putative transporter YfdV; Provisional; Region: PRK09903 316385007510 putative oxalyl-CoA decarboxylase; Validated; Region: PRK09259 316385007511 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 316385007512 PYR/PP interface [polypeptide binding]; other site 316385007513 dimer interface [polypeptide binding]; other site 316385007514 TPP binding site [chemical binding]; other site 316385007515 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 316385007516 Thiamine pyrophosphate (TPP) family, BZL_OCoD_HPCL subfamily, TPP-binding module; composed of proteins similar to benzaldehyde lyase (BZL), oxalyl-CoA decarboxylase (OCoD) and 2-hydroxyphytanoyl-CoA lyase (2-HPCL). Pseudomonas fluorescens biovar I BZL...; Region: TPP_BZL_OCoD_HPCL; cd02004 316385007517 TPP-binding site; other site 316385007518 dimer interface [polypeptide binding]; other site 316385007519 formyl-coenzyme A transferase; Provisional; Region: PRK05398 316385007520 CoA-transferase family III; Region: CoA_transf_3; pfam02515 316385007521 hypothetical protein; Provisional; Region: PRK10316 316385007522 YfdX protein; Region: YfdX; pfam10938 316385007523 Protein of unknown function (DUF2545); Region: DUF2545; pfam10810 316385007524 Bacterial lipid A biosynthesis acyltransferase; Region: Lip_A_acyltrans; pfam03279 316385007525 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 316385007526 putative acyl-acceptor binding pocket; other site 316385007527 aminotransferase; Validated; Region: PRK08175 316385007528 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 316385007529 pyridoxal 5'-phosphate binding site [chemical binding]; other site 316385007530 homodimer interface [polypeptide binding]; other site 316385007531 catalytic residue [active] 316385007532 Putative regulator of cell autolysis [Signal transduction mechanisms]; Region: LytS; COG3275 316385007533 5TMR of 5TMR-LYT; Region: 5TM-5TMR_LYT; pfam07694 316385007534 GAF domain; Region: GAF; pfam01590 316385007535 Histidine kinase; Region: His_kinase; pfam06580 316385007536 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 316385007537 ATP binding site [chemical binding]; other site 316385007538 Mg2+ binding site [ion binding]; other site 316385007539 G-X-G motif; other site 316385007540 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 316385007541 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 316385007542 active site 316385007543 phosphorylation site [posttranslational modification] 316385007544 intermolecular recognition site; other site 316385007545 dimerization interface [polypeptide binding]; other site 316385007546 LytTr DNA-binding domain; Region: LytTR; pfam04397 316385007547 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 316385007548 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 316385007549 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 316385007550 dimerization domain swap beta strand [polypeptide binding]; other site 316385007551 regulatory protein interface [polypeptide binding]; other site 316385007552 active site 316385007553 regulatory phosphorylation site [posttranslational modification]; other site 316385007554 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 316385007555 Phosphoenolpyruvate-protein kinase (PTS system EI component in bacteria) [Carbohydrate transport and metabolism]; Region: PtsA; COG1080 316385007556 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 316385007557 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 316385007558 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 316385007559 active site 316385007560 phosphorylation site [posttranslational modification] 316385007561 exoaminopeptidase; Provisional; Region: PRK09961 316385007562 M42 Peptidases, also known as glutamyl aminopeptidase family; Region: M42; cd05638 316385007563 oligomer interface [polypeptide binding]; other site 316385007564 active site 316385007565 metal binding site [ion binding]; metal-binding site 316385007566 aminopeptidase; Provisional; Region: PRK09795 316385007567 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 316385007568 Similar to Prolidase and Aminopeptidase P. The members of this subfamily presumably catalyse hydrolysis of Xaa-Pro dipeptides and/or release of any N-terminal amino acid, including proline, that is linked with proline; Region: APP-like; cd01092 316385007569 active site 316385007570 Phosphotransferase system, fructose-specific IIC component [Carbohydrate transport and metabolism]; Region: FruA; COG1299 316385007571 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 316385007572 active site 316385007573 P-loop; other site 316385007574 phosphorylation site [posttranslational modification] 316385007575 glucokinase, proteobacterial type; Region: glk; TIGR00749 316385007576 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 316385007577 nucleotide binding site [chemical binding]; other site 316385007578 Chloride channel protein EriC [Inorganic ion transport and metabolism]; Region: EriC; COG0038 316385007579 CLC voltage-gated chloride channel. The ClC chloride channels catalyse the selective flow of Cl- ions across cell membranes, thereby regulating electrical excitation in skeletal muscle and the flow of salt and water across epithelial barriers. This...; Region: Voltage_gated_ClC; cd00400 316385007580 Cl- selectivity filter; other site 316385007581 Cl- binding residues [ion binding]; other site 316385007582 pore gating glutamate residue; other site 316385007583 dimer interface [polypeptide binding]; other site 316385007584 Protein of unknown function (DUF2502); Region: DUF2502; pfam10697 316385007585 manganese transport protein MntH; Reviewed; Region: PRK00701 316385007586 Natural resistance-associated macrophage protein; Region: Nramp; pfam01566 316385007587 Nucleoside permease [Nucleotide transport and metabolism]; Region: NupC; COG1972 316385007588 Na+ dependent nucleoside transporter N-terminus; Region: Nucleos_tra2_N; pfam01773 316385007589 Nucleoside recognition; Region: Gate; pfam07670 316385007590 Na+ dependent nucleoside transporter C-terminus; Region: Nucleos_tra2_C; pfam07662 316385007591 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 316385007592 FOG: Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3385 316385007593 MASE1; Region: MASE1; pfam05231 316385007594 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 316385007595 diguanylate cyclase; Region: GGDEF; smart00267 316385007596 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 316385007597 Putative transcription regulator (DUF1323); Region: DUF1323; pfam07037 316385007598 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 316385007599 salt bridge; other site 316385007600 non-specific DNA binding site [nucleotide binding]; other site 316385007601 sequence-specific DNA binding site [nucleotide binding]; other site 316385007602 glutamyl-tRNA synthetase; Reviewed; Region: gltX; PRK01406 316385007603 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 316385007604 active site 316385007605 HIGH motif; other site 316385007606 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 316385007607 active site 316385007608 KMSKS motif; other site 316385007609 DNA-binding transcriptional activator XapR; Provisional; Region: PRK09986 316385007610 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 316385007611 The C-terminal substrate binding domain of LysR-type transcriptional regulator XapR involved in xanthosine catabolism, contains the type 2 periplasmic binding fold; Region: PBP2_XapR; cd08449 316385007612 putative dimerization interface [polypeptide binding]; other site 316385007613 putative substrate binding pocket [chemical binding]; other site 316385007614 nucleoside transporter; Region: 2A0110; TIGR00889 316385007615 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 316385007616 putative substrate translocation pore; other site 316385007617 purine nucleoside phosphorylase; Provisional; Region: PRK08202 316385007618 hypothetical protein; Provisional; Region: PRK11528 316385007619 Transcriptional regulator [Transcription]; Region: LysR; COG0583 316385007620 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 316385007621 TThe C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator, contains the type 2 periplasmic binding fold; Region: PBP2_LTTR_like_4; cd08440 316385007622 putative dimerization interface [polypeptide binding]; other site 316385007623 Predicted Na+-dependent transporter [General function prediction only]; Region: COG0385 316385007624 SBF-like CPA transporter family (DUF4137); Region: DUF4137; pfam13593 316385007625 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3530 316385007626 NAD-dependent DNA ligase LigA; Validated; Region: ligA; PRK07956 316385007627 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 316385007628 nucleotide binding pocket [chemical binding]; other site 316385007629 K-X-D-G motif; other site 316385007630 catalytic site [active] 316385007631 NAD-dependent DNA ligase OB-fold domain; Region: DNA_ligase_OB; pfam03120 316385007632 NAD-dependent DNA ligase C4 zinc finger domain; Region: DNA_ligase_ZBD; pfam03119 316385007633 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 316385007634 Dimer interface [polypeptide binding]; other site 316385007635 BRCT sequence motif; other site 316385007636 ZipA C-terminal domain. ZipA, a membrane-anchored protein, is one of at least nine essential gene products necessary for assembly of the septal ring which mediates cell division in E.coli. ZipA and FtsA directly bind FtsZ, a homolog of eukaryotic...; Region: ZipA; cl12038 316385007637 cell division protein ZipA; Provisional; Region: PRK03427 316385007638 ZipA C-terminal domain. ZipA, a membrane-anchored protein, is one of at least nine essential gene products necessary for assembly of the septal ring which mediates cell division in E.coli. ZipA and FtsA directly bind FtsZ, a homolog of eukaryotic...; Region: ZipA; cd00231 316385007639 FtsZ protein binding site [polypeptide binding]; other site 316385007640 putative sulfate transport protein CysZ; Validated; Region: PRK04949 316385007641 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 316385007642 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 316385007643 dimer interface [polypeptide binding]; other site 316385007644 pyridoxal 5'-phosphate binding site [chemical binding]; other site 316385007645 catalytic residue [active] 316385007646 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 316385007647 dimerization domain swap beta strand [polypeptide binding]; other site 316385007648 regulatory protein interface [polypeptide binding]; other site 316385007649 active site 316385007650 regulatory phosphorylation site [posttranslational modification]; other site 316385007651 phosphoenolpyruvate-protein phosphotransferase; Provisional; Region: PRK11177 316385007652 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 316385007653 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 316385007654 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 316385007655 PTS_IIA, PTS system, glucose/sucrose specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIA_glc; cd00210 316385007656 HPr interaction site; other site 316385007657 glycerol kinase (GK) interaction site [polypeptide binding]; other site 316385007658 active site 316385007659 phosphorylation site [posttranslational modification] 316385007660 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 316385007661 dimer interface [polypeptide binding]; other site 316385007662 pyridoxamine kinase; Validated; Region: PRK05756 316385007663 pyridoxal binding site [chemical binding]; other site 316385007664 ATP binding site [chemical binding]; other site 316385007665 hypothetical protein; Provisional; Region: PRK10318 316385007666 WGR domain of molybdate metabolism regulator and related proteins; Region: WGR_MMR_like; cd07996 316385007667 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4884 316385007668 cysteine synthase B; Region: cysM; TIGR01138 316385007669 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 316385007670 dimer interface [polypeptide binding]; other site 316385007671 pyridoxal 5'-phosphate binding site [chemical binding]; other site 316385007672 catalytic residue [active] 316385007673 sulfate/thiosulfate transporter subunit; Provisional; Region: PRK10851 316385007674 ATP-binding cassette domain of the sulfate transporter; Region: ABC_CysA_sulfate_importer; cd03296 316385007675 Walker A/P-loop; other site 316385007676 ATP binding site [chemical binding]; other site 316385007677 Q-loop/lid; other site 316385007678 ABC transporter signature motif; other site 316385007679 Walker B; other site 316385007680 D-loop; other site 316385007681 H-loop/switch region; other site 316385007682 TOBE-like domain; Region: TOBE_3; pfam12857 316385007683 sulfate transport protein; Provisional; Region: cysT; CHL00187 316385007684 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 316385007685 dimer interface [polypeptide binding]; other site 316385007686 conserved gate region; other site 316385007687 putative PBP binding loops; other site 316385007688 ABC-ATPase subunit interface; other site 316385007689 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 316385007690 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 316385007691 dimer interface [polypeptide binding]; other site 316385007692 conserved gate region; other site 316385007693 putative PBP binding loops; other site 316385007694 ABC-ATPase subunit interface; other site 316385007695 thiosulfate transporter subunit; Provisional; Region: PRK10852 316385007696 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 316385007697 short chain dehydrogenase; Provisional; Region: PRK08226 316385007698 human DHRS6-like, classical (c) SDRs; Region: DHRS6_like_SDR_c; cd05368 316385007699 NAD binding site [chemical binding]; other site 316385007700 homotetramer interface [polypeptide binding]; other site 316385007701 homodimer interface [polypeptide binding]; other site 316385007702 active site 316385007703 transcriptional regulator MurR; Provisional; Region: PRK15482 316385007704 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 316385007705 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 316385007706 putative active site [active] 316385007707 N-acetylmuramic acid-6-phosphate etherase; Reviewed; Region: murQ; PRK05441 316385007708 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 316385007709 putative active site [active] 316385007710 PTS system N-acetylmuramic acid transporter subunits EIIBC; Reviewed; Region: murP; PRK09586 316385007711 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 316385007712 active site turn [active] 316385007713 phosphorylation site [posttranslational modification] 316385007714 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 316385007715 putative periplasmic esterase; Provisional; Region: PRK03642 316385007716 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 316385007717 Dyp-type peroxidase family; Region: Dyp_perox; pfam04261 316385007718 RpoE-regulated lipoprotein; Provisional; Region: PRK10718 316385007719 Protein of unknown function (DUF1131); Region: DUF1131; pfam06572 316385007720 Protein of unknown function (DUF2919); Region: DUF2919; pfam11143 316385007721 putative acetyltransferase; Provisional; Region: PRK03624 316385007722 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 316385007723 Coenzyme A binding pocket [chemical binding]; other site 316385007724 N-acetylmuramoyl-l-alanine amidase I; Provisional; Region: PRK10319 316385007725 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 316385007726 active site 316385007727 metal binding site [ion binding]; metal-binding site 316385007728 coproporphyrinogen III oxidase; Provisional; Region: PRK05330 316385007729 Coproporphyrinogen III oxidase; Region: Coprogen_oxidas; pfam01218 316385007730 transcriptional regulator EutR; Provisional; Region: PRK10130 316385007731 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 316385007732 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 316385007733 carboxysome structural protein EutK; Provisional; Region: PRK15466 316385007734 Carbon dioxide concentrating mechanism K (CcmK)-like proteins, Bacterial Micro-Compartment (BMC) domain; Region: BMC_CcmK_like; cd07045 316385007735 Hexamer interface [polypeptide binding]; other site 316385007736 Hexagonal pore residue; other site 316385007737 ethanolamine utilization protein EutL; Provisional; Region: PRK15405 316385007738 ethanolamine utilization protein S (EutS), Bacterial Micro-Compartment (BMC) domain repeat 1; Region: BMC_EutL_repeat1; cd07049 316385007739 putative hexamer interface [polypeptide binding]; other site 316385007740 putative hexagonal pore; other site 316385007741 ethanolamine utilization protein S (EutS), Bacterial Micro-Compartment (BMC) domain repeat 2; Region: BMC_EutL_repeat2; cd07050 316385007742 putative hexamer interface [polypeptide binding]; other site 316385007743 putative hexagonal pore; other site 316385007744 Ethanolamine ammonia-lyase, small subunit [Amino acid transport and metabolism]; Region: EutC; COG4302 316385007745 Ethanolamine ammonia-lyase, large subunit [Amino acid transport and metabolism]; Region: EutB; COG4303 316385007746 Ethanolamine ammonia lyase large subunit (EutB); Region: EutB; pfam06751 316385007747 integrase; Provisional; Region: PRK09692 316385007748 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 316385007749 active site 316385007750 Int/Topo IB signature motif; other site 316385007751 reactivating factor for ethanolamine ammonia lyase; Provisional; Region: eutA; PRK10719 316385007752 Ethanolamine utilization protein [Amino acid transport and metabolism]; Region: EutH; COG3192 316385007753 ethanol dehydrogenase EutG; Provisional; Region: PRK15454 316385007754 iron-containing alcohol dehydrogenases (Fe-ADH)-like; Region: Fe-ADH; cd08551 316385007755 active site 316385007756 metal binding site [ion binding]; metal-binding site 316385007757 Ethanolamine utilization protein, possible chaperonin [Amino acid transport and metabolism]; Region: EutJ; COG4820 316385007758 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 316385007759 nucleotide binding site [chemical binding]; other site 316385007760 Ethanolamine utilization protein EutE-like; Region: ALDH_EutE; cd07121 316385007761 putative catalytic cysteine [active] 316385007762 Ethanolamine utilisation protein and carboxysome structural protein domain family; Region: EutN_CcmL; cd01614 316385007763 Hexamer/Pentamer interface [polypeptide binding]; other site 316385007764 central pore; other site 316385007765 Carbon dioxide concentrating mechanism/carboxysome shell protein [Secondary metabolites biosynthesis, transport, and catabolism / Energy production and conversion]; Region: CcmK; COG4577 316385007766 1,2-propanediol utilization protein A (PduA), Bacterial Micro-Compartment (BMC) domain; Region: BMC_PduA; cd07059 316385007767 Hexamer interface [polypeptide binding]; other site 316385007768 Putative hexagonal pore residue; other site 316385007769 phosphotransacetylase; Reviewed; Region: eutD; PRK09653 316385007770 ethanolamine utilization cobalamin adenosyltransferase; Provisional; Region: PRK15020 316385007771 ethanolamine utilization protein EutQ; Provisional; Region: PRK15457 316385007772 Ethanolamine utilization protein [Amino acid transport and metabolism]; Region: EutQ; COG4766 316385007773 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cd00882 316385007774 G1 box; other site 316385007775 GTP/Mg2+ binding site [chemical binding]; other site 316385007776 G2 box; other site 316385007777 Switch I region; other site 316385007778 G3 box; other site 316385007779 Switch II region; other site 316385007780 G4 box; other site 316385007781 G5 box; other site 316385007782 1,2-propanediol utilization protein U (PduU)/ethanolamine utilization protein S (EutS), Bacterial Micro-Compartment (BMC) domain; Region: BMC_PduU-EutS; cd07046 316385007783 putative hexamer interface [polypeptide binding]; other site 316385007784 putative hexagonal pore; other site 316385007785 bifunctional malic enzyme oxidoreductase/phosphotransacetylase; Reviewed; Region: PRK07232 316385007786 Malic enzyme, N-terminal domain; Region: malic; pfam00390 316385007787 NAD(P) binding domain of malic enzyme (ME), subgroup 2; Region: NAD_bind_2_malic_enz; cd05311 316385007788 putative NAD(P) binding site [chemical binding]; other site 316385007789 Phosphotransacetylase [Energy production and conversion]; Region: Pta; COG0280 316385007790 transaldolase-like protein; Provisional; Region: PTZ00411 316385007791 Transaldolases including both TalA and TalB; Region: Transaldolase_TalAB; cd00957 316385007792 active site 316385007793 dimer interface [polypeptide binding]; other site 316385007794 catalytic residue [active] 316385007795 transketolase; Reviewed; Region: PRK12753 316385007796 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 316385007797 TPP-binding site [chemical binding]; other site 316385007798 dimer interface [polypeptide binding]; other site 316385007799 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 316385007800 PYR/PP interface [polypeptide binding]; other site 316385007801 dimer interface [polypeptide binding]; other site 316385007802 TPP binding site [chemical binding]; other site 316385007803 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 316385007804 Protein of unknown function (DUF1176); Region: DUF1176; pfam06674 316385007805 GDP-mannose pyrophosphatase NudK; Provisional; Region: PRK15009 316385007806 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 316385007807 dimer interface [polypeptide binding]; other site 316385007808 ADP-ribose binding site [chemical binding]; other site 316385007809 active site 316385007810 nudix motif; other site 316385007811 metal binding site [ion binding]; metal-binding site 316385007812 putative oxidoreductase Fe-S binding subunit; Reviewed; Region: PRK12769 316385007813 4Fe-4S binding domain; Region: Fer4; pfam00037 316385007814 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 316385007815 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 316385007816 nitrate/nitrite sensor protein NarQ; Provisional; Region: PRK10935 316385007817 Type IV pili methyl-accepting chemotaxis transducer N-term; Region: PilJ; pfam13675 316385007818 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 316385007819 dimerization interface [polypeptide binding]; other site 316385007820 Histidine kinase; Region: HisKA_3; pfam07730 316385007821 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 316385007822 ATP binding site [chemical binding]; other site 316385007823 Mg2+ binding site [ion binding]; other site 316385007824 G-X-G motif; other site 316385007825 aminoglycoside/multidrug efflux system; Provisional; Region: PRK10555 316385007826 Protein export membrane protein; Region: SecD_SecF; cl14618 316385007827 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 316385007828 ArsC family; Region: ArsC; pfam03960 316385007829 putative catalytic residues [active] 316385007830 succinyl-diaminopimelate desuccinylase; Reviewed; Region: PRK13009 316385007831 M20 Peptidase proteobacterial DapE encoded N-succinyl-L,L-diaminopimelic acid desuccinylase; Region: M20_DapE_proteobac; cd03891 316385007832 metal binding site [ion binding]; metal-binding site 316385007833 dimer interface [polypeptide binding]; other site 316385007834 hypothetical protein; Provisional; Region: PRK13664 316385007835 putative hydrolase; Provisional; Region: PRK11460 316385007836 Phospholipase/Carboxylesterase; Region: Abhydrolase_2; pfam02230 316385007837 Predicted P-loop ATPase fused to an acetyltransferase [General function prediction only]; Region: COG1444 316385007838 Helicase; Region: Helicase_RecD; pfam05127 316385007839 GNAT acetyltransferase 2; Region: GNAT_acetyltr_2; pfam13718 316385007840 Possible tRNA binding domain; Region: tRNA_bind_2; pfam13725 316385007841 Predicted metalloprotease [General function prediction only]; Region: COG2321 316385007842 Putative neutral zinc metallopeptidase; Region: Zn_peptidase; pfam04228 316385007843 phosphoribosylaminoimidazole-succinocarboxamide synthase; Reviewed; Region: PRK09362 316385007844 bacterial and archaeal 5-aminoimidazole-4-(N-succinylcarboxamide) ribonucleotide (SAICAR) synthase; Region: SAICAR_synt_PurC; cd01415 316385007845 ATP binding site [chemical binding]; other site 316385007846 active site 316385007847 substrate binding site [chemical binding]; other site 316385007848 lipoprotein; Provisional; Region: PRK11679 316385007849 NlpB/DapX lipoprotein; Region: Lipoprotein_18; pfam06804 316385007850 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 316385007851 dihydrodipicolinate synthase; Region: dapA; TIGR00674 316385007852 dimer interface [polypeptide binding]; other site 316385007853 active site 316385007854 catalytic residue [active] 316385007855 glycine cleavage system transcriptional repressor; Provisional; Region: gcvR; PRK11589 316385007856 ACT domains that comprise the Glycine Cleavage System Transcriptional Repressor (GcvR) protein, and other related domains; Region: ACT_GcvR_1; cd04893 316385007857 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 316385007858 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 316385007859 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 316385007860 catalytic triad [active] 316385007861 Fe-S-cluster-containing hydrogenase components 2 [Energy production and conversion]; Region: HycB; COG1142 316385007862 4Fe-4S binding domain; Region: Fer4; pfam00037 316385007863 hydrogenase 4 subunit B; Validated; Region: PRK06521 316385007864 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 316385007865 Formate hydrogenlyase subunit 4 [Energy production and conversion]; Region: HyfC; COG0650 316385007866 NADH dehydrogenase; Region: NADHdh; cl00469 316385007867 hydrogenase 4 subunit D; Validated; Region: PRK06525 316385007868 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 316385007869 hydrogenase 4 membrane subunit; Provisional; Region: hyfE; PRK11492 316385007870 hydrogenase 4 subunit F; Validated; Region: PRK06458 316385007871 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 316385007872 Ni,Fe-hydrogenase III component G [Energy production and conversion]; Region: HycE; COG3262 316385007873 Ni,Fe-hydrogenase III large subunit [Energy production and conversion]; Region: HycE; COG3261 316385007874 NADH dehydrogenase subunit D; Validated; Region: PRK06075; cl17338 316385007875 hydrogenase 4 subunit H; Validated; Region: PRK08222 316385007876 4Fe-4S binding domain; Region: Fer4; pfam00037 316385007877 Ni,Fe-hydrogenase III small subunit [Energy production and conversion]; Region: COG3260 316385007878 formate hydrogenlyase maturation protein HycH; Provisional; Region: PRK15084 316385007879 Transcriptional regulator containing GAF, AAA-type ATPase, and DNA binding domains [Transcription / Signal transduction mechanisms]; Region: FhlA; COG3604 316385007880 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 316385007881 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 316385007882 Walker A motif; other site 316385007883 ATP binding site [chemical binding]; other site 316385007884 Walker B motif; other site 316385007885 arginine finger; other site 316385007886 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 316385007887 putative formate transporter; Provisional; Region: focB; PRK09713 316385007888 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 316385007889 Domain of unknown function DUF20; Region: UPF0118; pfam01594 316385007890 Putative Zn-dependent protease, contains TPR repeats [General function prediction only]; Region: COG4783 316385007891 Peptidase family M48; Region: Peptidase_M48; cl12018 316385007892 Arsenate Reductase (ArsC) family, ArsC subfamily; arsenic reductases similar to that encoded by arsC on the R733 plasmid of Escherichia coli. E. coli ArsC catalyzes the reduction of arsenate [As(V)] to arsenite [As(III)], the first step in the...; Region: ArsC_ArsC; cd03034 316385007893 ArsC family; Region: ArsC; pfam03960 316385007894 catalytic residues [active] 316385007895 ATPase involved in DNA replication initiation [DNA replication, recombination, and repair]; Region: DnaA; COG0593 316385007896 DNA replication initiation factor; Provisional; Region: PRK08084 316385007897 uracil transporter; Provisional; Region: PRK10720 316385007898 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 316385007899 active site 316385007900 phosphoribosylaminoimidazole synthetase; Provisional; Region: PRK05385 316385007901 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 316385007902 dimerization interface [polypeptide binding]; other site 316385007903 putative ATP binding site [chemical binding]; other site 316385007904 phosphoribosylglycinamide formyltransferase; Reviewed; Region: purN; PRK05647 316385007905 Phosphoribosylglycinamide formyltransferase (GAR transformylase, GART); Region: FMT_core_GART; cd08645 316385007906 active site 316385007907 substrate binding site [chemical binding]; other site 316385007908 cosubstrate binding site; other site 316385007909 catalytic site [active] 316385007910 Polyphosphate kinase [Inorganic ion transport and metabolism]; Region: Ppk; COG0855 316385007911 Polyphosphate kinase N-terminal domain; Region: PP_kinase_N; pfam13089 316385007912 Polyphosphate kinase middle domain; Region: PP_kinase; pfam02503 316385007913 Catalytic C-terminal domain, first repeat, of prokaryotic polyphosphate kinase 1 and similar proteins; Region: PLDc_PPK1_C1; cd09114 316385007914 domain interface [polypeptide binding]; other site 316385007915 active site 316385007916 catalytic site [active] 316385007917 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cl15239 316385007918 putative active site [active] 316385007919 catalytic site [active] 316385007920 exopolyphosphatase; Provisional; Region: PRK10854 316385007921 Ppx/GppA phosphatase family; Region: Ppx-GppA; pfam02541 316385007922 MASE1; Region: MASE1; pfam05231 316385007923 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 316385007924 diguanylate cyclase; Region: GGDEF; smart00267 316385007925 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 316385007926 Protein of unknown function (DUF2633); Region: DUF2633; pfam11119 316385007927 Glycine zipper 2TM domain; Region: Rick_17kDa_Anti; cl10470 316385007928 GMP synthase; Reviewed; Region: guaA; PRK00074 316385007929 Type 1 glutamine amidotransferase (GATase1) domain found in GMP synthetase; Region: GATase1_GMP_Synthase; cd01742 316385007930 AMP/PPi binding site [chemical binding]; other site 316385007931 candidate oxyanion hole; other site 316385007932 catalytic triad [active] 316385007933 potential glutamine specificity residues [chemical binding]; other site 316385007934 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 316385007935 ATP Binding subdomain [chemical binding]; other site 316385007936 Ligand Binding sites [chemical binding]; other site 316385007937 Dimerization subdomain; other site 316385007938 inosine 5'-monophosphate dehydrogenase; Reviewed; Region: PRK05567 316385007939 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 316385007940 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 316385007941 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 316385007942 active site 316385007943 exodeoxyribonuclease VII, large subunit; Region: xseA; TIGR00237 316385007944 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 316385007945 generic binding surface II; other site 316385007946 generic binding surface I; other site 316385007947 Protein of unknown function (DUF1407); Region: DUF1407; pfam07191 316385007948 GTP-binding protein Der; Reviewed; Region: PRK00093 316385007949 EngA1 GTPase contains the first domain of EngA; Region: EngA1; cd01894 316385007950 G1 box; other site 316385007951 GTP/Mg2+ binding site [chemical binding]; other site 316385007952 Switch I region; other site 316385007953 G2 box; other site 316385007954 Switch II region; other site 316385007955 G3 box; other site 316385007956 G4 box; other site 316385007957 G5 box; other site 316385007958 EngA2 GTPase contains the second domain of EngA; Region: EngA2; cd01895 316385007959 G1 box; other site 316385007960 GTP/Mg2+ binding site [chemical binding]; other site 316385007961 Switch I region; other site 316385007962 G2 box; other site 316385007963 G3 box; other site 316385007964 Switch II region; other site 316385007965 G4 box; other site 316385007966 G5 box; other site 316385007967 outer membrane biogenesis protein BamB; Provisional; Region: PRK11138 316385007968 PQQ-dependent dehydrogenases and related proteins; Region: PQQ_DH_like; cd00216 316385007969 Trp docking motif [polypeptide binding]; other site 316385007970 active site 316385007971 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2976 316385007972 histidyl-tRNA synthetase; Reviewed; Region: hisS; PRK00037 316385007973 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 316385007974 dimer interface [polypeptide binding]; other site 316385007975 motif 1; other site 316385007976 active site 316385007977 motif 2; other site 316385007978 motif 3; other site 316385007979 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 316385007980 anticodon binding site; other site 316385007981 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Reviewed; Region: ispG; PRK00366 316385007982 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 316385007983 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 316385007984 cytoskeletal protein RodZ; Provisional; Region: PRK10856 316385007985 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 316385007986 non-specific DNA binding site [nucleotide binding]; other site 316385007987 salt bridge; other site 316385007988 sequence-specific DNA binding site [nucleotide binding]; other site 316385007989 Domain of unknown function (DUF4115); Region: DUF4115; pfam13464 316385007990 ribosomal RNA large subunit methyltransferase N; Provisional; Region: PRK11194 316385007991 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 316385007992 FeS/SAM binding site; other site 316385007993 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 316385007994 active site 316385007995 multimer interface [polypeptide binding]; other site 316385007996 penicillin-binding protein 1C; Provisional; Region: PRK11240 316385007997 Transglycosylase; Region: Transgly; pfam00912 316385007998 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 316385007999 Penicillin-Binding Protein C-terminus Family; Region: BiPBP_C; pfam06832 316385008000 Large extracellular alpha-helical protein [General function prediction only]; Region: COG2373 316385008001 MG2 domain; Region: A2M_N; pfam01835 316385008002 Alpha-2-macroglobulin family; Region: A2M; pfam00207 316385008003 Proteins similar to alpha2-macroglobulin (alpha (2)-M). Alpha (2)-M is a major carrier protein in serum. It is a broadly specific proteinase inhibitor. The structural thioester of alpha (2)-M, is involved in the immobilization and entrapment of...; Region: A2M_like; cd02891 316385008004 surface patch; other site 316385008005 thioester region; other site 316385008006 specificity defining residues; other site 316385008007 3-mercaptopyruvate sulfurtransferase; Provisional; Region: sseA; PRK11493 316385008008 Thiosulfate sulfurtransferase (TST), N-terminal, inactive domain. TST contains 2 copies of the Rhodanese Homology Domain; this is the 1st repeat, which does not contain the catalytically active Cys residue. The role of the 1st repeat is uncertain, but it...; Region: TST_Repeat_1; cd01448 316385008009 active site residue [active] 316385008010 Thiosulfate sulfurtransferase (TST), C-terminal, catalytic domain. TST contains 2 copies of the Rhodanese Homology Domain; this is the second repeat. Only the second repeat contains the catalytically active Cys residue; Region: TST_Repeat_2; cd01449 316385008011 active site residue [active] 316385008012 enhanced serine sensitivity protein SseB; Provisional; Region: PRK11611 316385008013 aminopeptidase B; Provisional; Region: PRK05015 316385008014 Peptidase; Region: DUF3663; pfam12404 316385008015 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 316385008016 interface (dimer of trimers) [polypeptide binding]; other site 316385008017 Substrate-binding/catalytic site; other site 316385008018 Zn-binding sites [ion binding]; other site 316385008019 hypothetical protein; Provisional; Region: PRK10721 316385008020 Ferredoxin [Energy production and conversion]; Region: Fdx; COG0633 316385008021 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 316385008022 catalytic loop [active] 316385008023 iron binding site [ion binding]; other site 316385008024 chaperone protein HscA; Provisional; Region: hscA; PRK05183 316385008025 Nucleotide-binding domain of HscA and similar proteins; Region: HscA_like_NBD; cd10236 316385008026 nucleotide binding site [chemical binding]; other site 316385008027 putative NEF/HSP70 interaction site [polypeptide binding]; other site 316385008028 SBD interface [polypeptide binding]; other site 316385008029 co-chaperone HscB; Provisional; Region: hscB; PRK05014 316385008030 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 316385008031 HSP70 interaction site [polypeptide binding]; other site 316385008032 HSCB C-terminal oligomerisation domain; Region: HSCB_C; pfam07743 316385008033 iron-sulfur cluster assembly protein; Provisional; Region: iscA; PRK09502 316385008034 NifU homolog involved in Fe-S cluster formation [Energy production and conversion]; Region: IscU; COG0822 316385008035 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cd06664 316385008036 trimerization site [polypeptide binding]; other site 316385008037 active site 316385008038 cysteine desulfurase; Provisional; Region: PRK14012 316385008039 cysteine desulfurase NifS; Region: FeS_nifS; TIGR03402 316385008040 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 316385008041 catalytic residue [active] 316385008042 DNA-binding transcriptional regulator IscR; Provisional; Region: PRK10857 316385008043 Rrf2 family protein; Region: rrf2_super; TIGR00738 316385008044 tRNA (cytidine/uridine-2'-O-)-methyltransferase TrmJ; Provisional; Region: PRK15114 316385008045 SpoU rRNA Methylase family; Region: SpoU_methylase; cl17307 316385008046 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 316385008047 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 316385008048 active site 316385008049 dimerization interface [polypeptide binding]; other site 316385008050 Hydrolases of the alpha/beta superfamily [General function prediction only]; Region: COG1073 316385008051 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 316385008052 stationary phase inducible protein CsiE; Provisional; Region: PRK11564 316385008053 PRD domain; Region: PRD; pfam00874 316385008054 PRD domain; Region: PRD; pfam00874 316385008055 putative 3-phenylpropionic acid transporter; Provisional; Region: PRK11128 316385008056 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 316385008057 putative substrate translocation pore; other site 316385008058 DNA-binding transcriptional regulator HcaR; Provisional; Region: PRK09906 316385008059 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 316385008060 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 316385008061 dimerization interface [polypeptide binding]; other site 316385008062 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 316385008063 Rieske domain; a [2Fe-2S] cluster binding domain commonly found in Rieske non-heme iron oxygenase (RO) systems such as naphthalene and biphenyl dioxygenases, as well as in plant/cyanobacterial chloroplast b6f and mitochondrial cytochrome bc(1) complexes; Region: Rieske; cl00938 316385008064 iron-sulfur cluster [ion binding]; other site 316385008065 [2Fe-2S] cluster binding site [ion binding]; other site 316385008066 C-terminal catalytic domain of the oxygenase alpha subunit of naphthalene 1,2-dioxygenase (NDO) and related aromatic ring hydroxylating dioxygenases; Region: RHO_alpha_C_NDO-like; cd08881 316385008067 beta subunit interface [polypeptide binding]; other site 316385008068 alpha subunit interface [polypeptide binding]; other site 316385008069 active site 316385008070 substrate binding site [chemical binding]; other site 316385008071 Fe binding site [ion binding]; other site 316385008072 Ring hydroxylating dioxygenase beta subunit. This subunit has a similar structure to NTF-2, Ketosteroid isomerase and scytalone dehydratase.The degradation of aromatic compounds by aerobic bacteria frequently begins with the dihydroxylation of the...; Region: ring_hydroxylating_dioxygenases_beta; cd00667 316385008073 inter-subunit interface; other site 316385008074 Rieske non-heme iron oxygenase (RO) family, Rieske ferredoxin component; composed of the Rieske ferredoxin component of some three-component RO systems including biphenyl dioxygenase (BPDO) and carbazole 1,9a-dioxygenase (CARDO). The RO family comprise a...; Region: Rieske_RO_ferredoxin; cd03528 316385008075 [2Fe-2S] cluster binding site [ion binding]; other site 316385008076 2,3-dihydroxy-2,3-dihydrophenylpropionate dehydrogenase; Provisional; Region: PRK06200 316385008077 cis-biphenyl-2,3-dihydrodiol-2,3-dehydrogenase (BphB)-like, classical (c) SDRs; Region: BphB-like_SDR_c; cd05348 316385008078 NAD binding site [chemical binding]; other site 316385008079 active site 316385008080 phenylpropionate dioxygenase ferredoxin reductase subunit; Provisional; Region: PRK09754 316385008081 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 316385008082 Predicted membrane protein [Function unknown]; Region: COG2259 316385008083 aldose 1-epimerase, similar to Escherichia coli YphB; Region: Aldose_epim_Ec_YphB; cd09021 316385008084 active site 316385008085 catalytic residues [active] 316385008086 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 316385008087 L-threonine dehydrogenase (TDH)-like; Region: THR_DH_like; cd08239 316385008088 putative NAD(P) binding site [chemical binding]; other site 316385008089 catalytic Zn binding site [ion binding]; other site 316385008090 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 316385008091 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 316385008092 TM-ABC transporter signature motif; other site 316385008093 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 316385008094 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 316385008095 Walker A/P-loop; other site 316385008096 ATP binding site [chemical binding]; other site 316385008097 Q-loop/lid; other site 316385008098 ABC transporter signature motif; other site 316385008099 Walker B; other site 316385008100 D-loop; other site 316385008101 H-loop/switch region; other site 316385008102 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 316385008103 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: RbsB; COG1879 316385008104 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 316385008105 ligand binding site [chemical binding]; other site 316385008106 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 316385008107 TPR motif; other site 316385008108 Tetratricopeptide repeat; Region: TPR_16; pfam13432 316385008109 binding surface 316385008110 TPR repeat; Region: TPR_11; pfam13414 316385008111 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 316385008112 TPR motif; other site 316385008113 binding surface 316385008114 Winged helix-turn-helix DNA-binding; Region: HTH_24; pfam13412 316385008115 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 316385008116 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 316385008117 nucleotide binding site [chemical binding]; other site 316385008118 serine hydroxymethyltransferase; Reviewed; Region: glyA; PRK00011 316385008119 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 316385008120 dimer interface [polypeptide binding]; other site 316385008121 active site 316385008122 glycine-pyridoxal phosphate binding site [chemical binding]; other site 316385008123 folate binding site [chemical binding]; other site 316385008124 bifunctional nitric oxide dioxygenase/dihydropteridine reductase 2; Provisional; Region: PRK13289 316385008125 Globins are heme proteins, which bind and transport oxygen. This family summarizes a diverse set of homologous protein domains, including: (1) tetrameric vertebrate hemoglobins, which are the major protein component of erythrocytes and transport oxygen...; Region: globin; cd01040 316385008126 heme-binding site [chemical binding]; other site 316385008127 FAD_NAD(P)H binding domain of flavohemoglobin. Flavohemoglobins have a globin domain containing a B-type heme fused with a ferredoxin reductase-like FAD/NAD-binding domain. Flavohemoglobins detoxify nitric oxide (NO) via an NO dioxygenase reaction. The...; Region: flavohem_like_fad_nad_binding; cd06184 316385008128 FAD binding pocket [chemical binding]; other site 316385008129 FAD binding motif [chemical binding]; other site 316385008130 phosphate binding motif [ion binding]; other site 316385008131 beta-alpha-beta structure motif; other site 316385008132 NAD binding pocket [chemical binding]; other site 316385008133 Heme binding pocket [chemical binding]; other site 316385008134 nitrogen regulatory protein P-II 1; Provisional; Region: PRK10858 316385008135 Nitrogen regulatory protein P-II; Region: P-II; smart00938 316385008136 response regulator GlrR; Provisional; Region: PRK15115 316385008137 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 316385008138 active site 316385008139 phosphorylation site [posttranslational modification] 316385008140 intermolecular recognition site; other site 316385008141 dimerization interface [polypeptide binding]; other site 316385008142 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 316385008143 Walker A motif; other site 316385008144 ATP binding site [chemical binding]; other site 316385008145 Walker B motif; other site 316385008146 arginine finger; other site 316385008147 hypothetical protein; Provisional; Region: PRK10722 316385008148 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 316385008149 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 316385008150 dimer interface [polypeptide binding]; other site 316385008151 phosphorylation site [posttranslational modification] 316385008152 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 316385008153 ATP binding site [chemical binding]; other site 316385008154 Mg2+ binding site [ion binding]; other site 316385008155 G-X-G motif; other site 316385008156 phosphoribosylformylglycinamidine synthase; Provisional; Region: PRK05297 316385008157 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 316385008158 dimerization interface [polypeptide binding]; other site 316385008159 ATP binding site [chemical binding]; other site 316385008160 AIR (aminoimidazole ribonucleotide) synthase related protein. This family includes Hydrogen expression/formation protein HypE, AIR synthases, FGAM (formylglycinamidine ribonucleotide) synthase and Selenophosphate synthetase (SelD). The N-terminal domain...; Region: PurM-like; cl10019 316385008161 dimerization interface [polypeptide binding]; other site 316385008162 ATP binding site [chemical binding]; other site 316385008163 Type 1 glutamine amidotransferase (GATase1)-like domain found in Formylglycinamide ribonucleotide amidotransferase; Region: GATase1_FGAR_AT; cd01740 316385008164 putative active site [active] 316385008165 catalytic triad [active] 316385008166 membrane-bound lytic transglycosylase F; Provisional; Region: PRK10859 316385008167 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 316385008168 substrate binding pocket [chemical binding]; other site 316385008169 membrane-bound complex binding site; other site 316385008170 hinge residues; other site 316385008171 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 316385008172 N-acetyl-D-glucosamine binding site [chemical binding]; other site 316385008173 catalytic residue [active] 316385008174 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 316385008175 nucleoside/Zn binding site; other site 316385008176 dimer interface [polypeptide binding]; other site 316385008177 catalytic motif [active] 316385008178 hypothetical protein; Provisional; Region: PRK11590 316385008179 Phosphoserine phosphatase [Amino acid transport and metabolism]; Region: SerB; COG0560 316385008180 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 316385008181 putative DNA-binding transcriptional regulator; Provisional; Region: PRK11557 316385008182 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 316385008183 putative active site [active] 316385008184 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 316385008185 Pyridoxine 5'-phosphate (PNP) synthase domain; pyridoxal 5'-phosphate is the active form of vitamin B6 that acts as an essential, ubiquitous coenzyme in amino acid metabolism. In bacteria, formation of pyridoxine 5'-phosphate is a step in...; Region: PNPsynthase; cd00003 316385008186 active site 316385008187 hydrophilic channel; other site 316385008188 dimerization interface [polypeptide binding]; other site 316385008189 catalytic residues [active] 316385008190 active site lid [active] 316385008191 DNA repair protein RecO; Reviewed; Region: recO; PRK00085 316385008192 Recombination protein O N terminal; Region: RecO_N; pfam11967 316385008193 Recombination protein O C terminal; Region: RecO_C; pfam02565 316385008194 GTPase Era; Reviewed; Region: era; PRK00089 316385008195 E. coli Ras-like protein (Era) is a multifunctional GTPase; Region: Era; cd04163 316385008196 G1 box; other site 316385008197 GTP/Mg2+ binding site [chemical binding]; other site 316385008198 Switch I region; other site 316385008199 G2 box; other site 316385008200 Switch II region; other site 316385008201 G3 box; other site 316385008202 G4 box; other site 316385008203 G5 box; other site 316385008204 KH domain; Region: KH_2; pfam07650 316385008205 ribonuclease III; Reviewed; Region: rnc; PRK00102 316385008206 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 316385008207 dimerization interface [polypeptide binding]; other site 316385008208 active site 316385008209 metal binding site [ion binding]; metal-binding site 316385008210 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 316385008211 dsRNA binding site [nucleotide binding]; other site 316385008212 signal peptidase I; Provisional; Region: PRK10861 316385008213 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 316385008214 Catalytic site [active] 316385008215 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 316385008216 GTP-binding protein LepA; Provisional; Region: PRK05433 316385008217 LepA also known as Elongation Factor 4 (EF4); Region: LepA; cd01890 316385008218 G1 box; other site 316385008219 putative GEF interaction site [polypeptide binding]; other site 316385008220 GTP/Mg2+ binding site [chemical binding]; other site 316385008221 Switch I region; other site 316385008222 G2 box; other site 316385008223 G3 box; other site 316385008224 Switch II region; other site 316385008225 G4 box; other site 316385008226 G5 box; other site 316385008227 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 316385008228 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 316385008229 GTP-binding protein LepA C-terminus; Region: LepA_C; pfam06421 316385008230 SoxR reducing system protein RseC; Provisional; Region: PRK10862 316385008231 Negative regulator of sigma E activity [Signal transduction mechanisms]; Region: RseB; COG3026 316385008232 anti-sigma E factor; Provisional; Region: rseB; PRK09455 316385008233 anti-RNA polymerase sigma factor SigE; Provisional; Region: PRK10863 316385008234 Anti sigma-E protein RseA, N-terminal domain; Region: RseA_N; pfam03872 316385008235 Anti sigma-E protein RseA, C-terminal domain; Region: RseA_C; pfam03873 316385008236 RNA polymerase sigma factor RpoE; Region: RpoE_Sigma70; TIGR02939 316385008237 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 316385008238 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 316385008239 DNA binding residues [nucleotide binding] 316385008240 L-aspartate oxidase; Provisional; Region: PRK09077 316385008241 L-aspartate oxidase; Provisional; Region: PRK06175 316385008242 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 316385008243 Predicted O-methyltransferase [General function prediction only]; Region: COG4123 316385008244 Methyltransferase domain; Region: Methyltransf_26; pfam13659 316385008245 ATP-dependent RNA helicase SrmB; Provisional; Region: PRK11192 316385008246 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 316385008247 ATP binding site [chemical binding]; other site 316385008248 Mg++ binding site [ion binding]; other site 316385008249 motif III; other site 316385008250 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 316385008251 nucleotide binding region [chemical binding]; other site 316385008252 ATP-binding site [chemical binding]; other site 316385008253 Transcriptional regulator [Transcription]; Region: LysR; COG0583 316385008254 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 316385008255 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 316385008256 dimerization interface [polypeptide binding]; other site 316385008257 cysteine/O-acetylserine exporter; Provisional; Region: PRK10323 316385008258 autonomous glycyl radical cofactor GrcA; Provisional; Region: PRK11127 316385008259 Family 1 of Uracil-DNA glycosylase (UDG) enzymes; Region: UDG_F1; cd10027 316385008260 ligand binding site [chemical binding]; other site 316385008261 active site 316385008262 UGI interface [polypeptide binding]; other site 316385008263 catalytic site [active] 316385008264 putative methyltransferase; Provisional; Region: PRK10864 316385008265 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; pfam08032 316385008266 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 316385008267 thioredoxin 2; Provisional; Region: PRK10996 316385008268 zinc-ribbon domain; Region: zinc_ribbon_5; cl11777 316385008269 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 316385008270 catalytic residues [active] 316385008271 Uncharacterized conserved protein [Function unknown]; Region: COG3148 316385008272 Acyl-CoA synthetase (NDP forming) [Energy production and conversion]; Region: COG1042 316385008273 CoA binding domain; Region: CoA_binding_2; pfam13380 316385008274 Succinyl-CoA ligase like flavodoxin domain; Region: Succ_CoA_lig; pfam13607 316385008275 ATP-grasp domain; Region: ATP-grasp_5; pfam13549 316385008276 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 316385008277 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 316385008278 phosphatidylserine synthase; Provisional; Region: pssA; PRK09428 316385008279 Catalytic domain, repeat 1, of phosphatidylserine synthases from gram-negative bacteria; Region: PLDc_PSS_G_neg_1; cd09134 316385008280 domain interface [polypeptide binding]; other site 316385008281 putative active site [active] 316385008282 catalytic site [active] 316385008283 Catalytic domain, repeat 2, of phosphatidylserine synthases from gram-negative bacteria; Region: PLDc_PSS_G_neg_2; cd09136 316385008284 domain interface [polypeptide binding]; other site 316385008285 putative active site [active] 316385008286 catalytic site [active] 316385008287 lipoprotein; Provisional; Region: PRK10759 316385008288 alpha-ketoglutarate transporter; Provisional; Region: PRK10406 316385008289 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 316385008290 putative substrate translocation pore; other site 316385008291 protein disaggregation chaperone; Provisional; Region: PRK10865 316385008292 Clp amino terminal domain; Region: Clp_N; pfam02861 316385008293 Clp amino terminal domain; Region: Clp_N; pfam02861 316385008294 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 316385008295 Walker A motif; other site 316385008296 ATP binding site [chemical binding]; other site 316385008297 Walker B motif; other site 316385008298 arginine finger; other site 316385008299 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 316385008300 Walker A motif; other site 316385008301 ATP binding site [chemical binding]; other site 316385008302 Walker B motif; other site 316385008303 arginine finger; other site 316385008304 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 316385008305 hypothetical protein; Provisional; Region: PRK10723 316385008306 Multicopper polyphenol oxidase (laccase) [Secondary metabolites biosynthesis, transport and catabolism]; Region: yfiH; COG1496 316385008307 23S rRNA pseudouridine synthase D; Provisional; Region: rluD; PRK11180 316385008308 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 316385008309 RNA binding surface [nucleotide binding]; other site 316385008310 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 316385008311 active site 316385008312 outer membrane biogenesis protein BamD; Provisional; Region: PRK10866 316385008313 Protein of unknown function (DUF3897); Region: DUF3897; cl17494 316385008314 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 316385008315 30S subunit binding site; other site 316385008316 bifunctional chorismate mutase/prephenate dehydratase; Provisional; Region: pheA; PRK10622 316385008317 chorismate mutase domain of proteobacterial P-protein, clade 1; Region: CM_P_1; TIGR01797 316385008318 Prephenate dehydratase; Region: PDT; pfam00800 316385008319 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 316385008320 putative L-Phe binding site [chemical binding]; other site 316385008321 bifunctional chorismate mutase/prephenate dehydrogenase; Provisional; Region: tyrA; PRK11199 316385008322 chorismate mutase domain of T-protein; Region: CM_T; TIGR01799 316385008323 prephenate dehydrogenase; Validated; Region: PRK08507 316385008324 phospho-2-dehydro-3-deoxyheptonate aldolase; Provisional; Region: PRK12755 316385008325 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 316385008326 lipoprotein; Provisional; Region: PRK11443 316385008327 Protein of unknown function (DUF2799); Region: DUF2799; pfam10973 316385008328 Domain of unknown function (DUF4154); Region: DUF4154; pfam13689 316385008329 putative inner membrane diguanylate cyclase; Provisional; Region: PRK09966 316385008330 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 316385008331 metal binding site [ion binding]; metal-binding site 316385008332 active site 316385008333 I-site; other site 316385008334 putative outer membrane lipoprotein; Provisional; Region: PRK09967 316385008335 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 316385008336 ligand binding site [chemical binding]; other site 316385008337 50S ribosomal protein L19; Provisional; Region: rplS; PRK05338 316385008338 tRNA (guanine-N(1)-)-methyltransferase; Reviewed; Region: trmD; PRK00026 316385008339 16S rRNA-processing protein RimM; Provisional; Region: rimM; PRK00122 316385008340 RimM N-terminal domain; Region: RimM; pfam01782 316385008341 PRC-barrel domain; Region: PRC; pfam05239 316385008342 30S ribosomal protein S16; Reviewed; Region: rpsP; PRK00040 316385008343 signal recognition particle protein; Provisional; Region: PRK10867 316385008344 SRP54-type protein, helical bundle domain; Region: SRP54_N; smart00963 316385008345 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 316385008346 P loop; other site 316385008347 GTP binding site [chemical binding]; other site 316385008348 Signal peptide binding domain; Region: SRP_SPB; pfam02978 316385008349 hypothetical protein; Provisional; Region: PRK11573 316385008350 Domain of unknown function DUF21; Region: DUF21; pfam01595 316385008351 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 316385008352 Transporter associated domain; Region: CorC_HlyC; smart01091 316385008353 Molecular chaperone GrpE (heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: GrpE; COG0576 316385008354 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 316385008355 dimer interface [polypeptide binding]; other site 316385008356 hsp70 (ATPase domain) interactions [polypeptide binding]; other site 316385008357 inorganic polyphosphate/ATP-NAD kinase; Provisional; Region: ppnK; PRK03378 316385008358 inorganic polyphosphate/ATP-NAD kinase; Provisional; Region: ppnK; PRK02231 316385008359 recombination and repair protein; Provisional; Region: PRK10869 316385008360 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 316385008361 Walker A/P-loop; other site 316385008362 ATP binding site [chemical binding]; other site 316385008363 Q-loop/lid; other site 316385008364 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 316385008365 Q-loop/lid; other site 316385008366 ABC transporter signature motif; other site 316385008367 Walker B; other site 316385008368 D-loop; other site 316385008369 H-loop/switch region; other site 316385008370 outer membrane biogenesis protein BamE; Provisional; Region: PRK11548 316385008371 SmpA / OmlA family; Region: SmpA_OmlA; pfam04355 316385008372 hypothetical protein; Validated; Region: PRK01777 316385008373 Coenzyme Q-binding protein COQ10p and similar proteins; Region: COQ10p_like; cd07813 316385008374 putative coenzyme Q binding site [chemical binding]; other site 316385008375 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 316385008376 SmpB-tmRNA interface; other site 316385008377 Predicted transcriptional regulator [Transcription]; Region: AlpA; COG3311 316385008378 Protein of unknown function (DUF3987); Region: DUF3987; pfam13148 316385008379 Protein of unknown function (DUF3296); Region: DUF3296; pfam11726 316385008380 Superfamily II helicase [General function prediction only]; Region: COG1204 316385008381 DEAD/DEAH box helicase; Region: DEAD; pfam00270 316385008382 helicase superfamily c-terminal domain; Region: HELICc; smart00490 316385008383 nucleotide binding region [chemical binding]; other site 316385008384 ATP-binding site [chemical binding]; other site 316385008385 Domain of unknown function (DUF4297); Region: DUF4297; pfam14130 316385008386 Domain of unknown function (DUF1837); Region: DUF1837; pfam08878 316385008387 Predicted GTPase [General function prediction only]; Region: COG3596 316385008388 YfjP GTPase; Region: YfjP; cd11383 316385008389 G1 box; other site 316385008390 GTP/Mg2+ binding site [chemical binding]; other site 316385008391 Switch I region; other site 316385008392 G2 box; other site 316385008393 Switch II region; other site 316385008394 G3 box; other site 316385008395 G4 box; other site 316385008396 G5 box; other site 316385008397 Domain of unknown function (DUF932); Region: DUF932; pfam06067 316385008398 Predicted transcriptional regulator [Transcription]; Region: COG2378 316385008399 HTH domain; Region: HTH_11; cl17392 316385008400 WYL domain; Region: WYL; pfam13280 316385008401 Predicted transcriptional regulator [Transcription]; Region: COG2378 316385008402 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 316385008403 Anion permease ArsB. These permeases have been shown to export arsenate and antimonite in eubacteria and archaea. A typical ArsB permease contains 8-13 transmembrane helices and can function either independently as a chemiosmotic transporter or as a...; Region: ArsB_permease; cd01118 316385008404 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 316385008405 Antirestriction protein; Region: Antirestrict; pfam03230 316385008406 DNA repair proteins [DNA replication, recombination, and repair]; Region: RadC; COG2003 316385008407 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 316385008408 MPN+ (JAMM) motif; other site 316385008409 Zinc-binding site [ion binding]; other site 316385008410 Protein of unknown function (DUF987); Region: DUF987; pfam06174 316385008411 YagB/YeeU/YfjZ family; Region: YagB_YeeU_YfjZ; pfam06154 316385008412 Protein of unknown function (DUF1219); Region: DUF1219; pfam06755 316385008413 predicted invertase fragment (pseudogene) 316385008414 predicted protein (pseudogene) 316385008415 putative alpha amylase (pseudogene) 316385008416 Clavaminic acid synthetase (CAS) -like; CAS is a trifunctional Fe(II)/ 2-oxoglutarate (2OG) oxygenase carrying out three reactions in the biosynthesis of clavulanic acid, an inhibitor of class A serine beta-lactamases. In general, Fe(II)-2OG oxygenases...; Region: CAS_like; cd00250 316385008417 substrate binding pocket [chemical binding]; other site 316385008418 active site 316385008419 iron coordination sites [ion binding]; other site 316385008420 Predicted dehydrogenase [General function prediction only]; Region: COG0579 316385008421 hydroxyglutarate oxidase; Provisional; Region: PRK11728 316385008422 4-aminobutyrate aminotransferase; Validated; Region: PRK08088 316385008423 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 316385008424 inhibitor-cofactor binding pocket; inhibition site 316385008425 pyridoxal 5'-phosphate binding site [chemical binding]; other site 316385008426 catalytic residue [active] 316385008427 gamma-aminobutyrate transporter; Provisional; Region: PRK10197 316385008428 DNA-binding transcriptional regulator CsiR; Provisional; Region: PRK11534 316385008429 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 316385008430 DNA-binding site [nucleotide binding]; DNA binding site 316385008431 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 316385008432 LysM domain/BON superfamily protein; Provisional; Region: PRK11198 316385008433 bacterial OsmY and nodulation domain; Region: BON; smart00749 316385008434 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 316385008435 Uncharacterized homolog of Blt101 [Function unknown]; Region: COG0401 316385008436 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 316385008437 dimerization interface [polypeptide binding]; other site 316385008438 putative DNA binding site [nucleotide binding]; other site 316385008439 Transcriptional regulators [Transcription]; Region: MarR; COG1846 316385008440 putative Zn2+ binding site [ion binding]; other site 316385008441 Member of the Rhodanese Homology Domain superfamily. This CD includes Escherichia coli YgaP, and similar uncharacterized putative rhodanese-related sulfurtransferases; Region: RHOD_YgaP; cd01527 316385008442 active site residue [active] 316385008443 Protein of unknown function (DUF2892); Region: DUF2892; pfam11127 316385008444 DNA binding protein, nucleoid-associated; Provisional; Region: PRK10328 316385008445 Domain in histone-like proteins of HNS family; Region: HNS; smart00528 316385008446 Protein of unknown function (DUF1144); Region: DUF1144; pfam06610 316385008447 hypothetical protein; Provisional; Region: PRK10556 316385008448 NrdH-redoxin (NrdH) family; NrdH is a small monomeric protein with a conserved redox active CXXC motif within a TRX fold, characterized by a glutaredoxin (GRX)-like sequence and TRX-like activity profile. In vitro, it displays protein disulfide reductase...; Region: NrdH; cd02976 316385008449 catalytic residues [active] 316385008450 ribonucleotide reductase stimulatory protein; Reviewed; Region: nrdI; PRK03600 316385008451 ribonucleotide-diphosphate reductase subunit alpha; Validated; Region: PRK08188 316385008452 Ribonucleotide reductase N-terminal; Region: RNR_N; pfam08343 316385008453 Class I ribonucleotide reductase; Region: RNR_I; cd01679 316385008454 active site 316385008455 dimer interface [polypeptide binding]; other site 316385008456 catalytic residues [active] 316385008457 effector binding site; other site 316385008458 Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL; cl09939 316385008459 ribonucleotide-diphosphate reductase subunit beta; Provisional; Region: nrdF2; PRK13966 316385008460 Ribonucleotide Reductase, R2/beta subunit, ferritin-like diiron-binding domain; Region: RNRR2; cd01049 316385008461 dimer interface [polypeptide binding]; other site 316385008462 putative radical transfer pathway; other site 316385008463 diiron center [ion binding]; other site 316385008464 tyrosyl radical; other site 316385008465 glycine betaine transporter membrane protein; Provisional; Region: PRK10952 316385008466 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 316385008467 dimer interface [polypeptide binding]; other site 316385008468 conserved gate region; other site 316385008469 putative PBP binding loops; other site 316385008470 ABC-ATPase subunit interface; other site 316385008471 glycine betaine transporter periplasmic subunit; Provisional; Region: proX; PRK11119 316385008472 Substrate binding domain of ABC-type glycine betaine transport system; Region: OpuAC; pfam04069 316385008473 predicted transporter (pseudogene) 316385008474 Predicted branched-chain amino acid permease (azaleucine resistance) [Amino acid transport and metabolism]; Region: AzlC; COG1296 316385008475 putative L-valine exporter; Provisional; Region: PRK10408 316385008476 multidrug efflux system protein EmrA; Provisional; Region: PRK15136 316385008477 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 316385008478 HlyD family secretion protein; Region: HlyD_3; pfam13437 316385008479 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 316385008480 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 316385008481 putative substrate translocation pore; other site 316385008482 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 316385008483 S-ribosylhomocysteinase; Provisional; Region: PRK02260 316385008484 glutamate--cysteine ligase; Provisional; Region: PRK02107 316385008485 Predicted membrane protein [Function unknown]; Region: COG1238 316385008486 fructose-1-P/6-phosphogluconate phosphatase; Provisional; Region: PRK10725 316385008487 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 316385008488 motif II; other site 316385008489 carbon storage regulator; Provisional; Region: PRK01712 316385008490 alanyl-tRNA synthetase; Reviewed; Region: alaS; PRK00252 316385008491 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 316385008492 motif 1; other site 316385008493 active site 316385008494 motif 2; other site 316385008495 motif 3; other site 316385008496 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 316385008497 DHHA1 domain; Region: DHHA1; pfam02272 316385008498 recombination regulator RecX; Reviewed; Region: recX; PRK00117 316385008499 hypothetical protein; Validated; Region: PRK03661 316385008500 Transglycosylase SLT domain; Region: SLT_2; pfam13406 316385008501 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 316385008502 N-acetyl-D-glucosamine binding site [chemical binding]; other site 316385008503 PTS system, glucitol/sorbitol-specific, IIC component; Region: EII-GUT; TIGR00821 316385008504 PTS system, glucitol/sorbitol-specific, IIBC component; Region: EIIBC-GUT; TIGR00825 316385008505 Sorbitol phosphotransferase enzyme II N-terminus; Region: EIIBC-GUT_N; pfam03612 316385008506 Sorbitol phosphotransferase enzyme II C-terminus; Region: EIIBC-GUT_C; pfam07663 316385008507 PTS system glucitol/sorbitol-specific transporter subunit IIA; Provisional; Region: PRK10377 316385008508 sorbitol-6-phosphate dehydrogenase; Provisional; Region: PRK12384 316385008509 Sorbitol 6-phosphate dehydrogenase (SDH), classical (c) SDRs; Region: SDH_SDR_c_like; cd05322 316385008510 putative NAD(P) binding site [chemical binding]; other site 316385008511 active site 316385008512 DNA-binding transcriptional activator GutM; Provisional; Region: PRK10234 316385008513 DNA-bindng transcriptional repressor SrlR; Provisional; Region: srlR; PRK10434 316385008514 DeoR-like helix-turn-helix domain; Region: HTH_DeoR; pfam08220 316385008515 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 316385008516 D-arabinose 5-phosphate isomerase; Provisional; Region: gutQ; PRK11543 316385008517 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 316385008518 putative active site [active] 316385008519 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 316385008520 anaerobic nitric oxide reductase transcription regulator; Provisional; Region: PRK05022 316385008521 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 316385008522 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 316385008523 Walker A motif; other site 316385008524 ATP binding site [chemical binding]; other site 316385008525 Walker B motif; other site 316385008526 arginine finger; other site 316385008527 anaerobic nitric oxide reductase flavorubredoxin; Provisional; Region: PRK05452 316385008528 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 316385008529 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 316385008530 Rubredoxin; nonheme iron binding domains containing a [Fe(SCys)4] center. Rubredoxins are small nonheme iron proteins. The iron atom is coordinated by four cysteine residues (Fe(S-Cys)4), but iron can also be replaced by cobalt, nickel or zinc. They are...; Region: rubredoxin; cd00730 316385008531 iron binding site [ion binding]; other site 316385008532 NADH:flavorubredoxin oxidoreductase; Provisional; Region: PRK04965 316385008533 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 316385008534 Hydrogenase maturation factor [Posttranslational modification, protein turnover, chaperones]; Region: HypF; COG0068 316385008535 Acylphosphatase; Region: Acylphosphatase; pfam00708 316385008536 HypF finger; Region: zf-HYPF; pfam07503 316385008537 HypF finger; Region: zf-HYPF; pfam07503 316385008538 Telomere recombination; Region: Sua5_yciO_yrdC; pfam01300 316385008539 formate dehydrogenase-H ferredoxin subunit; Provisional; Region: PRK10330 316385008540 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 316385008541 Transcriptional regulators [Transcription]; Region: PurR; COG1609 316385008542 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 316385008543 DNA binding site [nucleotide binding] 316385008544 domain linker motif; other site 316385008545 Ligand binding domain of DNA transcription iso-repressor GalS, which is one of two regulatory proteins involved in galactose transport and metabolism; Region: PBP1_GalS_like; cd06270 316385008546 dimerization interface (closed form) [polypeptide binding]; other site 316385008547 ligand binding site [chemical binding]; other site 316385008548 PTS system cellobiose/arbutin/salicin-specific transporter subunits IIBC; Provisional; Region: PRK09796 316385008549 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 316385008550 active site turn [active] 316385008551 phosphorylation site [posttranslational modification] 316385008552 PTS system, maltose and glucose-specific subfamily, IIC component; Region: pts-Glc; TIGR00852 316385008553 cryptic 6-phospho-beta-glucosidase; Provisional; Region: PRK09852 316385008554 beta-galactosidase; Region: BGL; TIGR03356 316385008555 Endopeptidases belonging to membrane-bound hydrogen evolving hydrogenase group. In hydrogenase 3 from E coli, the maturation of the large subunit (HycE) requires the cleavage of a C-terminal peptide by the endopeptidase HycI, before the final formation...; Region: H2MP_MemB-H2evol; cd06067 316385008556 nickel binding site [ion binding]; other site 316385008557 formate hydrogenlyase maturation protein HycH; Provisional; Region: PRK15084 316385008558 Ni,Fe-hydrogenase III small subunit [Energy production and conversion]; Region: COG3260 316385008559 formate hydrogenlyase complex iron-sulfur subunit; Provisional; Region: PRK12387 316385008560 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 316385008561 Ni,Fe-hydrogenase III component G [Energy production and conversion]; Region: HycE; COG3262 316385008562 Ni,Fe-hydrogenase III large subunit [Energy production and conversion]; Region: HycE; COG3261 316385008563 NADH dehydrogenase subunit D; Validated; Region: PRK06075; cl17338 316385008564 Formate hydrogenlyase subunit 4 [Energy production and conversion]; Region: HyfC; COG0650 316385008565 NADH dehydrogenase; Region: NADHdh; cl00469 316385008566 formate hydrogenlyase subunit 3; Reviewed; Region: PRK08042 316385008567 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 316385008568 Fe-S-cluster-containing hydrogenase components 2 [Energy production and conversion]; Region: HycB; COG1142 316385008569 formate hydrogenlyase regulatory protein HycA; Provisional; Region: PRK10198 316385008570 Hydrogenase expression/synthesis hypA family; Region: HypA; cl17671 316385008571 hydrogenase nickel incorporation protein; Validated; Region: hypA; PRK03681 316385008572 hydrogenase nickel incorporation protein HypB; Provisional; Region: PRK10463 316385008573 hydrogenase assembly chaperone; Provisional; Region: PRK10409 316385008574 hydrogenase isoenzymes formation protein HypD; Provisional; Region: PRK15062 316385008575 hydrogenase expression/formation protein HypD; Region: hypD; TIGR00075 316385008576 hydrogenase expression/formation protein HypE; Region: hypE; TIGR02124 316385008577 HypE (Hydrogenase expression/formation protein). HypE is involved in Ni-Fe hydrogenase biosynthesis. HypE dehydrates its own carbamoyl moiety in an ATP-dependent process to yield the enzyme thiocyanate. The N-terminal domain of HypE is related to the...; Region: HypE; cd02197 316385008578 dimerization interface [polypeptide binding]; other site 316385008579 ATP binding site [chemical binding]; other site 316385008580 formate hydrogenlyase transcriptional activator FhlA; Provisional; Region: PRK15429 316385008581 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 316385008582 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 316385008583 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 316385008584 Walker A motif; other site 316385008585 ATP binding site [chemical binding]; other site 316385008586 Walker B motif; other site 316385008587 arginine finger; other site 316385008588 Bacterial regulatory protein, Fis family; Region: HTH_8; cl17420 316385008589 Nitrous oxide-stimulated promoter; Region: YgbA_NO; pfam11756 316385008590 DNA mismatch repair protein MutS; Provisional; Region: PRK05399 316385008591 MutS domain I; Region: MutS_I; pfam01624 316385008592 MutS domain II; Region: MutS_II; pfam05188 316385008593 MutS domain III; Region: MutS_III; pfam05192 316385008594 ATP-binding cassette domain of MutS1 homolog; Region: ABC_MutS1; cd03284 316385008595 Walker A/P-loop; other site 316385008596 ATP binding site [chemical binding]; other site 316385008597 Q-loop/lid; other site 316385008598 ABC transporter signature motif; other site 316385008599 Walker B; other site 316385008600 D-loop; other site 316385008601 H-loop/switch region; other site 316385008602 PrpA and PrpB, metallophosphatase domain; Region: MPP_PrpA_PrpB; cd07424 316385008603 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 316385008604 active site 316385008605 metal binding site [ion binding]; metal-binding site 316385008606 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 316385008607 helix_turn_helix, Deoxyribose operon repressor; Region: HTH_DEOR; smart00420 316385008608 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 316385008609 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 316385008610 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 316385008611 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3395 316385008612 hypothetical protein; Provisional; Region: PRK09989 316385008613 putative transporter; Provisional; Region: PRK09821 316385008614 GntP family permease; Region: GntP_permease; pfam02447 316385008615 RNA polymerase sigma factor RpoS; Validated; Region: PRK05657 316385008616 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 316385008617 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 316385008618 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 316385008619 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 316385008620 DNA binding residues [nucleotide binding] 316385008621 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 316385008622 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 316385008623 Peptidase family M23; Region: Peptidase_M23; pfam01551 316385008624 protein-L-isoaspartate O-methyltransferase; Reviewed; Region: pcm; PRK00312 316385008625 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 316385008626 S-adenosylmethionine binding site [chemical binding]; other site 316385008627 5'(3')-nucleotidase/polyphosphatase; Provisional; Region: surE; PRK00346 316385008628 tRNA pseudouridine synthase D; Reviewed; Region: truD; PRK00984 316385008629 Pseudouridine synthase, similar to Escherichia coli TruD; Region: PseudoU_synth_EcTruD; cd02575 316385008630 Permutation of conserved domain; other site 316385008631 active site 316385008632 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 316385008633 homotrimer interaction site [polypeptide binding]; other site 316385008634 zinc binding site [ion binding]; other site 316385008635 CDP-binding sites; other site 316385008636 CDP-ME synthetase is involved in mevalonate-independent isoprenoid production; Region: CDP-ME_synthetase; cd02516 316385008637 substrate binding site; other site 316385008638 dimer interface; other site 316385008639 cell division protein FtsB; Reviewed; Region: ftsB; PRK00888 316385008640 Septum formation initiator [Cell division and chromosome partitioning]; Region: COG2919 316385008641 Protein of unknown function (DUF3561); Region: DUF3561; pfam12084 316385008642 Adenosine 5'-phosphosulfate kinase (APSK) catalyzes the phosphorylation of adenosine 5'-phosphosulfate to form 3'-phosphoadenosine 5'-phosphosulfate (PAPS). The end-product PAPS is a biologically "activated" sulfate form...; Region: APSK; cd02027 316385008643 ligand-binding site [chemical binding]; other site 316385008644 sulfate adenylyltransferase subunit 1; Provisional; Region: cysN; PRK05124 316385008645 CysN, together with protein CysD, forms the ATP sulfurylase (ATPS) complex; Region: CysN_ATPS; cd04166 316385008646 CysD dimerization site [polypeptide binding]; other site 316385008647 G1 box; other site 316385008648 putative GEF interaction site [polypeptide binding]; other site 316385008649 GTP/Mg2+ binding site [chemical binding]; other site 316385008650 Switch I region; other site 316385008651 G2 box; other site 316385008652 G3 box; other site 316385008653 Switch II region; other site 316385008654 G4 box; other site 316385008655 G5 box; other site 316385008656 CysN_NodQ_II: This subfamily represents the domain II of the large subunit of ATP sulfurylase (ATPS): CysN or the N-terminal portion of NodQ, found mainly in proteobacteria and homologous to the domain II of EF-Tu. Escherichia coli ATPS consists of CysN...; Region: CysN_NodQ_II; cd03695 316385008657 TCysN_NoDQ_II: This subfamily represents the domain II of the large subunit of ATP sulfurylase (ATPS): CysN or the N-terminal portion of NodQ, found mainly in proteobacteria and homologous to the domain II of EF-Tu. Escherichia coli ATPS consists of CysN...; Region: CysN_NoDQ_III; cd04095 316385008658 sulfate adenylyltransferase, small subunit; Region: CysD; TIGR02039 316385008659 This domain is found in phosphoadenosine phosphosulphate (PAPS) reductase enzymes or PAPS sulphotransferase. PAPS reductase is part of the adenine nucleotide alpha hydrolases superfamily also including N type ATP PPases and ATP sulphurylases. A highly...; Region: PAPS_reductase; cd01713 316385008660 Active Sites [active] 316385008661 alkaline phosphatase isozyme conversion aminopeptidase; Provisional; Region: PRK10199 316385008662 M28 Zn-peptidases include aminopeptidases and carboxypeptidases; Region: M28; cd02690 316385008663 metal binding site [ion binding]; metal-binding site 316385008664 CRISPR/Cas system-associated protein Cas2; Region: Cas2_I-E; cd09648 316385008665 CRISPR/Cas system-associated protein Cas1; Region: Cas1_I-E; cd09719 316385008666 CRISPR/Cas system-associated RAMP superfamily protein Cas6e; Region: Cas6_I-E; cd09664 316385008667 CRISPR-associated protein (Cas_Cas5); Region: Cas_Cas5d; pfam09704 316385008668 CRISPR/Cas system-associated RAMP superfamily protein Cas5; Region: Cas5_I-E; cd09645 316385008669 CRISPR/Cas system-associated RAMP superfamily protein Cas7; Region: Cas7_I-E; cd09646 316385008670 CRISPR/Cas system-associated protein Cse2; Region: Cse2_I-E; cd09670 316385008671 CRISPR/Cas system-associated protein Cse1; Region: Cse1_I-E; cd09669 316385008672 helicase Cas3; Provisional; Region: PRK09694 316385008673 CRISPR/Cas system-associated protein Cas3'' Region: Cas3''_I; cd09641 316385008674 CRISPR/Cas system-associated protein Cas3; Region: Cas3_I; cd09639 316385008675 3'-phosphoadenosine 5'-phosphosulfate sulfotransferase (PAPS reductase)/FAD synthetase and related enzymes [Amino acid transport and metabolism / Coenzyme metabolism]; Region: CysH; COG0175 316385008676 This domain is found in phosphoadenosine phosphosulphate (PAPS) reductase enzymes or PAPS sulphotransferase. PAPS reductase is part of the adenine nucleotide alpha hydrolases superfamily also including N type ATP PPases and ATP sulphurylases. A highly...; Region: PAPS_reductase; cd01713 316385008677 Active Sites [active] 316385008678 sulfite reductase subunit alpha; Provisional; Region: cysJ; PRK10953 316385008679 Flavodoxin; Region: Flavodoxin_1; pfam00258 316385008680 Cytochrome p450- like alpha subunits of E. coli sulfite reductase (SiR) multimerize with beta subunits to catalyze the NADPH dependent reduction of sulfite to sulfide. Beta subunits have an Fe4S4 cluster and a siroheme, while the alpha subunits (cysJ...; Region: SiR; cd06199 316385008681 FAD binding pocket [chemical binding]; other site 316385008682 FAD binding motif [chemical binding]; other site 316385008683 catalytic residues [active] 316385008684 NAD binding pocket [chemical binding]; other site 316385008685 phosphate binding motif [ion binding]; other site 316385008686 beta-alpha-beta structure motif; other site 316385008687 6-pyruvoyl tetrahydropterin synthase (PTPS). 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 uptake by a...; Region: PTPS; cd00470 316385008688 homohexamer interface [polypeptide binding]; other site 316385008689 putative substrate stabilizing pore; other site 316385008690 pterin binding site; other site 316385008691 putative oxidoreductase FixC; Provisional; Region: PRK10157 316385008692 Ferredoxin-like protein [Energy production and conversion]; Region: FixX; COG2440 316385008693 Glycerol-3-phosphate responsive antiterminator (mRNA-binding) [Transcription]; Region: GlpP; COG1954 316385008694 Electron transfer flavoprotein, alpha subunit [Energy production and conversion]; Region: FixB; COG2025 316385008695 Adenine nucleotide alpha hydrolases superfamily including N type ATP PPases, ATP sulphurylases Universal Stress Response protein and electron transfer flavoprotein (ETF). The domain forms a apha/beta/apha fold which binds to Adenosine nucleotide; Region: AANH_like; cl00292 316385008696 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 316385008697 The electron transfer flavoprotein (ETF) serves as a specific electron acceptor for various mitochondrial dehydrogenases. ETF transfers electrons to the main respiratory chain via ETF-ubiquinone oxidoreductase. ETF is an heterodimer that consists of an...; Region: ETF_beta; cd01714 316385008698 Ligand binding site [chemical binding]; other site 316385008699 Electron transfer flavoprotein domain; Region: ETF; pfam01012 316385008700 Protein of unknown function (DUF2950); Region: DUF2950; pfam11453 316385008701 benzoate transport; Region: 2A0115; TIGR00895 316385008702 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 316385008703 putative substrate translocation pore; other site 316385008704 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 316385008705 FAD binding domain; Region: FAD_binding_4; pfam01565 316385008706 2-deoxy-D-gluconate 3-dehydrogenase; Provisional; Region: PRK06935 316385008707 gluconate 5-dehydrogenase (Ga5DH)-like, classical (c) SDRs; Region: Ga5DH-like_SDR_c; cd05347 316385008708 NADP binding site [chemical binding]; other site 316385008709 homodimer interface [polypeptide binding]; other site 316385008710 active site 316385008711 Major Facilitator Superfamily; Region: MFS_1; pfam07690 316385008712 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 316385008713 Sugar (pentulose and hexulose) kinases [Carbohydrate transport and metabolism]; Region: XylB; COG1070 316385008714 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 316385008715 nucleotide binding site [chemical binding]; other site 316385008716 Organic radical activating enzymes [Posttranslational modification, protein turnover, chaperones]; Region: NrdG; COG0602 316385008717 putative 7-cyano-7-deazaguanosine (preQ0) biosynthesis protein QueE; Region: rSAM_QueE_Ecoli; TIGR04322 316385008718 putative membrane protein (pseudogene); a single nucleotide substitution in codon 39 results in a termination codon 316385008719 enolase; Provisional; Region: eno; PRK00077 316385008720 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 316385008721 dimer interface [polypeptide binding]; other site 316385008722 metal binding site [ion binding]; metal-binding site 316385008723 substrate binding pocket [chemical binding]; other site 316385008724 CTP synthetase; Validated; Region: pyrG; PRK05380 316385008725 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 316385008726 Catalytic site [active] 316385008727 active site 316385008728 UTP binding site [chemical binding]; other site 316385008729 Type 1 glutamine amidotransferase (GATase1) domain found in Cytidine Triphosphate Synthetase; Region: GATase1_CTP_Synthase; cd01746 316385008730 active site 316385008731 putative oxyanion hole; other site 316385008732 catalytic triad [active] 316385008733 nucleoside triphosphate pyrophosphohydrolase; Reviewed; Region: mazG; PRK09562 316385008734 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 316385008735 homodimer interface [polypeptide binding]; other site 316385008736 metal binding site [ion binding]; metal-binding site 316385008737 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 316385008738 homodimer interface [polypeptide binding]; other site 316385008739 active site 316385008740 putative chemical substrate binding site [chemical binding]; other site 316385008741 metal binding site [ion binding]; metal-binding site 316385008742 toxin MazF; Provisional; Region: PRK09907 316385008743 antitoxin MazE; Provisional; Region: PRK09798 316385008744 (p)ppGpp synthetase I/GTP pyrophosphokinase (pseudogene); in this allele the relA gene is disrupted by an IS2 insertion between the 85th and 86th codons 316385008745 23S rRNA m(5)U1939 methyltransferase; Reviewed; Region: rumA; PRK13168 316385008746 TRAM domain; Region: TRAM; pfam01938 316385008747 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 316385008748 S-adenosylmethionine binding site [chemical binding]; other site 316385008749 hybrid sensory histidine kinase BarA; Provisional; Region: PRK11107 316385008750 Uncharacterized signal transduction histidine kinase domain (DUF2222); Region: DUF2222; pfam09984 316385008751 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 316385008752 dimerization interface [polypeptide binding]; other site 316385008753 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 316385008754 dimer interface [polypeptide binding]; other site 316385008755 phosphorylation site [posttranslational modification] 316385008756 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 316385008757 ATP binding site [chemical binding]; other site 316385008758 Mg2+ binding site [ion binding]; other site 316385008759 G-X-G motif; other site 316385008760 Uncharacterized domain of BarA-like signal transduction histidine kinases [Signal transduction mechanisms]; Region: COG4999 316385008761 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 316385008762 active site 316385008763 phosphorylation site [posttranslational modification] 316385008764 intermolecular recognition site; other site 316385008765 dimerization interface [polypeptide binding]; other site 316385008766 Histidine Phosphotransfer domain, involved in signalling through a two part component systems in which an autophosphorylating histidine protein kinase serves as a phosphoryl donor to a response regulator protein; the response regulator protein is...; Region: HPT; cd00088 316385008767 putative binding surface; other site 316385008768 active site 316385008769 glucarate dehydratase; Region: glucar-dehydr; TIGR03247 316385008770 D-Glucarate dehydratase (GlucD) catalyzes the dehydration of both D-glucarate and L-idarate to form 5-keto-4-deoxy-D-glucarate (5-KDG) , the initial reaction of the catabolic pathway for (D)-glucarate. GlucD belongs to the enolase superfamily of enzymes; Region: D-glucarate_dehydratase; cd03323 316385008771 active site 316385008772 tetramer interface [polypeptide binding]; other site 316385008773 glucarate dehydratase; Region: glucar-dehydr; TIGR03247 316385008774 D-Glucarate dehydratase (GlucD) catalyzes the dehydration of both D-glucarate and L-idarate to form 5-keto-4-deoxy-D-glucarate (5-KDG) , the initial reaction of the catabolic pathway for (D)-glucarate. GlucD belongs to the enolase superfamily of enzymes; Region: D-glucarate_dehydratase; cd03323 316385008775 active site 316385008776 tetramer interface [polypeptide binding]; other site 316385008777 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 316385008778 D-galactonate transporter; Region: 2A0114; TIGR00893 316385008779 putative substrate translocation pore; other site 316385008780 flavodoxin; Provisional; Region: PRK08105 316385008781 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 316385008782 tRNA pseudouridine isomerase C; Region: PseudoU_synth_TruC; cd02563 316385008783 probable active site [active] 316385008784 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3098 316385008785 SecY interacting protein Syd; Provisional; Region: PRK04968 316385008786 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2904 316385008787 7-cyano-7-deazaguanine reductase; Provisional; Region: queF; PRK11792 316385008788 Enzyme related to GTP cyclohydrolase I [General function prediction only]; Region: COG0780 316385008789 Predicted Rossmann fold nucleotide-binding protein [General function prediction only]; Region: COG1611 316385008790 Domain of unknown function (DUF3412); Region: DUF3412; pfam11892 316385008791 Amino acid permeases [Amino acid transport and metabolism]; Region: SdaC; COG0814 316385008792 serine transporter; Region: stp; TIGR00814 316385008793 L-serine dehydratase, iron-sulfur-dependent, single chain form; Region: sda_mono; TIGR00720 316385008794 Serine dehydratase beta chain; Region: SDH_beta; pfam03315 316385008795 Serine dehydratase alpha chain; Region: SDH_alpha; pfam03313 316385008796 flap endonuclease-like protein; Provisional; Region: PRK09482 316385008797 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 316385008798 active site 316385008799 metal binding site 1 [ion binding]; metal-binding site 316385008800 putative 5' ssDNA interaction site; other site 316385008801 metal binding site 3; metal-binding site 316385008802 metal binding site 2 [ion binding]; metal-binding site 316385008803 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 316385008804 putative DNA binding site [nucleotide binding]; other site 316385008805 putative metal binding site [ion binding]; other site 316385008806 L-1,2-propanediol oxidoreductase; Provisional; Region: PRK10624 316385008807 Lactadehyde:propanediol oxidoreductase (LPO) catalyzes the interconversion between L-lactaldehyde and L-1,2-propanediol in Escherichia coli and other enterobacteria; Region: LPO; cd08176 316385008808 dimer interface [polypeptide binding]; other site 316385008809 active site 316385008810 metal binding site [ion binding]; metal-binding site 316385008811 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 316385008812 L-ribulose-5-phosphate 4-epimerase; Reviewed; Region: araD; PRK08193 316385008813 intersubunit interface [polypeptide binding]; other site 316385008814 active site 316385008815 Zn2+ binding site [ion binding]; other site 316385008816 Fucose permease [Carbohydrate transport and metabolism]; Region: FucP; COG0738 316385008817 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 316385008818 putative substrate translocation pore; other site 316385008819 L-fucose isomerase; Provisional; Region: fucI; PRK10991 316385008820 L-fucose isomerase (FucIase); FucIase converts L-fucose, an aldohexose, to its ketose form, which prepares it for aldol cleavage (similar to the isomerization of glucose during glycolysis). L-fucose (or 6-deoxy-L-galactose) is found in blood group...; Region: L-fucose_isomerase; cd03556 316385008821 hexamer (dimer of trimers) interface [polypeptide binding]; other site 316385008822 trimer interface [polypeptide binding]; other site 316385008823 substrate binding site [chemical binding]; other site 316385008824 Mn binding site [ion binding]; other site 316385008825 L-fuculokinase; Provisional; Region: PRK10331 316385008826 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 316385008827 nucleotide binding site [chemical binding]; other site 316385008828 L-fucose mutarotase; Provisional; Region: fucU; PRK15420 316385008829 DNA-binding transcriptional activator FucR; Provisional; Region: PRK10411 316385008830 DeoR-like helix-turn-helix domain; Region: HTH_DeoR; pfam08220 316385008831 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 316385008832 putative 23S rRNA C2498 ribose 2'-O-ribose methyltransferase; Provisional; Region: PRK11760 316385008833 FtsJ-like methyltransferase; Region: FtsJ; pfam01728 316385008834 hypothetical protein; Provisional; Region: PRK10873 316385008835 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 316385008836 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 316385008837 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 316385008838 dimerization interface [polypeptide binding]; other site 316385008839 substrate binding pocket [chemical binding]; other site 316385008840 Bacterial protein of unknown function (DUF903); Region: DUF903; pfam06004 316385008841 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 316385008842 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 316385008843 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 316385008844 catalytic residue [active] 316385008845 CsdA-binding activator; Provisional; Region: PRK15019 316385008846 sulfur acceptor protein CsdL; Provisional; Region: PRK15116 316385008847 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 316385008848 putative ATP binding site [chemical binding]; other site 316385008849 putative substrate interface [chemical binding]; other site 316385008850 murein transglycosylase A; Provisional; Region: mltA; PRK11162 316385008851 MltA specific insert domain; Region: MltA; pfam03562 316385008852 3D domain; Region: 3D; pfam06725 316385008853 AMIN domain; Region: AMIN; pfam11741 316385008854 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 316385008855 active site 316385008856 metal binding site [ion binding]; metal-binding site 316385008857 N-acetylglutamate synthase; Validated; Region: PRK05279 316385008858 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 316385008859 putative feedback inhibition sensing region; other site 316385008860 putative nucleotide binding site [chemical binding]; other site 316385008861 putative substrate binding site [chemical binding]; other site 316385008862 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 316385008863 Coenzyme A binding pocket [chemical binding]; other site 316385008864 exonuclease V subunit alpha; Provisional; Region: recD; PRK10875 316385008865 AAA domain; Region: AAA_30; pfam13604 316385008866 Family description; Region: UvrD_C_2; pfam13538 316385008867 exonuclease V subunit beta; Provisional; Region: recB; PRK10876 316385008868 CRISPR/Cas system-associated protein Cas4; Region: Cas4_I-A_I-B_I-C_I-D_II-B; cl00641 316385008869 protease3; Provisional; Region: PRK15101 316385008870 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 316385008871 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 316385008872 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 316385008873 exonuclease V subunit gamma; Provisional; Region: recC; PRK11069 316385008874 exodeoxyribonuclease V, gamma subunit; Region: recC; TIGR01450 316385008875 hypothetical protein; Provisional; Region: PRK10332 316385008876 Prepilin peptidase dependent protein C term (DUF3728); Region: DUF3728; pfam12528 316385008877 hypothetical protein; Provisional; Region: PRK11521 316385008878 hypothetical protein; Provisional; Region: PRK10557 316385008879 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; pfam13544 316385008880 hypothetical protein; Provisional; Region: PRK10506 316385008881 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; pfam13544 316385008882 thymidylate synthase; Reviewed; Region: thyA; PRK01827 316385008883 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 316385008884 dimerization interface [polypeptide binding]; other site 316385008885 active site 316385008886 prolipoprotein diacylglyceryl transferase; Region: lgt; TIGR00544 316385008887 fused phosphoenolpyruvate-protein phosphotransferase PtsP/GAF domain; Provisional; Region: PRK11061 316385008888 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 316385008889 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 316385008890 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 316385008891 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 316385008892 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 316385008893 putative active site [active] 316385008894 Ap4A binding site [chemical binding]; other site 316385008895 nudix motif; other site 316385008896 putative metal binding site [ion binding]; other site 316385008897 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 316385008898 putative DNA-binding cleft [nucleotide binding]; other site 316385008899 putative DNA clevage site; other site 316385008900 molecular lever; other site 316385008901 Membrane protein TerC, possibly involved in tellurium resistance [Inorganic ion transport and metabolism]; Region: TerC; COG0861 316385008902 Bacterial protein of unknown function (DUF903); Region: DUF903; pfam06004 316385008903 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 316385008904 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 316385008905 active site 316385008906 catalytic tetrad [active] 316385008907 lysophospholipid transporter LplT; Provisional; Region: PRK11195 316385008908 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 316385008909 bifunctional acyl-[acyl carrier protein] synthetase/2-acylglycerophosphoethanolamine acyltransferase; Validated; Region: PRK08043 316385008910 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 316385008911 putative acyl-acceptor binding pocket; other site 316385008912 C-terminal domain of the acyl-acyl carrier protein synthetase (also called 2-acylglycerophosphoethanolamine acyltransferase, Aas); Region: AAS_C; cd05909 316385008913 acyl-activating enzyme (AAE) consensus motif; other site 316385008914 putative AMP binding site [chemical binding]; other site 316385008915 DNA-binding transcriptional regulator GalR; Provisional; Region: PRK10727 316385008916 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 316385008917 DNA binding site [nucleotide binding] 316385008918 domain linker motif; other site 316385008919 Ligand binding domain of DNA transcription iso-repressor GalS, which is one of two regulatory proteins involved in galactose transport and metabolism; Region: PBP1_GalS_like; cd06270 316385008920 dimerization interface (closed form) [polypeptide binding]; other site 316385008921 ligand binding site [chemical binding]; other site 316385008922 diaminopimelate decarboxylase; Provisional; Region: PRK11165 316385008923 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Diaminopimelate Decarboxylase; Region: PLPDE_III_DapDC; cd06828 316385008924 active site 316385008925 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 316385008926 substrate binding site [chemical binding]; other site 316385008927 catalytic residues [active] 316385008928 dimer interface [polypeptide binding]; other site 316385008929 DNA-binding transcriptional regulator LysR; Provisional; Region: PRK11013 316385008930 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 316385008931 The C-terminal substrate binding domain of LysR, transcriptional regulator for lysine biosynthesis, contains the type 2 periplasmic binding fold; Region: PBP2_LysR; cd08456 316385008932 putative dimerization interface [polypeptide binding]; other site 316385008933 putative racemase; Provisional; Region: PRK10200 316385008934 aspartate racemase; Region: asp_race; TIGR00035 316385008935 MFS transporter, sugar porter (SP) family; Region: SP; TIGR00879 316385008936 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 316385008937 putative substrate translocation pore; other site 316385008938 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 316385008939 2-deoxy-D-gluconate 3-dehydrogenase; Validated; Region: PRK08993 316385008940 gluconate 5-dehydrogenase (Ga5DH)-like, classical (c) SDRs; Region: Ga5DH-like_SDR_c; cd05347 316385008941 NADP binding site [chemical binding]; other site 316385008942 homodimer interface [polypeptide binding]; other site 316385008943 active site 316385008944 5-keto-4-deoxyuronate isomerase; Provisional; Region: PRK00924 316385008945 putative acyltransferase; Provisional; Region: PRK05790 316385008946 Thiolase are ubiquitous enzymes that catalyze the reversible thiolytic cleavage of 3-ketoacyl-CoA into acyl-CoA and acetyl-CoA, a 2-step reaction involving a covalent intermediate formed with a catalytic cysteine. They are found in prokaryotes and...; Region: thiolase; cd00751 316385008947 dimer interface [polypeptide binding]; other site 316385008948 active site 316385008949 Amino acid permeases [Amino acid transport and metabolism]; Region: SdaC; COG0814 316385008950 serine transporter; Region: stp; TIGR00814 316385008951 DNA-binding HTH domain-containing proteins [Transcription]; Region: CsgD; COG2771 316385008952 DNA binding residues [nucleotide binding] 316385008953 DNA-binding winged-HTH domains [Transcription]; Region: CadC; COG3710 316385008954 Uncharacterized protein conserved in Bacteroidetes; Region: Bacuni_01323_like; cd12871 316385008955 type III secretion low calcium response chaperone LcrH/SycD; Region: LcrH_SycD; TIGR02552 316385008956 Tetratricopeptide repeat; Region: TPR_3; pfam07720 316385008957 Tetratricopeptide repeat; Region: TPR_3; pfam07720 316385008958 transcriptional regulator; Provisional; Region: PRK11906 316385008959 DNA-binding winged-HTH domains [Transcription]; Region: CadC; COG3710 316385008960 DNA binding site [nucleotide binding] 316385008961 Tetratricopeptide repeat; Region: TPR_2; pfam07719 316385008962 predicted peptidoglycan-binding enzyme (pseudogene) 316385008963 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 316385008964 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 316385008965 DNA binding residues [nucleotide binding] 316385008966 dimerization interface [polypeptide binding]; other site 316385008967 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 316385008968 invasion protein OrgB; Provisional; Region: PRK15322 316385008969 Bacterial type III secretion apparatus protein (OrgA_MxiK); Region: OrgA_MxiK; cl09716 316385008970 IS2 transposase TnpB; Reviewed; Region: PRK09409 316385008971 HTH-like domain; Region: HTH_21; pfam13276 316385008972 Integrase core domain; Region: rve; pfam00665 316385008973 Integrase core domain; Region: rve_3; pfam13683 316385008974 IS2 repressor TnpA; Reviewed; Region: PRK09413 316385008975 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 316385008976 putative glycosidase (pseudogene) 316385008977 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 316385008978 Peptidase family M23; Region: Peptidase_M23; pfam01551 316385008979 xanthine dehydrogenase subunit XdhA; Provisional; Region: PRK09970 316385008980 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; pfam01315 316385008981 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 316385008982 xanthine dehydrogenase subunit XdhB; Provisional; Region: PRK09971 316385008983 CO dehydrogenase flavoprotein C-terminal domain; Region: CO_deh_flav_C; pfam03450 316385008984 xanthine dehydrogenase subunit XdhC; Provisional; Region: PRK09908 316385008985 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 316385008986 catalytic loop [active] 316385008987 iron binding site [ion binding]; other site 316385008988 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 316385008989 GAF domain; Region: GAF; cl17456 316385008990 Transcriptional regulator containing PAS, AAA-type ATPase, and DNA-binding domains [Transcription / Signal transduction mechanisms]; Region: RocR; COG3829 316385008991 PAS domain; Region: PAS; smart00091 316385008992 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 316385008993 Walker A motif; other site 316385008994 ATP binding site [chemical binding]; other site 316385008995 Walker B motif; other site 316385008996 arginine finger; other site 316385008997 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 316385008998 aspartate/ornithine carbamoyltransferase family protein; Validated; Region: PRK07200 316385008999 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 316385009000 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 316385009001 Threonine dehydratase [Amino acid transport and metabolism]; Region: IlvA; COG1171 316385009002 Tryptophan synthase beta superfamily (fold type II); this family of pyridoxal phosphate (PLP)-dependent enzymes catalyzes beta-replacement and beta-elimination reactions. This CD corresponds to aminocyclopropane-1-carboxylate deaminase (ACCD), tryptophan...; Region: Trp-synth-beta_II; cd00640 316385009003 catalytic residue [active] 316385009004 peptidase; Reviewed; Region: PRK13004 316385009005 M20 Peptidases with similarity to acetylornithine deacetylases and succinyl-diaminopimelate desuccinylases; Region: M20_ArgE_DapE_like4; cd05649 316385009006 putative metal binding site [ion binding]; other site 316385009007 putative dimer interface [polypeptide binding]; other site 316385009008 D-hydantoinase; Region: D-hydantoinase; TIGR02033 316385009009 D-hydantoinases (D-HYD) also called dihydropyrimidases (DHPase) and related proteins; DHPases are a family of enzymes that catalyze the reversible hydrolytic ring opening of the amide bond in five- or six-membered cyclic diamides, like dihydropyrimidine...; Region: D-HYD; cd01314 316385009010 tetramer interface [polypeptide binding]; other site 316385009011 active site 316385009012 AAK_CK: Carbamate kinase (CK) catalyzes both the ATP-phosphorylation of carbamate and carbamoyl phosphate (CP) utilization with the production of ATP from ADP and CP. Both CK (this CD) and nonhomologous CP synthetase synthesize carbamoyl phosphate, an...; Region: AAK_CK; cd04235 316385009013 carbamate kinase; Reviewed; Region: PRK12686 316385009014 putative substrate binding site [chemical binding]; other site 316385009015 homodimer interface [polypeptide binding]; other site 316385009016 nucleotide binding site [chemical binding]; other site 316385009017 nucleotide binding site [chemical binding]; other site 316385009018 Xanthine and CO dehydrogenases maturation factor, XdhC/CoxF family [Posttranslational modification, protein turnover, chaperones]; Region: XdhC; COG1975 316385009019 XdhC and CoxI family; Region: XdhC_CoxI; pfam02625 316385009020 XdhC Rossmann domain; Region: XdhC_C; pfam13478 316385009021 selenium-dependent molybdenum hydroxylase system protein, YqeB family; Region: matur_yqeB; TIGR03309 316385009022 M14 family of metallocarboxypeptidases and related proteins; Region: Peptidase_M14_like; cl11393 316385009023 probable selenium-dependent hydroxylase accessory protein YqeC; Region: TIGR03172 316385009024 GT_2_like_f is a subfamily of the glycosyltransferase family 2 (GT-2) with unknown function; Region: GT_2_like_f; cd04182 316385009025 Ligand binding site; other site 316385009026 metal-binding site 316385009027 putative selenate reductase subunit YgfK; Provisional; Region: PRK09853 316385009028 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 316385009029 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 316385009030 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 316385009031 putative selenium metabolism protein SsnA; Region: Se_ssnA; TIGR03314 316385009032 TRZ/ATZ family contains enzymes from the atrazine degradation pathway and related hydrolases. Atrazine, a chlorinated herbizide, can be catabolized by a variety of different bacteria. The first three steps of the atrazine dehalogenation pathway are...; Region: ATZ_TRZ_like; cd01298 316385009033 active site 316385009034 putative substrate binding pocket [chemical binding]; other site 316385009035 probable selenate reductase, FAD-binding subunit; Region: Se_sel_red_FAD; TIGR03312 316385009036 CO dehydrogenase flavoprotein C-terminal domain; Region: CO_deh_flav_C; pfam03450 316385009037 putative hypoxanthine oxidase; Provisional; Region: PRK09800 316385009038 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 316385009039 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; pfam01315 316385009040 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 316385009041 uracil-xanthine permease; Region: ncs2; TIGR00801 316385009042 guanine deaminase; Provisional; Region: PRK09228 316385009043 Guanine deaminase (GDEase). Guanine deaminase is an aminohydrolase responsible for the conversion of guanine to xanthine and ammonia, the first step to utilize guanine as a nitrogen source. This reaction also removes the guanine base from the pool and...; Region: GDEase; cd01303 316385009044 active site 316385009045 Xanthine/uracil/vitamin C permease [Nucleotide transport and metabolism]; Region: COG2252 316385009046 putative oxidoreductase Fe-S binding subunit; Reviewed; Region: PRK12809 316385009047 4Fe-4S binding domain; Region: Fer4; pfam00037 316385009048 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 316385009049 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 316385009050 xanthine permease; Region: pbuX; TIGR03173 316385009051 Isopentenyldiphosphate isomerase [Lipid metabolism]; Region: Idi; COG1443 316385009052 Isopentenyl diphosphate (IPP) isomerase, a member of the Nudix hydrolase superfamily, is a key enzyme in the isoprenoid biosynthetic pathway. Isoprenoids comprise a large family of natural products including sterols, carotenoids, dolichols and prenylated...; Region: IPP_Isomerase; cd02885 316385009053 active site 316385009054 metal binding site [ion binding]; metal-binding site 316385009055 nudix motif; other site 316385009056 lysyl-tRNA synthetase; Reviewed; Region: lysS; PRK00484 316385009057 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 316385009058 dimer interface [polypeptide binding]; other site 316385009059 putative anticodon binding site; other site 316385009060 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 316385009061 motif 1; other site 316385009062 active site 316385009063 motif 2; other site 316385009064 motif 3; other site 316385009065 peptide chain release factor 2; Validated; Region: prfB; PRK00578 316385009066 This domain is found in peptide chain release factors; Region: PCRF; smart00937 316385009067 RF-1 domain; Region: RF-1; pfam00472 316385009068 ssDNA exonuclease RecJ; Provisional; Region: PRK11070 316385009069 DHH family; Region: DHH; pfam01368 316385009070 DHHA1 domain; Region: DHHA1; pfam02272 316385009071 protein disulfide isomerase II DsbC; Provisional; Region: PRK10877 316385009072 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 316385009073 dimerization domain [polypeptide binding]; other site 316385009074 dimer interface [polypeptide binding]; other site 316385009075 catalytic residues [active] 316385009076 site-specific tyrosine recombinase XerD; Reviewed; Region: xerD; PRK00283 316385009077 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 316385009078 active site 316385009079 Int/Topo IB signature motif; other site 316385009080 flavodoxin FldB; Provisional; Region: PRK12359 316385009081 Protein of unknown function (DUF1434); Region: DUF1434; pfam07254 316385009082 hypothetical protein; Provisional; Region: PRK10878 316385009083 putative global regulator; Reviewed; Region: PRK09559 316385009084 folate-binding protein YgfZ; Region: ygfZ_signature; TIGR03317 316385009085 hemolysin; Provisional; Region: PRK15087 316385009086 channel protein, hemolysin III family; Region: hlyIII; TIGR01065 316385009087 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 316385009088 6-phospho-beta-glucosidase BglA; Provisional; Region: PRK15014 316385009089 beta-galactosidase; Region: BGL; TIGR03356 316385009090 putative NAD(P)-binding oxidoreductase; Provisional; Region: PRK09730 316385009091 classical (c) SDRs; Region: SDR_c; cd05233 316385009092 NAD(P) binding site [chemical binding]; other site 316385009093 active site 316385009094 glycine dehydrogenase; Provisional; Region: PRK05367 316385009095 Glycine cleavage system P-protein, alpha- and beta-subunits. This family consists of Glycine cleavage system P-proteins EC:1.4.4.2 from bacterial, mammalian and plant sources. The P protein is part of the glycine decarboxylase multienzyme complex EC:2.1; Region: GDC-P; cd00613 316385009096 tetramer interface [polypeptide binding]; other site 316385009097 pyridoxal 5'-phosphate binding site [chemical binding]; other site 316385009098 catalytic residue [active] 316385009099 Glycine cleavage system P-protein, alpha- and beta-subunits. This family consists of Glycine cleavage system P-proteins EC:1.4.4.2 from bacterial, mammalian and plant sources. The P protein is part of the glycine decarboxylase multienzyme complex EC:2.1; Region: GDC-P; cd00613 316385009100 tetramer interface [polypeptide binding]; other site 316385009101 pyridoxal 5'-phosphate binding site [chemical binding]; other site 316385009102 catalytic residue [active] 316385009103 Glycine cleavage H-protein. Glycine cleavage H-proteins are part of the glycine cleavage system (GCS) found in bacteria, archea and the mitochondria of eukaryotes. GCS is a multienzyme complex consisting of 4 different components (P-, H-, T- and...; Region: GCS_H; cd06848 316385009104 lipoyl attachment site [posttranslational modification]; other site 316385009105 oxidoreductase; Provisional; Region: PRK08013 316385009106 Ubiquinone biosynthesis hydroxylase, UbiH/UbiF/VisC/COQ6 family; Region: Ubi-OHases; TIGR01988 316385009107 2-octaprenyl-6-methoxyphenyl hydroxylase; Validated; Region: PRK05732 316385009108 Ubiquinone biosynthesis hydroxylase, UbiH/UbiF/VisC/COQ6 family; Region: Ubi-OHases; TIGR01988 316385009109 proline aminopeptidase P II; Provisional; Region: PRK10879 316385009110 Aminopeptidase P, N-terminal domain; Region: AMP_N; pfam05195 316385009111 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 316385009112 active site 316385009113 hypothetical protein; Reviewed; Region: PRK01736 316385009114 Z-ring-associated protein; Provisional; Region: PRK10972 316385009115 5-formyltetrahydrofolate cyclo-ligase family protein; Provisional; Region: PRK10333 316385009116 5-formyltetrahydrofolate cyclo-ligase family; Region: 5-FTHF_cyc-lig; pfam01812 316385009117 D-3-phosphoglycerate dehydrogenase; Provisional; Region: PRK11790 316385009118 Phosphoglycerate dehydrogenases, NAD-binding and catalytic domains; Region: PGDH_3; cd12176 316385009119 ligand binding site [chemical binding]; other site 316385009120 NAD binding site [chemical binding]; other site 316385009121 tetramer interface [polypeptide binding]; other site 316385009122 catalytic site [active] 316385009123 C-terminal ACT (regulatory) domain of D-3-Phosphoglycerate Dehydrogenase (3PGDH) found in fungi and bacteria; Region: ACT_3PGDH; cd04901 316385009124 L-serine binding site [chemical binding]; other site 316385009125 ACT domain interface; other site 316385009126 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 316385009127 tetramer (dimer of dimers) interface [polypeptide binding]; other site 316385009128 active site 316385009129 dimer interface [polypeptide binding]; other site 316385009130 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 316385009131 chromosome replication initiation inhibitor protein; Validated; Region: PRK03635 316385009132 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 316385009133 The C-terminal substrate binding domain of LysR-type transcriptional regulator, ArgP (IciA), for arginine exporter (ArgO); contains the type 2 periplasmic binding fold; Region: PBP2_IciA_ArgP; cd08428 316385009134 putative dimerization interface [polypeptide binding]; other site 316385009135 membrane ATPase/protein kinase; Provisional; Region: PRK09435 316385009136 The function of this protein family is unkown. The protein sequences are similar to the ArgK protein in E. coli. ArgK protein is a membrane ATPase which is required for transporting arginine, ornithine and lysine into the cells by the arginine and...; Region: ArgK-like; cd03114 316385009137 Walker A; other site 316385009138 methylmalonyl-CoA decarboxylase; Provisional; Region: PRK11423 316385009139 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 316385009140 substrate binding site [chemical binding]; other site 316385009141 oxyanion hole (OAH) forming residues; other site 316385009142 trimer interface [polypeptide binding]; other site 316385009143 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 316385009144 Transcriptional regulator [Transcription]; Region: LysR; COG0583 316385009145 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 316385009146 dimerization interface [polypeptide binding]; other site 316385009147 Uncharacterized conserved protein [Function unknown]; Region: COG2968 316385009148 oxidative stress defense protein; Provisional; Region: PRK11087 316385009149 arginine exporter protein; Provisional; Region: PRK09304 316385009150 mechanosensitive channel MscS; Provisional; Region: PRK10334 316385009151 Mechanosensitive ion channel; Region: MS_channel; pfam00924 316385009152 fructose-bisphosphate aldolase; Provisional; Region: PRK09197 316385009153 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 316385009154 active site 316385009155 intersubunit interface [polypeptide binding]; other site 316385009156 zinc binding site [ion binding]; other site 316385009157 Na+ binding site [ion binding]; other site 316385009158 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 316385009159 Phosphoglycerate kinase; Region: PGK; pfam00162 316385009160 substrate binding site [chemical binding]; other site 316385009161 hinge regions; other site 316385009162 ADP binding site [chemical binding]; other site 316385009163 catalytic site [active] 316385009164 erythrose 4-phosphate dehydrogenase; Provisional; Region: PRK13535 316385009165 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; smart00846 316385009166 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 316385009167 nucleoside triphosphate hydrolase domain-containing protein; Reviewed; Region: PRK09270 316385009168 Nucleoside/nucleotide kinase (NK) is a protein superfamily consisting of multiple families of enzymes that share structural similarity and are functionally related to the catalysis of the reversible phosphate group transfer from nucleoside triphosphates...; Region: NK; cl17190 316385009169 active site 316385009170 Transcriptional regulator [Transcription]; Region: MtlR; COG3722 316385009171 putative DNA-binding transcriptional regulator; Provisional; Region: PRK10022 316385009172 Bacterial fructose-1,6-bisphosphatase, glpX-encoded. A dimeric enzyme dependent on Mg(2+). glpX-encoded FPBase (FBPase class II) differs from other members of the inositol-phosphatase superfamily by permutation of secondary structure elements. The core...; Region: FBPase_glpX; cd01516 316385009173 Bacterial fructose-1,6-bisphosphatase, glpX-encoded; Region: FBPase_glpX; pfam03320 316385009174 putative active site [active] 316385009175 L-sorbose-1-phosphate reductase; Region: sorbose_phosphate_red; cd08238 316385009176 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 316385009177 putative NAD(P) binding site [chemical binding]; other site 316385009178 catalytic Zn binding site [ion binding]; other site 316385009179 transketolase; Reviewed; Region: PRK12753 316385009180 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 316385009181 TPP-binding site [chemical binding]; other site 316385009182 dimer interface [polypeptide binding]; other site 316385009183 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 316385009184 PYR/PP interface [polypeptide binding]; other site 316385009185 dimer interface [polypeptide binding]; other site 316385009186 TPP binding site [chemical binding]; other site 316385009187 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 316385009188 Zn-dependent protease with chaperone function [Posttranslational modification, protein turnover, chaperones]; Region: HtpX; COG0501 316385009189 Agmatinase-like family includes proclavaminic acid amidinohydrolase; Region: Agmatinase_PAH; cd11592 316385009190 agmatinase; Region: agmatinase; TIGR01230 316385009191 oligomer interface [polypeptide binding]; other site 316385009192 putative active site [active] 316385009193 Mn binding site [ion binding]; other site 316385009194 Arginine decarboxylase (spermidine biosynthesis) [Amino acid transport and metabolism]; Region: SpeA; COG1166 316385009195 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Arginine Decarboxylase; Region: PLPDE_III_ADC; cd06830 316385009196 dimer interface [polypeptide binding]; other site 316385009197 active site 316385009198 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 316385009199 catalytic residues [active] 316385009200 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes; Region: PLPDE_III; cl00261 316385009201 Virulence promoting factor; Region: YqgB; pfam11036 316385009202 Protein of unknown function (DUF2684); Region: DUF2684; pfam10885 316385009203 S-adenosylmethionine synthetase; Validated; Region: PRK05250 316385009204 S-adenosylmethionine synthetase, N-terminal domain; Region: S-AdoMet_synt_N; pfam00438 316385009205 S-adenosylmethionine synthetase, central domain; Region: S-AdoMet_synt_M; pfam02772 316385009206 S-adenosylmethionine synthetase, C-terminal domain; Region: S-AdoMet_synt_C; pfam02773 316385009207 hypothetical protein; Provisional; Region: PRK04860 316385009208 Zn-dependent metalloprotease, SprT family [General function prediction only]; Region: SprT; COG3091 316385009209 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1385 316385009210 RNA methyltransferase, RsmE family; Region: TIGR00046 316385009211 glutathione synthetase; Provisional; Region: PRK05246 316385009212 Prokaryotic glutathione synthetase, N-terminal domain; Region: GSH-S_N; pfam02951 316385009213 Prokaryotic glutathione synthetase, ATP-grasp domain; Region: GSH-S_ATP; pfam02955 316385009214 hypothetical protein; Validated; Region: PRK00228 316385009215 Holliday junction resolvase-like protein; Reviewed; Region: PRK00109 316385009216 Tfp pilus assembly protein, pilus retraction ATPase PilT [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilT; COG2805 316385009217 Pilus retraction ATPase PilT. PilT is a nucleotide binding protein responsible for the retraction of type IV pili, likely by pili disassembly. This retraction provides the force required for travel of bacteria in low water environments by a mechanism...; Region: PilT; cd01131 316385009218 Walker A motif; other site 316385009219 ATP binding site [chemical binding]; other site 316385009220 Walker B motif; other site 316385009221 Pyridoxal 5-phosphate (PLP)-binding TIM barrel domain of Type III PLP-Dependent Enzymes, Yggs-like proteins; Region: PLPDE_III_Yggs_like; cd06824 316385009222 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 316385009223 catalytic residue [active] 316385009224 YGGT family; Region: YGGT; pfam02325 316385009225 YGGT family; Region: YGGT; pfam02325 316385009226 hypothetical protein; Validated; Region: PRK05090 316385009227 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 316385009228 active site 316385009229 dimerization interface [polypeptide binding]; other site 316385009230 HemN family oxidoreductase; Provisional; Region: PRK05660 316385009231 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 316385009232 FeS/SAM binding site; other site 316385009233 HemN C-terminal domain; Region: HemN_C; pfam06969 316385009234 Protein of unknown function (DUF1202); Region: DUF1202; pfam06717 316385009235 Bacterial L-asparaginases and related enzymes; Region: L-asparaginase_like; cd00411 316385009236 homodimer interface [polypeptide binding]; other site 316385009237 active site 316385009238 hypothetical protein; Provisional; Region: PRK10626 316385009239 Protein of unknown function (DUF2884); Region: DUF2884; pfam11101 316385009240 hypothetical protein; Provisional; Region: PRK11702 316385009241 tRNA (guanine-N(7)-)-methyltransferase; Reviewed; Region: trmB; PRK00121 316385009242 adenine DNA glycosylase; Provisional; Region: PRK10880 316385009243 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 316385009244 minor groove reading motif; other site 316385009245 helix-hairpin-helix signature motif; other site 316385009246 substrate binding pocket [chemical binding]; other site 316385009247 active site 316385009248 Iron-sulfur binding domain of endonuclease III; Region: EndIII_4Fe-2S; pfam10576 316385009249 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 316385009250 DNA binding and oxoG recognition site [nucleotide binding] 316385009251 oxidative damage protection protein; Provisional; Region: PRK05408 316385009252 murein transglycosylase C; Provisional; Region: mltC; PRK11671 316385009253 Domain of unknown function (DUF3393); Region: DUF3393; pfam11873 316385009254 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 316385009255 N-acetyl-D-glucosamine binding site [chemical binding]; other site 316385009256 catalytic residue [active] 316385009257 Type II secretory pathway, prepilin signal peptidase PulO and related peptidases [Cell motility and secretion / Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: PulO; COG1989 316385009258 Bacterial Peptidase A24 N-terminal domain; Region: DiS_P_DiS; pfam06750 316385009259 Type IV leader peptidase family; Region: Peptidase_A24; pfam01478 316385009260 putative type II secretion protein GspC; Provisional; Region: PRK09681 316385009261 Type IV pilus biogenesis; Region: Pilus_PilP; pfam11356 316385009262 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 316385009263 predicted secretion pathway protein, L-type protein (pseudogene) 316385009264 putative general secretion pathway protein YghD; Provisional; Region: PRK09731 316385009265 Uncharacterized membrane protein, possible Na+ channel or pump [General function prediction only]; Region: COG1811 316385009266 ornithine decarboxylase; Provisional; Region: PRK13578 316385009267 Orn/Lys/Arg decarboxylase, N-terminal domain; Region: OKR_DC_1_N; pfam03709 316385009268 Ornithine decarboxylase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD corresponds to ornithine decarboxylase (ODC), arginine decarboxylase (ADC) and lysine...; Region: Orn_deC_like; cd00615 316385009269 homodimer interface [polypeptide binding]; other site 316385009270 pyridoxal 5'-phosphate binding site [chemical binding]; other site 316385009271 catalytic residue [active] 316385009272 Orn/Lys/Arg decarboxylase, C-terminal domain; Region: OKR_DC_1_C; pfam03711 316385009273 glycolate transporter; Provisional; Region: PRK09695 316385009274 L-lactate permease; Region: Lactate_perm; cl00701 316385009275 Malate synthase G (MSG), monomeric enzyme present in some bacteria. In general, malate synthase catalyzes the Claisen condensation of glyoxylate and acetyl-CoA to malyl-CoA , which hydrolyzes to malate and CoA. This reaction is part of the glyoxylate...; Region: malate_synt_G; cd00728 316385009276 active site 316385009277 hypothetical protein; Provisional; Region: PRK09732 316385009278 glycolate oxidase iron-sulfur subunit; Provisional; Region: glcF; PRK11274 316385009279 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 316385009280 Cysteine-rich domain; Region: CCG; pfam02754 316385009281 Cysteine-rich domain; Region: CCG; pfam02754 316385009282 glycolate oxidase FAD binding subunit; Provisional; Region: glcE; PRK11282 316385009283 FAD binding domain; Region: FAD_binding_4; pfam01565 316385009284 glycolate oxidase subunit GlcD; Provisional; Region: PRK11230 316385009285 FAD binding domain; Region: FAD_binding_4; pfam01565 316385009286 DNA-binding transcriptional regulator GlcC; Provisional; Region: PRK09990 316385009287 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 316385009288 DNA-binding site [nucleotide binding]; DNA binding site 316385009289 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 316385009290 Transposase domain (DUF772); Region: DUF772; pfam05598 316385009291 Transposase and inactivated derivatives, IS5 family [DNA replication, recombination, and repair]; Region: COG3039 316385009292 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 316385009293 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 316385009294 Polysaccharide biosynthesis protein; Region: Polysacc_synt_3; pfam13440 316385009295 Nucleoside/nucleotide kinase (NK) is a protein superfamily consisting of multiple families of enzymes that share structural similarity and are functionally related to the catalysis of the reversible phosphate group transfer from nucleoside triphosphates...; Region: NK; cl17190 316385009296 Thymidylate kinase; Region: Thymidylate_kin; pfam02223 316385009297 active site 316385009298 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 316385009299 TMP-binding site; other site 316385009300 ATP-binding site [chemical binding]; other site 316385009301 Thymidylate kinase [Nucleotide transport and metabolism]; Region: Tmk; COG0125 316385009302 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 316385009303 TMP-binding site; other site 316385009304 ATP-binding site [chemical binding]; other site 316385009305 Phosphate/sulphate permeases [Inorganic ion transport and metabolism]; Region: PitA; COG0306 316385009306 Phosphate/sulphate permeases [Inorganic ion transport and metabolism]; Region: PitA; COG0306 316385009307 bifunctional glutathionylspermidine amidase/glutathionylspermidine synthetase; Provisional; Region: PRK10507 316385009308 CHAP domain; Region: CHAP; pfam05257 316385009309 Glutathionylspermidine synthase [Amino acid transport and metabolism]; Region: Gsp; COG0754 316385009310 putative S-transferase; Provisional; Region: PRK11752 316385009311 GST_N family, Ure2p-like subfamily; composed of the Saccharomyces cerevisiae Ure2p and related GSTs. Ure2p is a regulator for nitrogen catabolism in yeast. It represses the expression of several gene products involved in the use of poor nitrogen sources...; Region: GST_N_Ure2p_like; cd03048 316385009312 C-terminal domain interface [polypeptide binding]; other site 316385009313 GSH binding site (G-site) [chemical binding]; other site 316385009314 dimer interface [polypeptide binding]; other site 316385009315 C-terminal, alpha helical domain of Escherichia coli Yghu Glutathione S-transferases and related uncharacterized proteins; Region: GST_C_YghU_like; cd10292 316385009316 dimer interface [polypeptide binding]; other site 316385009317 N-terminal domain interface [polypeptide binding]; other site 316385009318 active site 316385009319 hydrogenase 2 accessory protein HypG; Provisional; Region: PRK10413 316385009320 Zn finger protein HypA/HybF (possibly regulating hydrogenase expression) [General function prediction only]; Region: HybF; COG0375 316385009321 hydrogenase nickel incorporation protein HybF; Provisional; Region: PRK12380 316385009322 hydrogenase 2-specific chaperone; Provisional; Region: PRK10465 316385009323 coenzyme F420-reducing hydrogenase delta subunit (putative coenzyme F420 hydrogenase processing subunit); Region: frhD; TIGR00130 316385009324 Endopeptidases belonging to membrane-bound hydrogenases group. These hydrogenases transfer electrons from H2 to a cytochrome that is bound to a membrane-located complex coupling electron transfer to transmembrane proton translocation. Endopeptidase HybD...; Region: H2MP_MemB-H2up; cd06062 316385009325 putative substrate-binding site; other site 316385009326 nickel binding site [ion binding]; other site 316385009327 hydrogenase 2 large subunit; Provisional; Region: PRK10467 316385009328 Ni,Fe-hydrogenase I large subunit [Energy production and conversion]; Region: HyaB; COG0374 316385009329 putative hydrogenase 2 b cytochrome subunit; Provisional; Region: PRK10881 316385009330 Polysulphide reductase, NrfD; Region: NrfD; pfam03916 316385009331 hydrogenase 2 protein HybA; Provisional; Region: PRK10882 316385009332 4Fe-4S binding domain; Region: Fer4_6; pfam12837 316385009333 hydrogenase 2 small subunit; Provisional; Region: PRK10468 316385009334 Tat (twin-arginine translocation) pathway signal sequence; Region: TAT_signal_seq; TIGR01409 316385009335 NADH ubiquinone oxidoreductase, 20 Kd subunit; Region: Oxidored_q6; pfam01058 316385009336 Protein of unknown function (DUF2623); Region: DUF2623; pfam11115 316385009337 predicted hydrolase (pseudogene) 316385009338 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 316385009339 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 316385009340 active site 316385009341 catalytic tetrad [active] 316385009342 hypothetical protein; Provisional; Region: PRK05208 316385009343 oxidoreductase; Provisional; Region: PRK07985 316385009344 classical (c) SDR, subgroup 1; Region: SDR_c1; cd05355 316385009345 NAD binding site [chemical binding]; other site 316385009346 metal binding site [ion binding]; metal-binding site 316385009347 active site 316385009348 biopolymer transport protein ExbD; Provisional; Region: PRK11267 316385009349 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 316385009350 biopolymer transport protein ExbB; Provisional; Region: PRK10414 316385009351 cystathionine beta-lyase; Provisional; Region: PRK08114 316385009352 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 316385009353 homodimer interface [polypeptide binding]; other site 316385009354 substrate-cofactor binding pocket; other site 316385009355 pyridoxal 5'-phosphate binding site [chemical binding]; other site 316385009356 catalytic residue [active] 316385009357 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 316385009358 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 316385009359 AraC-type transcriptional regulator N-terminus; Region: AraC_N; pfam06719 316385009360 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 316385009361 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 316385009362 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 316385009363 Uncharacterized oxidoreductases, Fe-dependent alcohol dehydrogenase family [Energy production and conversion]; Region: COG1979 316385009364 Butanol dehydrogenase catalyzes the conversion of butyraldehyde to butanol with the cofactor NAD(P)H being oxidized in the process; Region: BDH; cd08187 316385009365 dimer interface [polypeptide binding]; other site 316385009366 active site 316385009367 metal binding site [ion binding]; metal-binding site 316385009368 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 316385009369 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 316385009370 active site 316385009371 catalytic tetrad [active] 316385009372 Protein of unknown function (DUF3828); Region: DUF3828; pfam12883 316385009373 putative outer membrane lipoprotein; Provisional; Region: PRK09973 316385009374 hypothetical protein; Provisional; Region: PRK01254 316385009375 Radical SAM N-terminal; Region: Radical_SAM_N; pfam08497 316385009376 Domain of unknown function (DUF3362); Region: DUF3362; pfam11842 316385009377 FtsI repressor; Provisional; Region: PRK10883 316385009378 Multicopper oxidase; Region: Cu-oxidase_3; pfam07732 316385009379 Multicopper oxidase; Region: Cu-oxidase_2; pfam07731 316385009380 1-acyl-sn-glycerol-3-phosphate acyltransferase; Provisional; Region: PRK15018 316385009381 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 316385009382 putative acyl-acceptor binding pocket; other site 316385009383 DNA topoisomerase IV, A subunit, proteobacterial; Region: parC_Gneg; TIGR01062 316385009384 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 316385009385 CAP-like domain; other site 316385009386 active site 316385009387 primary dimer interface [polypeptide binding]; other site 316385009388 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 316385009389 putative ABC transporter periplasmic-binding protein; Provisional; Region: PRK09755 316385009390 The substrate-binding component of an ABC-type oligopetide import system contains the type 2 periplasmic binding fold; Region: PBP2_OppA; cd08504 316385009391 peptide binding site [polypeptide binding]; other site 316385009392 antitoxin MqsA for MqsR toxin; Region: MqsA; cd12870 316385009393 toxin interface [polypeptide binding]; other site 316385009394 putative zinc finger/helix-turn-helix protein, YgiT family; Region: CxxCG_CxxCG_HTH; TIGR03830 316385009395 Zn binding site [ion binding]; other site 316385009396 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 316385009397 non-specific DNA binding site [nucleotide binding]; other site 316385009398 salt bridge; other site 316385009399 sequence-specific DNA binding site [nucleotide binding]; other site 316385009400 Motility quorum-sensing regulator (MqsR); Region: MqsR; cd12869 316385009401 peptide binding site [polypeptide binding]; other site 316385009402 DNA gyrase inhibitor [DNA replication, recombination, and repair]; Region: COG3449 316385009403 TIGR00156 family protein; Region: TIGR00156 316385009404 DNA-binding transcriptional regulator QseB; Provisional; Region: PRK10336 316385009405 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 316385009406 active site 316385009407 phosphorylation site [posttranslational modification] 316385009408 intermolecular recognition site; other site 316385009409 dimerization interface [polypeptide binding]; other site 316385009410 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 316385009411 DNA binding site [nucleotide binding] 316385009412 sensor protein QseC; Provisional; Region: PRK10337 316385009413 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 316385009414 dimer interface [polypeptide binding]; other site 316385009415 phosphorylation site [posttranslational modification] 316385009416 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 316385009417 ATP binding site [chemical binding]; other site 316385009418 Mg2+ binding site [ion binding]; other site 316385009419 G-X-G motif; other site 316385009420 Putative NADPH-quinone reductase (modulator of drug activity B) [General function prediction only]; Region: MdaB; COG2249 316385009421 Uncharacterized conserved protein [Function unknown]; Region: COG1359 316385009422 DNA topoisomerase IV, B subunit, proteobacterial; Region: parE_Gneg; TIGR01055 316385009423 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 316385009424 ATP binding site [chemical binding]; other site 316385009425 Mg2+ binding site [ion binding]; other site 316385009426 G-X-G motif; other site 316385009427 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 316385009428 anchoring element; other site 316385009429 dimer interface [polypeptide binding]; other site 316385009430 ATP binding site [chemical binding]; other site 316385009431 Topoisomerase-primase domain. This is a nucleotidyl transferase/hydrolase domain found in type IA, type IIA and type IIB topoisomerases, bacterial DnaG-type primases, small primase-like proteins from bacteria and archaea, OLD family nucleases from...; Region: TOPRIM; cl00718 316385009432 active site 316385009433 metal binding site [ion binding]; metal-binding site 316385009434 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 316385009435 esterase YqiA; Provisional; Region: PRK11071 316385009436 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 316385009437 Enterobacter aerogenes GpdQ and related proteins, metallophosphatase domain; Region: MPP_GpdQ; cd07402 316385009438 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 316385009439 active site 316385009440 metal binding site [ion binding]; metal-binding site 316385009441 hexamer interface [polypeptide binding]; other site 316385009442 putative dehydrogenase; Provisional; Region: PRK11039 316385009443 ADP-ribose pyrophosphatase NudF; Provisional; Region: nudF; PRK10729 316385009444 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 316385009445 dimer interface [polypeptide binding]; other site 316385009446 ADP-ribose binding site [chemical binding]; other site 316385009447 active site 316385009448 nudix motif; other site 316385009449 metal binding site [ion binding]; metal-binding site 316385009450 outer membrane channel protein; Reviewed; Region: tolC; PRK09465 316385009451 hypothetical protein; Provisional; Region: PRK11653 316385009452 Glutathionylspermidine synthase [Amino acid transport and metabolism]; Region: Gsp; COG0754 316385009453 The Class III extradiol dioxygenase, 4,5-DOPA Dioxygenase, catalyzes the incorporation of both atoms of molecular oxygen into 4,5-dihydroxy-phenylalanine; Region: 45_DOPA_Dioxygenase; cd07363 316385009454 Catalytic LigB subunit of aromatic ring-opening dioxygenase; Region: LigB; pfam02900 316385009455 putative active site [active] 316385009456 metal binding site [ion binding]; metal-binding site 316385009457 zinc transporter ZupT; Provisional; Region: PRK04201 316385009458 ZIP Zinc transporter; Region: Zip; pfam02535 316385009459 3,4-dihydroxy-2-butanone 4-phosphate synthase; Provisional; Region: ribB; PRK03353 316385009460 3,4-dihydroxy-2-butanone 4-phosphate synthase [Coenzyme metabolism]; Region: RibB; COG0108 316385009461 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2960 316385009462 putative fimbrial protein; Provisional; Region: PRK09733 316385009463 IS2 repressor TnpA; Reviewed; Region: PRK09413 316385009464 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 316385009465 IS2 transposase TnpB; Reviewed; Region: PRK09409 316385009466 HTH-like domain; Region: HTH_21; pfam13276 316385009467 Integrase core domain; Region: rve; pfam00665 316385009468 Integrase core domain; Region: rve_3; pfam13683 316385009469 P pilus assembly protein, porin PapC [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimD; COG3188 316385009470 PapC N-terminal domain; Region: PapC_N; pfam13954 316385009471 Type VII secretion system (T7SS), usher protein; Region: Usher; pfam00577 316385009472 PapC C-terminal domain; Region: PapC_C; pfam13953 316385009473 P pilus assembly protein, chaperone PapD [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimC; COG3121 316385009474 Gram-negative pili assembly chaperone, N-terminal domain; Region: Pili_assembly_N; pfam00345 316385009475 Gram-negative pili assembly chaperone, C-terminal domain; Region: Pili_assembly_C; pfam02753 316385009476 Fimbrial protein; Region: Fimbrial; pfam00419 316385009477 glycogen synthesis protein GlgS; Provisional; Region: PRK02922 316385009478 Protein of unknown function (DUF1449); Region: DUF1449; pfam07290 316385009479 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2268 316385009480 Band_7_flotillin: a subgroup of the band 7 domain of flotillin (reggie) like proteins. This subgroup contains proteins similar to stomatin, prohibitin, flotillin, HlfK/C and podicin. These two proteins are lipid raft-associated. Individual proteins of...; Region: Band_7_flotillin; cd03399 316385009481 bifunctional heptose 7-phosphate kinase/heptose 1-phosphate adenyltransferase; Provisional; Region: PRK11316 316385009482 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 316385009483 putative ribose interaction site [chemical binding]; other site 316385009484 putative ADP binding site [chemical binding]; other site 316385009485 rfaE bifunctional protein, domain II; Region: rfaE_dom_II; TIGR02199 316385009486 active site 316385009487 nucleotide binding site [chemical binding]; other site 316385009488 HIGH motif; other site 316385009489 KMSKS motif; other site 316385009490 bifunctional glutamine-synthetase adenylyltransferase/deadenyltransferase; Reviewed; Region: PRK11072 316385009491 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 316385009492 metal binding triad; other site 316385009493 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 316385009494 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 316385009495 metal binding triad; other site 316385009496 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 316385009497 Uncharacterized conserved protein [Function unknown]; Region: COG3025 316385009498 Uncharacterized subgroup of the CYTH-like superfamily having an associated CHAD domain; Region: CYTH-like_Pase_CHAD; cd07756 316385009499 putative active site [active] 316385009500 putative metal binding residues [ion binding]; other site 316385009501 signature motif; other site 316385009502 putative triphosphate binding site [ion binding]; other site 316385009503 CHAD domain; Region: CHAD; pfam05235 316385009504 SH3 domain-containing protein; Provisional; Region: PRK10884 316385009505 Bacterial SH3 domain homologues; Region: SH3b; smart00287 316385009506 multifunctional tRNA nucleotidyl transferase/2'3'-cyclic phosphodiesterase/2'nucleotidase/phosphatase; Reviewed; Region: cca; PRK10885 316385009507 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 316385009508 active site 316385009509 NTP binding site [chemical binding]; other site 316385009510 metal binding triad [ion binding]; metal-binding site 316385009511 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 316385009512 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 316385009513 Zn2+ binding site [ion binding]; other site 316385009514 Mg2+ binding site [ion binding]; other site 316385009515 undecaprenyl pyrophosphate phosphatase; Reviewed; Region: PRK00281 316385009516 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 316385009517 homooctamer interface [polypeptide binding]; other site 316385009518 active site 316385009519 putative glycerol-3-phosphate acyltransferase PlsY; Provisional; Region: PRK00220 316385009520 transcriptional activator TtdR; Provisional; Region: PRK09801 316385009521 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 316385009522 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_9; cd08479 316385009523 putative effector binding pocket; other site 316385009524 putative dimerization interface [polypeptide binding]; other site 316385009525 tartrate dehydratase subunit alpha; Validated; Region: PRK08230 316385009526 L(+)-tartrate dehydratase subunit beta; Validated; Region: PRK08228 316385009527 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 316385009528 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cd00625 316385009529 transmembrane helices; other site 316385009530 UGMP family protein; Validated; Region: PRK09604 316385009531 Inactive homolog of metal-dependent proteases, putative molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: COG1214; cl17884 316385009532 30S ribosomal protein S21; Reviewed; Region: rpsU; PRK00270 316385009533 DNA primase; Validated; Region: dnaG; PRK05667 316385009534 CHC2 zinc finger; Region: zf-CHC2; pfam01807 316385009535 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 316385009536 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 316385009537 active site 316385009538 metal binding site [ion binding]; metal-binding site 316385009539 interdomain interaction site; other site 316385009540 DnaB-helicase binding domain of primase; Region: DnaB_bind; pfam10410 316385009541 DNA primase DnaG DnaB-binding; Region: DnaG_DnaB_bind; pfam08278 316385009542 RNA polymerase sigma factor RpoD; Validated; Region: PRK05658 316385009543 Sigma-70 factor, region 1.1; Region: Sigma70_r1_1; pfam03979 316385009544 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 316385009545 Sigma-70, non-essential region; Region: Sigma70_ner; pfam04546 316385009546 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 316385009547 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 316385009548 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 316385009549 DNA binding residues [nucleotide binding] 316385009550 G:T/U mismatch specific DNA glcosylase (MUG); Region: UDG_F2_MUG; cd10028 316385009551 active site 316385009552 SUMO-1 interface [polypeptide binding]; other site 316385009553 Siderophore-interacting protein [Inorganic ion transport and metabolism]; Region: ViuB; COG2375 316385009554 Siderophore interacting proteins share the domain structure of the ferredoxin reductase like family. Siderophores are produced in various bacteria (and some plants) to extract iron from hosts. Binding constants are high, so iron can be pilfered from...; Region: siderophore_interacting; cd06193 316385009555 FAD binding pocket [chemical binding]; other site 316385009556 FAD binding motif [chemical binding]; other site 316385009557 phosphate binding motif [ion binding]; other site 316385009558 NAD binding pocket [chemical binding]; other site 316385009559 Predicted transcriptional regulators [Transcription]; Region: COG1695 316385009560 Transcriptional regulator PadR-like family; Region: PadR; pfam03551 316385009561 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 316385009562 PAS fold; Region: PAS_3; pfam08447 316385009563 putative active site [active] 316385009564 heme pocket [chemical binding]; other site 316385009565 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 316385009566 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 316385009567 dimer interface [polypeptide binding]; other site 316385009568 putative CheW interface [polypeptide binding]; other site 316385009569 putrescine--2-oxoglutarate aminotransferase; Provisional; Region: PRK11522 316385009570 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 316385009571 inhibitor-cofactor binding pocket; inhibition site 316385009572 pyridoxal 5'-phosphate binding site [chemical binding]; other site 316385009573 catalytic residue [active] 316385009574 tRNA-binding-domain-containing CsaA-like proteins. CsaA is a molecular chaperone with export related activities. CsaA has a putative tRNA binding activity. The functional unit of CsaA is a homodimer and this domain acts as a dimerization domain; Region: tRNA_bind_CsaA; cd02798 316385009575 dimer interface [polypeptide binding]; other site 316385009576 putative tRNA-binding site [nucleotide binding]; other site 316385009577 DNA-binding transcriptional repressor EbgR; Provisional; Region: PRK10339 316385009578 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 316385009579 DNA binding site [nucleotide binding] 316385009580 domain linker motif; other site 316385009581 Ligand-binding domain of DNA transcription repressor GalR which is one of two regulatory proteins involved in galactose transport and metabolism; Region: PBP1_GalR; cd01544 316385009582 putative dimerization interface [polypeptide binding]; other site 316385009583 putative ligand binding site [chemical binding]; other site 316385009584 cryptic beta-D-galactosidase subunit alpha; Reviewed; Region: ebgA; PRK10340 316385009585 Glycosyl hydrolases family 2, sugar binding domain; Region: Glyco_hydro_2_N; pfam02837 316385009586 Glycosyl hydrolases family 2; Region: Glyco_hydro_2; pfam00703 316385009587 Glycosyl hydrolases family 2, TIM barrel domain; Region: Glyco_hydro_2_C; pfam02836 316385009588 Beta galactosidase small chain; Region: Bgal_small_N; pfam02929 316385009589 cryptic beta-D-galactosidase subunit beta; Reviewed; Region: ebgC; PRK10202 316385009590 inner membrane transporter YjeM; Provisional; Region: PRK15238 316385009591 alpha-glucosidase; Provisional; Region: PRK10137 316385009592 Protein of unknown function, DUF608; Region: DUF608; pfam04685 316385009593 Trehalase; Region: Trehalase; cl17346 316385009594 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 316385009595 2,4-dienoyl-CoA reductase (DCR) FMN-binding domain. DCR in E. coli is an iron-sulfur flavoenzyme which contains FMN, FAD, and a 4Fe-4S cluster. It is also a monomer, unlike that of its eukaryotic counterparts which form homotetramers and lack the...; Region: DCR_FMN; cd02930 316385009596 active site 316385009597 FMN binding site [chemical binding]; other site 316385009598 2,4-decadienoyl-CoA binding site; other site 316385009599 catalytic residue [active] 316385009600 4Fe-4S cluster binding site [ion binding]; other site 316385009601 Uncharacterized NAD(FAD)-dependent dehydrogenases [General function prediction only]; Region: HcaD; COG0446 316385009602 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 316385009603 non-specific DNA binding site [nucleotide binding]; other site 316385009604 salt bridge; other site 316385009605 sequence-specific DNA binding site [nucleotide binding]; other site 316385009606 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4680 316385009607 SAM-dependent 23S ribosomal RNA mG1835 methyltransferase; Provisional; Region: PRK15001 316385009608 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 316385009609 S-adenosylmethionine binding site [chemical binding]; other site 316385009610 Predicted metal-dependent hydrolase [General function prediction only]; Region: COG1451 316385009611 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 316385009612 putative active site [active] 316385009613 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 316385009614 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 316385009615 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 316385009616 integral membrane protein, TerC family; Region: R_switched_Alx; TIGR03718 316385009617 serine/threonine transporter SstT; Provisional; Region: PRK13628 316385009618 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 316385009619 Bacterial inner membrane protein; Region: Imp-YgjV; pfam10688 316385009620 Domains similar to fish antifreeze type III protein; Region: SAF_AH_GD; cd11613 316385009621 galactarate dehydratase; Region: galactar-dH20; TIGR03248 316385009622 D-galactarate dehydratase / Altronate hydrolase, C terminus; Region: GD_AH_C; pfam04295 316385009623 Glucuronate isomerase; Region: UxaC; pfam02614 316385009624 Glucuronate isomerase [Carbohydrate transport and metabolism]; Region: UxaC; COG1904 316385009625 D-galactonate transporter; Region: 2A0114; TIGR00893 316385009626 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 316385009627 putative substrate translocation pore; other site 316385009628 DNA-binding transcriptional repressor ExuR; Provisional; Region: PRK11523 316385009629 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 316385009630 DNA-binding site [nucleotide binding]; DNA binding site 316385009631 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 316385009632 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 316385009633 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 316385009634 EnvZ/OmpR regulon moderator; Provisional; Region: PRK10629 316385009635 Protein of unknown function (DUF1090); Region: DUF1090; pfam06476 316385009636 Uncharacterized conserved protein [Function unknown]; Region: ElaB; COG4575 316385009637 Predicted membrane protein [Function unknown]; Region: COG5393 316385009638 YqjK-like protein; Region: YqjK; pfam13997 316385009639 Predicted membrane protein [Function unknown]; Region: COG2259 316385009640 Predicted glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: ECM4; COG0435 316385009641 Glutathione S-transferase, N-terminal domain; Region: GST_N_2; pfam13409 316385009642 C-terminal, alpha helical domain of Class Omega-like Glutathione S-transferases; Region: GST_C_Omega_like; cd03190 316385009643 putative dimer interface [polypeptide binding]; other site 316385009644 N-terminal domain interface [polypeptide binding]; other site 316385009645 putative substrate binding pocket (H-site) [chemical binding]; other site 316385009646 Predicted membrane protein [Function unknown]; Region: COG3152 316385009647 Predicted membrane protein [Function unknown]; Region: COG3152 316385009648 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 316385009649 putative DNA-binding transcriptional regulator; Provisional; Region: PRK11074 316385009650 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 316385009651 dimerization interface [polypeptide binding]; other site 316385009652 Pirin-related protein [General function prediction only]; Region: COG1741 316385009653 Pirin; Region: Pirin; pfam02678 316385009654 L-cysteine desulfidase [Amino acid transport and metabolism]; Region: COG3681 316385009655 Amino acid permeases [Amino acid transport and metabolism]; Region: SdaC; COG0814 316385009656 serine transporter; Region: stp; TIGR00814 316385009657 L-serine dehydratase TdcG; Provisional; Region: PRK15040 316385009658 Serine dehydratase beta chain; Region: SDH_beta; pfam03315 316385009659 Serine dehydratase alpha chain; Region: SDH_alpha; pfam03313 316385009660 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 316385009661 homotrimer interaction site [polypeptide binding]; other site 316385009662 putative active site [active] 316385009663 formate acetyltransferase 1; Region: pyr_form_ly_1; TIGR01255 316385009664 Pyruvate formate lyase 1; Region: PFL1; cd01678 316385009665 coenzyme A binding site [chemical binding]; other site 316385009666 active site 316385009667 catalytic residues [active] 316385009668 glycine loop; other site 316385009669 propionate/acetate kinase; Provisional; Region: PRK12379 316385009670 Acetokinase family; Region: Acetate_kinase; cl17229 316385009671 threonine/serine transporter TdcC; Provisional; Region: PRK13629 316385009672 Amino acid permeases [Amino acid transport and metabolism]; Region: SdaC; COG0814 316385009673 Threonine dehydratase [Amino acid transport and metabolism]; Region: IlvA; COG1171 316385009674 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 316385009675 tetramer interface [polypeptide binding]; other site 316385009676 pyridoxal 5'-phosphate binding site [chemical binding]; other site 316385009677 catalytic residue [active] 316385009678 DNA-binding transcriptional activator TdcA; Provisional; Region: PRK10341 316385009679 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 316385009680 The C-terminal substrate binding domain of LysR-type transcriptional regulator TdcA, which is involved in the degradation of L-serine and L-threonine, contains the type 2 periplasmic binding fold; Region: PBP2_TdcA; cd08418 316385009681 putative substrate binding pocket [chemical binding]; other site 316385009682 putative dimerization interface [polypeptide binding]; other site 316385009683 DNA-binding transcriptional activator TdcR; Provisional; Region: PRK11424 316385009684 hypothetical protein; Provisional; Region: PRK09716 316385009685 glycerate kinase I; Provisional; Region: PRK10342 316385009686 tartronate semialdehyde reductase; Provisional; Region: garR; PRK11559 316385009687 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 316385009688 alpha-dehydro-beta-deoxy-D-glucarate aldolase; Provisional; Region: PRK10558 316385009689 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 316385009690 D-galactonate transporter; Region: 2A0114; TIGR00893 316385009691 putative substrate translocation pore; other site 316385009692 galactarate dehydratase; Region: galactar-dH20; TIGR03248 316385009693 Domains similar to fish antifreeze type III protein; Region: SAF_AH_GD; cd11613 316385009694 D-galactarate dehydratase / Altronate hydrolase, C terminus; Region: GD_AH_C; pfam04295 316385009695 putative regulator PrlF; Provisional; Region: PRK09974 316385009696 Regulators of stationary/sporulation gene expression [Transcription]; Region: AbrB; COG2002 316385009697 Toxin with endonuclease activity YhaV; Region: Toxin_YhaV; pfam11663 316385009698 DNA-binding transcriptional regulator AgaR; Provisional; Region: PRK09802 316385009699 DeoR-like helix-turn-helix domain; Region: HTH_DeoR; pfam08220 316385009700 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 316385009701 tagatose 6-phosphate aldolase subunit KbaZ; Provisional; Region: PRK15458 316385009702 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 316385009703 active site 316385009704 phosphorylation site [posttranslational modification] 316385009705 N-acetylgalactosamine-specific enzyme IIC component of PTS, fragment (pseudogene) 316385009706 N-acetylglucosamine-6-phosphate deacetylase [Carbohydrate transport and metabolism]; Region: NagA; COG1820 316385009707 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 316385009708 putative sugar isomerase, AgaS family; Region: agaS_fam; TIGR02815 316385009709 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 316385009710 dimer interface [polypeptide binding]; other site 316385009711 active site 316385009712 AgaS-like protein. AgaS contains a SIS (Sugar ISomerase) domain which is found in many phosphosugar isomerases and phosphosugar binding proteins. AgaS is a putative isomerase in Escherichia coli. It is similar to the glucosamine-6-phosphate synthases; Region: SIS_AgaS_like; cd05010 316385009713 putative active site [active] 316385009714 Fructose/tagarose-bisphosphate aldolase class II. This family includes fructose-1,6-bisphosphate (FBP) and tagarose 1,6-bisphosphate (TBP) aldolases. FBP-aldolase is homodimeric and used in gluconeogenesis and glycolysis; the enzyme controls the...; Region: FTBP_aldolase_II; cd00453 316385009715 fructose-bisphosphate aldolase; Provisional; Region: PRK09197 316385009716 active site 316385009717 intersubunit interface [polypeptide binding]; other site 316385009718 zinc binding site [ion binding]; other site 316385009719 Na+ binding site [ion binding]; other site 316385009720 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 316385009721 active site 316385009722 phosphorylation site [posttranslational modification] 316385009723 PTS system N-acetylgalactosamine-specific transporter subunit IIC; Provisional; Region: PRK09757 316385009724 PTS system N-acetylgalactosamine-specific transporter subunit IID; Provisional; Region: PRK09855 316385009725 6-phosphogluconolactonase/Glucosamine-6-phosphate isomerase/deaminase [Carbohydrate transport and metabolism]; Region: NagB; COG0363 316385009726 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 316385009727 active site 316385009728 trimer interface [polypeptide binding]; other site 316385009729 allosteric site; other site 316385009730 active site lid [active] 316385009731 P pilus assembly protein, pilin FimA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimA; COG3539 316385009732 P pilus assembly protein, chaperone PapD [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimC; COG3121 316385009733 Gram-negative pili assembly chaperone, N-terminal domain; Region: Pili_assembly_N; pfam00345 316385009734 Gram-negative pili assembly chaperone, C-terminal domain; Region: Pili_assembly_C; pfam02753 316385009735 P pilus assembly protein, porin PapC [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimD; COG3188 316385009736 PapC N-terminal domain; Region: PapC_N; pfam13954 316385009737 Type VII secretion system (T7SS), usher protein; Region: Usher; pfam00577 316385009738 PapC C-terminal domain; Region: PapC_C; pfam13953 316385009739 Fimbrial protein; Region: Fimbrial; pfam00419 316385009740 SAM-dependent 16S ribosomal RNA C1402 ribose 2'-O-methyltransferase; Provisional; Region: PRK14994 316385009741 Ribosomal RNA small subunit methyltransferase I, also known as rRNA (cytidine-2'-O-)-methyltransferase RsmI; Region: RsmI; cd11648 316385009742 putative SAM binding site [chemical binding]; other site 316385009743 putative homodimer interface [polypeptide binding]; other site 316385009744 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 316385009745 Putative lipoprotein [General function prediction only]; Region: LppC; COG3107 316385009746 Periplasmic binding component of lipoprotein LppC, an immunodominant antigen; Region: PBP1_YraM_LppC_lipoprotein_like; cd06339 316385009747 putative ligand binding site [chemical binding]; other site 316385009748 TIGR00252 family protein; Region: TIGR00252 316385009749 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 316385009750 dimer interface [polypeptide binding]; other site 316385009751 active site 316385009752 outer membrane lipoprotein; Provisional; Region: PRK11023 316385009753 BON domain; Region: BON; pfam04972 316385009754 BON domain; Region: BON; pfam04972 316385009755 Predicted permease; Region: DUF318; pfam03773 316385009756 CC3(TIP30)-like, atypical (a) SDRs; Region: CC3_like_SDR_a; cd05250 316385009757 NADH(P)-binding; Region: NAD_binding_10; pfam13460 316385009758 NAD binding site [chemical binding]; other site 316385009759 active site 316385009760 intracellular protease, PfpI family; Region: PfpI; TIGR01382 316385009761 A type 1 glutamine amidotransferase (GATase1)-like domain found in PfpI from Pyrococcus furiosus; Region: GATase1_PfpI_like; cd03134 316385009762 proposed catalytic triad [active] 316385009763 conserved cys residue [active] 316385009764 hypothetical protein; Provisional; Region: PRK03467 316385009765 The GIY-YIG domain of uncharacterized protein family UPF0213 related to structure-specific endonuclease SLX1; Region: GIY-YIG_UPF0213; cd10456 316385009766 GIY-YIG motif/motif A; other site 316385009767 putative active site [active] 316385009768 putative metal binding site [ion binding]; other site 316385009769 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 316385009770 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 316385009771 Coenzyme A binding pocket [chemical binding]; other site 316385009772 Putative lipid carrier protein [Lipid metabolism]; Region: COG3154 316385009773 Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]; Region: COG0826 316385009774 Peptidase family U32; Region: Peptidase_U32; pfam01136 316385009775 putative protease; Provisional; Region: PRK15447 316385009776 Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]; Region: COG0826 316385009777 hypothetical protein; Provisional; Region: PRK10508 316385009778 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 316385009779 tryptophan permease; Provisional; Region: PRK10483 316385009780 aromatic amino acid transport protein; Region: araaP; TIGR00837 316385009781 ATP-dependent RNA helicase DeaD; Provisional; Region: PRK11634 316385009782 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 316385009783 ATP binding site [chemical binding]; other site 316385009784 Mg++ binding site [ion binding]; other site 316385009785 motif III; other site 316385009786 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 316385009787 nucleotide binding region [chemical binding]; other site 316385009788 ATP-binding site [chemical binding]; other site 316385009789 RNA recognition motif in Escherichia coli cold-shock DEAD box protein A (CsdA) and similar proteins; Region: RRM_EcCsdA_like; cd12499 316385009790 putative RNA binding site [nucleotide binding]; other site 316385009791 lipoprotein NlpI; Provisional; Region: PRK11189 316385009792 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 316385009793 binding surface 316385009794 TPR motif; other site 316385009795 polynucleotide phosphorylase/polyadenylase; Provisional; Region: PRK11824 316385009796 Polyribonucleotide nucleotidyltransferase, repeat 1; Region: RNase_PH_PNPase_1; cd11363 316385009797 RNase E interface [polypeptide binding]; other site 316385009798 trimer interface [polypeptide binding]; other site 316385009799 Polyribonucleotide nucleotidyltransferase, RNA binding domain; Region: PNPase; pfam03726 316385009800 Polyribonucleotide nucleotidyltransferase, repeat 2; Region: RNase_PH_PNPase_2; cd11364 316385009801 RNase E interface [polypeptide binding]; other site 316385009802 trimer interface [polypeptide binding]; other site 316385009803 active site 316385009804 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 316385009805 putative nucleic acid binding region [nucleotide binding]; other site 316385009806 G-X-X-G motif; other site 316385009807 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 316385009808 RNA binding site [nucleotide binding]; other site 316385009809 domain interface; other site 316385009810 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 316385009811 16S/18S rRNA binding site [nucleotide binding]; other site 316385009812 S13e-L30e interaction site [polypeptide binding]; other site 316385009813 25S rRNA binding site [nucleotide binding]; other site 316385009814 tRNA pseudouridine synthase B; Provisional; Region: truB; PRK05033 316385009815 Pseudouridine synthase, Escherichia coli TruB like; Region: PseudoU_synth_EcTruB; cd02573 316385009816 RNA binding site [nucleotide binding]; other site 316385009817 active site 316385009818 Pseudouridine synthase II TruB, C-terminal; Region: TruB-C_2; pfam09157 316385009819 ribosome-binding factor A; Validated; Region: rbfA; PRK00521 316385009820 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 316385009821 Bacterial translation initiation factor IF-2 associated region; Region: IF2_assoc; pfam08364 316385009822 translation initiation factor IF-2; Region: IF-2; TIGR00487 316385009823 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 316385009824 Initiation Factor 2 (IF2)/ eukaryotic Initiation Factor 5B (eIF5B) family; Region: IF2_eIF5B; cd01887 316385009825 G1 box; other site 316385009826 putative GEF interaction site [polypeptide binding]; other site 316385009827 GTP/Mg2+ binding site [chemical binding]; other site 316385009828 Switch I region; other site 316385009829 G2 box; other site 316385009830 G3 box; other site 316385009831 Switch II region; other site 316385009832 G4 box; other site 316385009833 G5 box; other site 316385009834 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 316385009835 Translation-initiation factor 2; Region: IF-2; pfam11987 316385009836 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 316385009837 transcription elongation factor NusA; Validated; Region: nusA; PRK09202 316385009838 NusA N-terminal domain; Region: NusA_N; pfam08529 316385009839 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 316385009840 RNA binding site [nucleotide binding]; other site 316385009841 homodimer interface [polypeptide binding]; other site 316385009842 NusA-like KH domain; Region: KH_5; pfam13184 316385009843 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 316385009844 G-X-X-G motif; other site 316385009845 transcription termination factor NusA, C-terminal duplication; Region: nusA_Cterm_rpt; TIGR01954 316385009846 transcription termination factor NusA, C-terminal duplication; Region: nusA_Cterm_rpt; TIGR01954 316385009847 ribosome maturation protein RimP; Reviewed; Region: PRK00092 316385009848 Sm and related proteins; Region: Sm_like; cl00259 316385009849 Bacillus subtilis YxlS-like, C-terminal domain; Region: YlxS_C; cd01734 316385009850 putative oligomer interface [polypeptide binding]; other site 316385009851 putative RNA binding site [nucleotide binding]; other site 316385009852 Argininosuccinate synthase. The Argininosuccinate synthase is a urea cycle enzyme that catalyzes the penultimate step in arginine biosynthesis: the ATP-dependent ligation of citrulline to aspartate to form argininosuccinate, AMP and pyrophosphate . In...; Region: Argininosuccinate_Synthase; cd01999 316385009853 ANP binding site [chemical binding]; other site 316385009854 Substrate Binding Site II [chemical binding]; other site 316385009855 Substrate Binding Site I [chemical binding]; other site 316385009856 Predicted membrane-associated, metal-dependent hydrolase [General function prediction only]; Region: COG2194 316385009857 Sulfatase; Region: Sulfatase; pfam00884 316385009858 Preprotein translocase SecG subunit; Region: SecG; pfam03840 316385009859 phosphoglucosamine mutase; Provisional; Region: glmM; PRK10887 316385009860 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 316385009861 active site 316385009862 substrate binding site [chemical binding]; other site 316385009863 metal binding site [ion binding]; metal-binding site 316385009864 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 316385009865 dihydropteroate synthase; Region: DHPS; TIGR01496 316385009866 substrate binding pocket [chemical binding]; other site 316385009867 dimer interface [polypeptide binding]; other site 316385009868 inhibitor binding site; inhibition site 316385009869 ATP-dependent metalloprotease; Reviewed; Region: hflB; PRK10733 316385009870 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 316385009871 Walker A motif; other site 316385009872 ATP binding site [chemical binding]; other site 316385009873 Walker B motif; other site 316385009874 arginine finger; other site 316385009875 Peptidase family M41; Region: Peptidase_M41; pfam01434 316385009876 23S rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: FtsJ; COG0293 316385009877 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 316385009878 S-adenosylmethionine binding site [chemical binding]; other site 316385009879 RNA-binding protein YhbY; Provisional; Region: PRK10343 316385009880 transcription elongation factor GreA; Reviewed; Region: greA; PRK00226 316385009881 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 316385009882 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 316385009883 D-alanyl-D-alanine carboxypeptidase/endopeptidase; Provisional; Region: PRK11113 316385009884 D-alanyl-D-alanine carboxypeptidase, serine-type, PBP4 family; Region: PBP4; TIGR00666 316385009885 GTPase CgtA; Reviewed; Region: obgE; PRK12298 316385009886 GTP1/OBG; Region: GTP1_OBG; pfam01018 316385009887 Obg GTPase; Region: Obg; cd01898 316385009888 G1 box; other site 316385009889 GTP/Mg2+ binding site [chemical binding]; other site 316385009890 Switch I region; other site 316385009891 G2 box; other site 316385009892 G3 box; other site 316385009893 Switch II region; other site 316385009894 G4 box; other site 316385009895 G5 box; other site 316385009896 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 316385009897 EamA-like transporter family; Region: EamA; pfam00892 316385009898 EamA-like transporter family; Region: EamA; pfam00892 316385009899 50S ribosomal protein L27; Validated; Region: rpmA; PRK05435 316385009900 50S ribosomal protein L21/unknown domain fusion protein; Provisional; Region: PRK12278 316385009901 50S ribosomal protein L21; Validated; Region: rplU; PRK05573 316385009902 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 316385009903 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 316385009904 substrate binding pocket [chemical binding]; other site 316385009905 chain length determination region; other site 316385009906 substrate-Mg2+ binding site; other site 316385009907 catalytic residues [active] 316385009908 aspartate-rich region 1; other site 316385009909 active site lid residues [active] 316385009910 aspartate-rich region 2; other site 316385009911 DNA-binding transcriptional regulator Nlp; Provisional; Region: PRK10344 316385009912 Predicted transcriptional regulator, BolA superfamily [Transcription]; Region: COG5007 316385009913 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 316385009914 anti sigma factor interaction site; other site 316385009915 regulatory phosphorylation site [posttranslational modification]; other site 316385009916 ABC transporter periplasmic binding protein MlaC; Provisional; Region: PRK15117 316385009917 ABC-type transport system involved in resistance to organic solvents, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2C; COG1463 316385009918 mce related protein; Region: MCE; pfam02470 316385009919 ABC-type transport system involved in resistance to organic solvents, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2B; COG0767 316385009920 conserved hypothetical integral membrane protein; Region: TIGR00056 316385009921 putative ABC transporter ATP-binding protein YrbF; Provisional; Region: PRK11831 316385009922 ATP-binding cassette transport system involved in resistant to organic solvents; Region: ABC_Org_Solvent_Resistant; cd03261 316385009923 Walker A/P-loop; other site 316385009924 ATP binding site [chemical binding]; other site 316385009925 Q-loop/lid; other site 316385009926 ABC transporter signature motif; other site 316385009927 Walker B; other site 316385009928 D-loop; other site 316385009929 H-loop/switch region; other site 316385009930 putative calcium/sodium:proton antiporter; Provisional; Region: PRK10734 316385009931 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 316385009932 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 316385009933 D-arabinose 5-phosphate isomerase; Provisional; Region: PRK10892 316385009934 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 316385009935 putative active site [active] 316385009936 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 316385009937 3-deoxy-D-manno-octulosonate 8-phosphate phosphatase; Provisional; Region: PRK09484 316385009938 HAD-superfamily hydrolase, subfamily IIIA; Region: HAD-SF-IIIA; TIGR01662 316385009939 lipopolysaccharide exporter periplasmic protein; Provisional; Region: PRK10893 316385009940 Lipopolysaccharide-assembly, LptC-related; Region: LptC; pfam06835 316385009941 lipopolysaccharide transport periplasmic protein LptA; Provisional; Region: PRK10894 316385009942 lipopolysaccharide transport periplasmic protein LptA; Region: outer_YhbN_LptA; TIGR03002 316385009943 lipopolysaccharide ABC transporter ATP-binding protein; Provisional; Region: PRK10895 316385009944 ATP-binding cassette component of YhbG transport system; Region: ABC_YhbG; cd03218 316385009945 Walker A/P-loop; other site 316385009946 ATP binding site [chemical binding]; other site 316385009947 Q-loop/lid; other site 316385009948 ABC transporter signature motif; other site 316385009949 Walker B; other site 316385009950 D-loop; other site 316385009951 H-loop/switch region; other site 316385009952 RNA polymerase factor sigma-54; Reviewed; Region: PRK05932 316385009953 Sigma-54 factor, Activator interacting domain (AID); Region: Sigma54_AID; pfam00309 316385009954 Sigma-54 factor, core binding domain; Region: Sigma54_CBD; pfam04963 316385009955 Sigma-54, DNA binding domain; Region: Sigma54_DBD; pfam04552 316385009956 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 316385009957 30S subunit binding site; other site 316385009958 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 316385009959 active site 316385009960 phosphorylation site [posttranslational modification] 316385009961 P-loop ATPase protein family; Region: ATP_bind_2; pfam03668 316385009962 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 316385009963 dimerization domain swap beta strand [polypeptide binding]; other site 316385009964 regulatory protein interface [polypeptide binding]; other site 316385009965 active site 316385009966 regulatory phosphorylation site [posttranslational modification]; other site 316385009967 hypothetical protein; Provisional; Region: PRK10345 316385009968 monofunctional biosynthetic peptidoglycan transglycosylase; Provisional; Region: mtgA; PRK00056 316385009969 Transglycosylase; Region: Transgly; cl17702 316385009970 isoprenoid biosynthesis protein with amidotransferase-like domain; Provisional; Region: PRK11780 316385009971 Type 1 glutamine amidotransferase (GATase1)-like domain found in zebrafish ES1; Region: GATase1_ES1; cd03133 316385009972 conserved cys residue [active] 316385009973 aerobic respiration control sensor protein ArcB; Provisional; Region: PRK11091 316385009974 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 316385009975 putative active site [active] 316385009976 heme pocket [chemical binding]; other site 316385009977 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 316385009978 dimer interface [polypeptide binding]; other site 316385009979 phosphorylation site [posttranslational modification] 316385009980 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 316385009981 ATP binding site [chemical binding]; other site 316385009982 Mg2+ binding site [ion binding]; other site 316385009983 G-X-G motif; other site 316385009984 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 316385009985 active site 316385009986 phosphorylation site [posttranslational modification] 316385009987 intermolecular recognition site; other site 316385009988 dimerization interface [polypeptide binding]; other site 316385009989 Histidine Phosphotransfer domain, involved in signalling through a two part component systems in which an autophosphorylating histidine protein kinase serves as a phosphoryl donor to a response regulator protein; the response regulator protein is...; Region: HPT; cd00088 316385009990 putative binding surface; other site 316385009991 active site 316385009992 radical SAM protein, TIGR01212 family; Region: TIGR01212 316385009993 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 316385009994 FeS/SAM binding site; other site 316385009995 glutamate synthase subunit alpha; Provisional; Region: gltB; PRK11750 316385009996 Glutamine amidotransferases class-II (Gn-AT), glutamate synthase (GltS)-type. GltS is a homodimer that synthesizes L-glutamate from 2-oxoglutarate and L-glutamine, an important step in ammonia assimilation in bacteria, cyanobacteria and plants. The...; Region: GltS; cd00713 316385009997 active site 316385009998 dimer interface [polypeptide binding]; other site 316385009999 Glutamate synthase central domain; Region: Glu_syn_central; pfam04898 316385010000 Glutamate synthase (GltS) FMN-binding domain. GltS is a complex iron-sulfur flavoprotein that catalyzes the reductive synthesis of L-glutamate from 2-oxoglutarate and L-glutamine via intramolecular channelling of ammonia, a reaction in the plant, yeast...; Region: GltS_FMN; cd02808 316385010001 active site 316385010002 FMN binding site [chemical binding]; other site 316385010003 substrate binding site [chemical binding]; other site 316385010004 3Fe-4S cluster binding site [ion binding]; other site 316385010005 gltb_C. This domain is found at the C-terminus of the large subunit (gltB) of glutamate synthase (GltS). GltS encodes a complex iron-sulfur flavoprotein that catalyzes the synthesis of L-glutamate from L-glutamine and 2-oxoglutarate. It requires the...; Region: gltB_C; cd00982 316385010006 domain interface; other site 316385010007 glutamate synthase small subunit family protein, proteobacterial; Region: gltD_gamma_fam; TIGR01318 316385010008 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 316385010009 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 316385010010 Protein of unknown function (DUF1120); Region: DUF1120; pfam06551 316385010011 putative fimbrial chaperone protein; Provisional; Region: PRK09918 316385010012 Gram-negative pili assembly chaperone, N-terminal domain; Region: Pili_assembly_N; pfam00345 316385010013 putative fimbrial outer membrane usher protein; Provisional; Region: PRK15304 316385010014 PapC N-terminal domain; Region: PapC_N; pfam13954 316385010015 Type VII secretion system (T7SS), usher protein; Region: Usher; pfam00577 316385010016 PapC C-terminal domain; Region: PapC_C; pfam13953 316385010017 Transposase domain (DUF772); Region: DUF772; pfam05598 316385010018 Transposase and inactivated derivatives, IS5 family [DNA replication, recombination, and repair]; Region: COG3039 316385010019 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 316385010020 Protein of unknown function (DUF1120); Region: DUF1120; pfam06551 316385010021 uncharacterized protein, YhcH/YjgK/YiaL family; Region: TIGR00022 316385010022 N-acetylmannosamine kinase; Provisional; Region: PRK05082 316385010023 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 316385010024 nucleotide binding site [chemical binding]; other site 316385010025 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 316385010026 Putative N-acetylmannosamine-6-phosphate epimerase [Carbohydrate transport and metabolism]; Region: NanE; COG3010 316385010027 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 316385010028 putative active site cavity [active] 316385010029 putative sialic acid transporter; Provisional; Region: PRK03893 316385010030 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 316385010031 putative substrate translocation pore; other site 316385010032 N-acetylneuraminate lyase; Region: nanA; TIGR00683 316385010033 N-Acetylneuraminic acid aldolase, also called N-acetylneuraminate lyase (NAL); Region: NAL; cd00954 316385010034 inhibitor site; inhibition site 316385010035 active site 316385010036 dimer interface [polypeptide binding]; other site 316385010037 catalytic residue [active] 316385010038 transcriptional regulator NanR; Provisional; Region: PRK03837 316385010039 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 316385010040 DNA-binding site [nucleotide binding]; DNA binding site 316385010041 FCD domain; Region: FCD; pfam07729 316385010042 putative cryptic C4-dicarboxylate transporter DcuD; Provisional; Region: PRK09804 316385010043 C4-dicarboxylate anaerobic carrier; Region: DcuC; pfam03606 316385010044 ClpXP protease specificity-enhancing factor; Provisional; Region: PRK11798 316385010045 stringent starvation protein A; Provisional; Region: sspA; PRK09481 316385010046 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 316385010047 C-terminal domain interface [polypeptide binding]; other site 316385010048 putative GSH binding site (G-site) [chemical binding]; other site 316385010049 dimer interface [polypeptide binding]; other site 316385010050 C-terminal, alpha helical domain of Stringent starvation protein A; Region: GST_C_SspA; cd03186 316385010051 dimer interface [polypeptide binding]; other site 316385010052 N-terminal domain interface [polypeptide binding]; other site 316385010053 30S ribosomal protein S9; Reviewed; Region: rpsI; PRK00132 316385010054 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 316385010055 23S rRNA interface [nucleotide binding]; other site 316385010056 L3 interface [polypeptide binding]; other site 316385010057 Predicted ATPase [General function prediction only]; Region: COG1485 316385010058 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3105 316385010059 hypothetical protein; Provisional; Region: PRK11677 316385010060 serine endoprotease; Provisional; Region: PRK10139 316385010061 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 316385010062 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 316385010063 protein binding site [polypeptide binding]; other site 316385010064 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 316385010065 serine endoprotease; Provisional; Region: PRK10898 316385010066 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 316385010067 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 316385010068 malate dehydrogenase; Provisional; Region: PRK05086 316385010069 Glyoxysomal and mitochondrial malate dehydrogenases; Region: MDH_glyoxysomal_mitochondrial; cd01337 316385010070 NAD binding site [chemical binding]; other site 316385010071 dimerization interface [polypeptide binding]; other site 316385010072 Substrate binding site [chemical binding]; other site 316385010073 arginine repressor; Provisional; Region: PRK05066 316385010074 Arginine repressor, DNA binding domain; Region: Arg_repressor; pfam01316 316385010075 Arginine repressor, C-terminal domain; Region: Arg_repressor_C; pfam02863 316385010076 Protein of unknown function (DUF1471); Region: DUF1471; pfam07338 316385010077 Barstar is an intracellular inhibitor of barnase, an extracellular ribonuclease of Bacillus amyloliquefaciens. Barstar binds tightly to the barnase active site and sterically blocks it thus inhibiting its potentially lethal RNase activity inside the cell; Region: Barstar; cd05142 316385010078 RNAase interaction site [polypeptide binding]; other site 316385010079 p-hydroxybenzoic acid efflux subunit AaeA; Provisional; Region: PRK10559 316385010080 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 316385010081 HlyD family secretion protein; Region: HlyD_3; pfam13437 316385010082 efflux system membrane protein; Provisional; Region: PRK11594 316385010083 transcriptional regulator; Provisional; Region: PRK10632 316385010084 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 316385010085 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 316385010086 putative effector binding pocket; other site 316385010087 dimerization interface [polypeptide binding]; other site 316385010088 protease TldD; Provisional; Region: tldD; PRK10735 316385010089 hypothetical protein; Provisional; Region: PRK10899 316385010090 AsmA-like C-terminal region; Region: AsmA_2; pfam13502 316385010091 ribonuclease G; Provisional; Region: PRK11712 316385010092 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 316385010093 homodimer interface [polypeptide binding]; other site 316385010094 oligonucleotide binding site [chemical binding]; other site 316385010095 Maf-like protein; Region: Maf; pfam02545 316385010096 Nucleotide binding protein Maf. Maf has been implicated in inhibition of septum formation in eukaryotes, bacteria and archaea, but homologs in B.subtilis and S.cerevisiae are nonessential for cell division. Maf has been predicted to be a nucleotide- or...; Region: Maf; cd00555 316385010097 active site 316385010098 dimer interface [polypeptide binding]; other site 316385010099 rod shape-determining protein MreD; Provisional; Region: PRK11060 316385010100 rod shape-determining protein MreB; Provisional; Region: PRK13927 316385010101 MreB and similar proteins; Region: MreB_like; cd10225 316385010102 nucleotide binding site [chemical binding]; other site 316385010103 Mg binding site [ion binding]; other site 316385010104 putative protofilament interaction site [polypeptide binding]; other site 316385010105 RodZ interaction site [polypeptide binding]; other site 316385010106 regulatory protein CsrD; Provisional; Region: PRK11059 316385010107 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 316385010108 metal binding site [ion binding]; metal-binding site 316385010109 active site 316385010110 I-site; other site 316385010111 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 316385010112 Yhdh putative quinone oxidoreductases; Region: MDR_yhdh; cd08288 316385010113 putative quinone oxidoreductase, YhdH/YhfP family; Region: oxido_YhdH; TIGR02823 316385010114 NADP binding site [chemical binding]; other site 316385010115 dimer interface [polypeptide binding]; other site 316385010116 acetyl-CoA carboxylase biotin carboxyl carrier protein subunit; Validated; Region: PRK06302 316385010117 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 316385010118 carboxyltransferase (CT) interaction site; other site 316385010119 biotinylation site [posttranslational modification]; other site 316385010120 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK08591 316385010121 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 316385010122 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 316385010123 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 316385010124 hypothetical protein; Provisional; Region: PRK10633 316385010125 Na(+)/pantothenate cotransporters: PanF of Escherichia coli and related proteins; solute binding domain; Region: SLC5sbd_PanF; cd10327 316385010126 Na binding site [ion binding]; other site 316385010127 Ribosomal protein L11 methyltransferase (PrmA); Region: PrmA; pfam06325 316385010128 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 316385010129 tRNA-dihydrouridine synthase B; Provisional; Region: PRK10415 316385010130 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 316385010131 FMN binding site [chemical binding]; other site 316385010132 active site 316385010133 catalytic residues [active] 316385010134 substrate binding site [chemical binding]; other site 316385010135 Factor for inversion stimulation Fis, transcriptional activator [Transcription / DNA replication, recombination, and repair]; Region: Fis; COG2901 316385010136 global DNA-binding transcriptional dual regulator Fis; Provisional; Region: fis; PRK00430 316385010137 DNA modification methylase [DNA replication, recombination, and repair]; Region: COG0863 316385010138 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 316385010139 DNA methylase; Region: N6_N4_Mtase; pfam01555 316385010140 Protein of unknown function (DUF2556); Region: DUF2556; pfam10831 316385010141 DNA-binding transcriptional regulator EnvR; Provisional; Region: PRK09975 316385010142 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 316385010143 MAATS-type transcriptional repressor, C-terminal region; Region: TetR_C_2; pfam08361 316385010144 multidrug efflux system transporter AcrA; Provisional; Region: PRK15030 316385010145 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 316385010146 HlyD family secretion protein; Region: HlyD_3; pfam13437 316385010147 The (Largely Gram-negative Bacterial) Hydrophobe/Amphiphile Efflux-1 (HAE1) Family; Region: 2A0602; TIGR00915 316385010148 Protein export membrane protein; Region: SecD_SecF; cl14618 316385010149 Prokaryotic membrane lipoprotein lipid attachment site; Region: LPAM_1; pfam08139 316385010150 Bacterial periplasmic substrate-binding proteins; Region: PBPb; smart00062 316385010151 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 316385010152 substrate binding pocket [chemical binding]; other site 316385010153 membrane-bound complex binding site; other site 316385010154 hinge residues; other site 316385010155 ABC-type amino acid transport system, permease component [Amino acid transport and metabolism]; Region: BatB; COG4597 316385010156 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 316385010157 conserved gate region; other site 316385010158 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 316385010159 dimer interface [polypeptide binding]; other site 316385010160 conserved gate region; other site 316385010161 putative PBP binding loops; other site 316385010162 ABC-ATPase subunit interface; other site 316385010163 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 316385010164 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 316385010165 dimer interface [polypeptide binding]; other site 316385010166 conserved gate region; other site 316385010167 putative PBP binding loops; other site 316385010168 ABC-ATPase subunit interface; other site 316385010169 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 316385010170 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 316385010171 Walker A/P-loop; other site 316385010172 ATP binding site [chemical binding]; other site 316385010173 Q-loop/lid; other site 316385010174 ABC transporter signature motif; other site 316385010175 Walker B; other site 316385010176 D-loop; other site 316385010177 H-loop/switch region; other site 316385010178 Carbonic anhydrases/acetyltransferases, isoleucine patch superfamily [General function prediction only]; Region: PaaY; COG0663 316385010179 Gamma carbonic anhydrase-like: This family is composed of gamma carbonic anhydrase (CA), Ferripyochelin Binding Protein (FBP), E. coli paaY protein, and similar proteins. CAs are zinc-containing enzymes that catalyze the reversible hydration of carbon...; Region: LbH_gamma_CA_like; cd04645 316385010180 trimer interface [polypeptide binding]; other site 316385010181 putative metal binding site [ion binding]; other site 316385010182 Protein of unknown function (DUF1488); Region: DUF1488; pfam07369 316385010183 shikimate 5-dehydrogenase; Region: aroE; TIGR00507 316385010184 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 316385010185 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 316385010186 shikimate binding site; other site 316385010187 NAD(P) binding site [chemical binding]; other site 316385010188 tRNA(ANN) t(6)A37 threonylcarbamoyladenosine modification protein; Provisional; Region: PRK10634 316385010189 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 316385010190 Zn-finger domain associated with topoisomerase type I [DNA replication, recombination, and repair]; Region: TopA; COG0551 316385010191 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 316385010192 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 316385010193 hypothetical protein; Validated; Region: PRK03430 316385010194 hypothetical protein; Provisional; Region: PRK10736 316385010195 DNA protecting protein DprA; Region: dprA; TIGR00732 316385010196 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 316385010197 active site 316385010198 catalytic residues [active] 316385010199 metal binding site [ion binding]; metal-binding site 316385010200 methionyl-tRNA formyltransferase; Reviewed; Region: fmt; PRK00005 316385010201 Methionyl-tRNA formyltransferase, N-terminal hydrolase domain; Region: FMT_core_Met-tRNA-FMT_N; cd08646 316385010202 putative active site [active] 316385010203 substrate binding site [chemical binding]; other site 316385010204 putative cosubstrate binding site; other site 316385010205 catalytic site [active] 316385010206 C-terminal domain of Formyltransferase and other enzymes; Region: Met_tRNA_FMT_C; cd08704 316385010207 substrate binding site [chemical binding]; other site 316385010208 N-terminal RNA binding domain of the methyltransferase Sun. The rRNA-specific 5-methylcytidine transferase Sun, also known as RrmB or Fmu shares the RNA-binding non-catalytic domain with the transcription termination factor NusB. The precise biological...; Region: Methyltransferase_Sun; cd00620 316385010209 putative RNA binding site [nucleotide binding]; other site 316385010210 16S rRNA methyltransferase B; Provisional; Region: PRK10901 316385010211 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 316385010212 S-adenosylmethionine binding site [chemical binding]; other site 316385010213 large-conductance mechanosensitive channel; Reviewed; Region: mscL; PRK00567 316385010214 Large-conductance mechanosensitive channel, MscL; Region: MscL; pfam01741 316385010215 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3036 316385010216 zinc-responsive transcriptional regulator; Provisional; Region: zntR; PRK09514 316385010217 Helix-Turn-Helix DNA binding domain of Heavy Metal Resistance transcription regulators; Region: HTH_HMRTR; cd04770 316385010218 DNA binding residues [nucleotide binding] 316385010219 dimer interface [polypeptide binding]; other site 316385010220 metal binding site [ion binding]; metal-binding site 316385010221 hypothetical protein; Provisional; Region: PRK10203 316385010222 50S ribosomal protein L17; Validated; Region: rplQ; PRK05591 316385010223 DNA-directed RNA polymerase subunit alpha; Provisional; Region: PRK05182 316385010224 N-terminal domain of the Alpha subunit of Bacterial RNA polymerase; Region: RNAP_alpha_NTD; cd06928 316385010225 alphaNTD homodimer interface [polypeptide binding]; other site 316385010226 alphaNTD - beta interaction site [polypeptide binding]; other site 316385010227 alphaNTD - beta' interaction site [polypeptide binding]; other site 316385010228 Bacterial RNA polymerase, alpha chain C terminal domain; Region: RNA_pol_A_CTD; pfam03118 316385010229 30S ribosomal protein S4; Validated; Region: rpsD; PRK05327 316385010230 Ribosomal protein S4/S9 N-terminal domain; Region: Ribosomal_S4; pfam00163 316385010231 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 316385010232 RNA binding surface [nucleotide binding]; other site 316385010233 30S ribosomal protein S11; Validated; Region: PRK05309 316385010234 30S ribosomal protein S13; Validated; Region: rpsM; PRK05179 316385010235 30S ribosomal protein S13; Region: bact_S13; TIGR03631 316385010236 Ribosomal protein L36; Region: Ribosomal_L36; pfam00444 316385010237 preprotein translocase subunit SecY; Reviewed; Region: secY; PRK09204 316385010238 SecY translocase; Region: SecY; pfam00344 316385010239 50S ribosomal protein L15; Reviewed; Region: rplO; PRK05592 316385010240 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 316385010241 23S rRNA binding site [nucleotide binding]; other site 316385010242 30S ribosomal protein S5; Validated; Region: rpsE; PRK00550 316385010243 Ribosomal protein S5, N-terminal domain; Region: Ribosomal_S5; pfam00333 316385010244 Ribosomal protein S5, C-terminal domain; Region: Ribosomal_S5_C; pfam03719 316385010245 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 316385010246 23S rRNA interface [nucleotide binding]; other site 316385010247 5S rRNA interface [nucleotide binding]; other site 316385010248 L27 interface [polypeptide binding]; other site 316385010249 L5 interface [polypeptide binding]; other site 316385010250 50S ribosomal protein L6; Validated; Region: rplF; PRK05498 316385010251 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 316385010252 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 316385010253 30S ribosomal protein S8; Validated; Region: rpsH; PRK00136 316385010254 30S ribosomal protein S14; Reviewed; Region: rpsN; PRK08881 316385010255 50S ribosomal protein L5; Validated; Region: rplE; PRK00010 316385010256 Ribosomal protein L5; Region: Ribosomal_L5; pfam00281 316385010257 ribosomal L5P family C-terminus; Region: Ribosomal_L5_C; pfam00673 316385010258 50S ribosomal protein L24; Reviewed; Region: rplX; PRK00004 316385010259 KOW motif of Ribosomal Protein L26; Region: KOW_RPL26; cd06089 316385010260 RNA binding site [nucleotide binding]; other site 316385010261 50S ribosomal protein L14; Validated; Region: rplN; PRK05483 316385010262 30S ribosomal protein S17; Reviewed; Region: rpsQ; PRK05610 316385010263 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 316385010264 23S rRNA interface [nucleotide binding]; other site 316385010265 putative translocon interaction site; other site 316385010266 signal recognition particle (SRP54) interaction site; other site 316385010267 L23 interface [polypeptide binding]; other site 316385010268 trigger factor interaction site; other site 316385010269 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 316385010270 23S rRNA interface [nucleotide binding]; other site 316385010271 5S rRNA interface [nucleotide binding]; other site 316385010272 putative antibiotic binding site [chemical binding]; other site 316385010273 L25 interface [polypeptide binding]; other site 316385010274 L27 interface [polypeptide binding]; other site 316385010275 30S ribosomal protein S3; Reviewed; Region: rpsC; PRK00310 316385010276 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 316385010277 G-X-X-G motif; other site 316385010278 Ribosomal protein S3, C-terminal domain; Region: Ribosomal_S3_C; pfam00189 316385010279 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 316385010280 protein-rRNA interface [nucleotide binding]; other site 316385010281 putative translocon binding site; other site 316385010282 30S ribosomal protein S19; Reviewed; Region: rpsS; PRK00357 316385010283 50S ribosomal protein L2; Validated; Region: rplB; PRK09374 316385010284 Ribosomal Proteins L2, RNA binding domain; Region: Ribosomal_L2; pfam00181 316385010285 Ribosomal Proteins L2, C-terminal domain; Region: Ribosomal_L2_C; pfam03947 316385010286 50S ribosomal protein L23; Reviewed; Region: rplW; PRK05738 316385010287 50S ribosomal protein L4; Provisional; Region: rplD; PRK05319 316385010288 50S ribosomal protein L3, bacterial; Region: L3_bact; TIGR03625 316385010289 30S ribosomal protein S10; Reviewed; Region: rpsJ; PRK00596 316385010290 protein secretion protein GspB; Provisional; Region: PRK09697 316385010291 AAA domain; Region: AAA_22; pfam13401 316385010292 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 316385010293 Type II secretory pathway, component PulC [Intracellular trafficking and secretion]; Region: PulC; COG3031 316385010294 Type IV pilus biogenesis; Region: Pilus_PilP; pfam11356 316385010295 type II secretion system protein D; Region: type_II_gspD; TIGR02517 316385010296 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 316385010297 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 316385010298 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 316385010299 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 316385010300 Type II secretory pathway, ATPase PulE/Tfp pilus assembly pathway, ATPase PilB [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulE; COG2804 316385010301 PulE/GspE The type II secretory pathway is the main terminal branch of the general secretory pathway (GSP). It is responsible for the export the majority of Gram-negative bacterial exoenzymes and toxins. PulE is a cytoplasmic protein of the GSP, which...; Region: PulE-GspE; cd01129 316385010302 Walker A motif; other site 316385010303 ATP binding site [chemical binding]; other site 316385010304 Walker B motif; other site 316385010305 type II secretion system protein F; Region: GspF; TIGR02120 316385010306 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 316385010307 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 316385010308 prepilin-type N-terminal cleavage/methylation domain; Region: IV_pilin_GFxxxE; TIGR02532 316385010309 type II secretion system protein G; Region: typeII_sec_gspG; TIGR01710 316385010310 Type II secretion system (T2SS), protein G; Region: T2SG; pfam08334 316385010311 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; cl06830 316385010312 type II secretion system protein I; Region: gspI; TIGR01707 316385010313 Type II secretion system (T2SS), protein I; Region: T2SI; pfam02501 316385010314 Type II secretory pathway, component PulJ [Intracellular trafficking and secretion]; Region: PulJ; COG4795 316385010315 prepilin-type N-terminal cleavage/methylation domain; Region: IV_pilin_GFxxxE; TIGR02532 316385010316 Type II secretion system (T2SS), protein J; Region: T2SJ; pfam11612 316385010317 Type II secretory pathway, component PulK [Intracellular trafficking and secretion]; Region: PulK; COG3156 316385010318 Type II secretory pathway, component PulL [Intracellular trafficking and secretion]; Region: PulL; COG3297 316385010319 Type II secretion system (T2SS), protein L; Region: T2SL; pfam05134 316385010320 GspL periplasmic domain; Region: GspL_C; pfam12693 316385010321 Type II secretion system (T2SS), protein M; Region: T2SM; pfam04612 316385010322 Type II secretory pathway, prepilin signal peptidase PulO and related peptidases [Cell motility and secretion / Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: PulO; COG1989 316385010323 Type IV leader peptidase family; Region: Peptidase_A24; pfam01478 316385010324 Bacterioferritin (cytochrome b1) [Inorganic ion transport and metabolism]; Region: Bfr; COG2193 316385010325 Bacterioferritin, ferritin-like diiron-binding domain; Region: Bacterioferritin; cd00907 316385010326 heme binding site [chemical binding]; other site 316385010327 ferroxidase pore; other site 316385010328 ferroxidase diiron center [ion binding]; other site 316385010329 bacterioferritin-associated ferredoxin; Provisional; Region: PRK10509 316385010330 elongation factor Tu; Reviewed; Region: PRK00049 316385010331 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 316385010332 G1 box; other site 316385010333 GEF interaction site [polypeptide binding]; other site 316385010334 GTP/Mg2+ binding site [chemical binding]; other site 316385010335 Switch I region; other site 316385010336 G2 box; other site 316385010337 G3 box; other site 316385010338 Switch II region; other site 316385010339 G4 box; other site 316385010340 G5 box; other site 316385010341 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 316385010342 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 316385010343 Antibiotic Binding Site [chemical binding]; other site 316385010344 elongation factor G; Reviewed; Region: PRK00007 316385010345 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 316385010346 G1 box; other site 316385010347 putative GEF interaction site [polypeptide binding]; other site 316385010348 GTP/Mg2+ binding site [chemical binding]; other site 316385010349 Switch I region; other site 316385010350 G2 box; other site 316385010351 G3 box; other site 316385010352 Switch II region; other site 316385010353 G4 box; other site 316385010354 G5 box; other site 316385010355 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 316385010356 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 316385010357 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 316385010358 30S ribosomal protein S7; Validated; Region: PRK05302 316385010359 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 316385010360 S17 interaction site [polypeptide binding]; other site 316385010361 S8 interaction site; other site 316385010362 16S rRNA interaction site [nucleotide binding]; other site 316385010363 streptomycin interaction site [chemical binding]; other site 316385010364 23S rRNA interaction site [nucleotide binding]; other site 316385010365 aminoacyl-tRNA interaction site (A-site) [nucleotide binding]; other site 316385010366 sulfur transfer complex subunit TusB; Provisional; Region: PRK13510 316385010367 sulfur relay protein TusC; Validated; Region: PRK00211 316385010368 sulfur transfer complex subunit TusD; Validated; Region: PRK00207 316385010369 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2964 316385010370 YheO-like PAS domain; Region: PAS_6; pfam08348 316385010371 HTH domain; Region: HTH_22; pfam13309 316385010372 FKBP-type peptidyl-prolyl cis-trans isomerase; Provisional; Region: PRK10902 316385010373 Domain amino terminal to FKBP-type peptidyl-prolyl isomerase; Region: FKBP_N; pfam01346 316385010374 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 316385010375 phi X174 lysis protein; Provisional; Region: PRK02793 316385010376 FKBP-type peptidyl-prolyl cis-trans isomerase; Provisional; Region: PRK15095 316385010377 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 316385010378 Predicted nucleic-acid-binding protein containing a Zn-ribbon domain [General function prediction only]; Region: COG3529 316385010379 glutathione-regulated potassium-efflux system protein KefB; Provisional; Region: PRK03659 316385010380 transporter, monovalent cation:proton antiporter-2 (CPA2) family; Region: 2a37; TIGR00932 316385010381 TrkA-N domain; Region: TrkA_N; pfam02254 316385010382 glutathione-regulated potassium-efflux system ancillary protein KefG; Provisional; Region: PRK04930 316385010383 putative ABC transporter ATP-binding protein; Provisional; Region: PRK10636 316385010384 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 316385010385 Walker A/P-loop; other site 316385010386 ATP binding site [chemical binding]; other site 316385010387 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 316385010388 ABC transporter signature motif; other site 316385010389 Walker B; other site 316385010390 D-loop; other site 316385010391 ABC transporter; Region: ABC_tran_2; pfam12848 316385010392 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 316385010393 putative hydrolase; Provisional; Region: PRK10985 316385010394 hypothetical protein; Provisional; Region: PRK04966 316385010395 Phosphoribulokinase-like (PRK-like) is a family of proteins similar to phosphoribulokinase (PRK), the enzyme involved in the Benson-Calvin cycle in chloroplasts or photosynthetic prokaryotes. PRK catalyzes the phosphorylation of D-ribulose 5-phosphate to...; Region: PRK_like; cd02029 316385010396 active site 316385010397 hypothetical protein; Provisional; Region: PRK10738 316385010398 DNA-binding transcriptional dual regulator Crp; Provisional; Region: PRK11753 316385010399 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 316385010400 ligand binding site [chemical binding]; other site 316385010401 flexible hinge region; other site 316385010402 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 316385010403 putative switch regulator; other site 316385010404 non-specific DNA interactions [nucleotide binding]; other site 316385010405 DNA binding site [nucleotide binding] 316385010406 sequence specific DNA binding site [nucleotide binding]; other site 316385010407 putative cAMP binding site [chemical binding]; other site 316385010408 integral membrane protein, YccS/YhfK family; Region: YCCS_YHJK; TIGR01667 316385010409 FUSC-like inner membrane protein yccS; Region: FUSC-like; pfam12805 316385010410 Fusaric acid resistance protein-like; Region: FUSC_2; pfam13515 316385010411 bifunctional N-succinyldiaminopimelate-aminotransferase/acetylornithine transaminase protein; Reviewed; Region: argD; PRK05093 316385010412 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 316385010413 inhibitor-cofactor binding pocket; inhibition site 316385010414 pyridoxal 5'-phosphate binding site [chemical binding]; other site 316385010415 catalytic residue [active] 316385010416 para-aminobenzoate synthase component II; Provisional; Region: PRK08857 316385010417 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 316385010418 glutamine binding [chemical binding]; other site 316385010419 catalytic triad [active] 316385010420 Protein involved in cell division [Cell division and chromosome partitioning]; Region: Fic; COG2184 316385010421 cell filamentation protein Fic; Provisional; Region: PRK10347 316385010422 hypothetical protein; Provisional; Region: PRK10204 316385010423 peptidyl-prolyl cis-trans isomerase A (rotamase A); Provisional; Region: PRK10903 316385010424 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 316385010425 substrate binding site [chemical binding]; other site 316385010426 putative transporter; Provisional; Region: PRK03699 316385010427 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 316385010428 putative substrate translocation pore; other site 316385010429 nitrite reductase subunit NirD; Provisional; Region: PRK14989 316385010430 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 316385010431 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; pfam04324 316385010432 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; pfam04324 316385010433 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 316385010434 Assimilatory nitrite reductase (NirD) family, Rieske domain; Assimilatory nitrate and nitrite reductases convert nitrate through nitrite to ammonium. Members include bacterial and fungal proteins. The bacterial NirD contains a single Rieske domain while...; Region: Rieske_NirD; cd03529 316385010435 nitrite transporter NirC; Provisional; Region: PRK11562 316385010436 siroheme synthase; Provisional; Region: cysG; PRK10637 316385010437 Putative NAD(P)-binding; Region: NAD_binding_7; pfam13241 316385010438 Sirohaem synthase dimerisation region; Region: CysG_dimeriser; pfam10414 316385010439 Uroporphyrin-III C-methyltransferase (S-Adenosyl-L-methionine:uroporphyrinogen III methyltransferase, SUMT); Region: SUMT; cd11642 316385010440 active site 316385010441 SAM binding site [chemical binding]; other site 316385010442 homodimer interface [polypeptide binding]; other site 316385010443 Protein of unknown function (DUF4223); Region: DUF4223; pfam13978 316385010444 putative fructoselysine transporter; Provisional; Region: frlA; PRK11357 316385010445 hypothetical protein; Provisional; Region: PHA02764 316385010446 fructoselysine-6-P-deglycase; Provisional; Region: frlB; PRK11382 316385010447 SIS domain. SIS (Sugar ISomerase) domains are found in many phosphosugar isomerases and phosphosugar binding proteins. SIS domains are also found in proteins that regulate the expression of genes involved in synthesis of phosphosugars; Region: SIS; cl00389 316385010448 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 316385010449 dimer interface [polypeptide binding]; other site 316385010450 active site 316385010451 fructoselysine 3-epimerase; Provisional; Region: PRK09856 316385010452 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 316385010453 AP (apurinic/apyrimidinic) site pocket; other site 316385010454 DNA interaction; other site 316385010455 Metal-binding active site; metal-binding site 316385010456 Fructoselysine kinase-like. Fructoselysine is a fructoseamine formed by glycation, a non-enzymatic reaction of glucose with a primary amine followed by an Amadori rearrangement, resulting in a protein that is modified at the amino terminus and at the...; Region: Fructoselysine_kinase_like; cd01940 316385010457 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 316385010458 substrate binding site [chemical binding]; other site 316385010459 ATP binding site [chemical binding]; other site 316385010460 DNA-binding transcriptional regulator FrlR; Provisional; Region: PRK11402 316385010461 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 316385010462 DNA-binding site [nucleotide binding]; DNA binding site 316385010463 UTRA domain; Region: UTRA; pfam07702 316385010464 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 316385010465 DNA topoisomerase III, bacteria and conjugative plasmid; Region: topB; TIGR01056 316385010466 Protein of unknown function; Region: YhfT; pfam10797 316385010467 Protein of unknown function DUF2620; Region: DUF2620; pfam10941 316385010468 Predicted metal-dependent hydrolases with the TIM-barrel fold [General function prediction only]; Region: COG1099 316385010469 Phosphotriesterase (PTE) catalyzes the hydrolysis of organophosphate nerve agents, including the chemical warfare agents VX, soman, and sarin as well as the insecticide paraoxon. PTE exists as a homodimer with one active site per monomer. The active site...; Region: PTE; cd00530 316385010470 active site 316385010471 substrate binding pocket [chemical binding]; other site 316385010472 homodimer interaction site [polypeptide binding]; other site 316385010473 putative mutase; Provisional; Region: PRK12383 316385010474 Phosphopentomutase [Carbohydrate transport and metabolism]; Region: DeoB; COG1015 316385010475 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme yhfX; Region: PLPDE_III_yhfX_like; cd06811 316385010476 dimer interface [polypeptide binding]; other site 316385010477 Predicted amino acid racemase [Amino acid transport and metabolism]; Region: COG3457 316385010478 active site 316385010479 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 316385010480 substrate binding site [chemical binding]; other site 316385010481 catalytic residue [active] 316385010482 PRD domain protein EF_0829/AHA_3910; Region: EF_0829; TIGR03582 316385010483 tryptophanyl-tRNA synthetase II; Reviewed; Region: PRK12282 316385010484 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 316385010485 active site 316385010486 HIGH motif; other site 316385010487 dimer interface [polypeptide binding]; other site 316385010488 KMSKS motif; other site 316385010489 phosphoglycolate phosphatase; Provisional; Region: PRK13222 316385010490 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 316385010491 motif II; other site 316385010492 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 316385010493 ribulose-phosphate 3-epimerase; Region: rpe; TIGR01163 316385010494 substrate binding site [chemical binding]; other site 316385010495 hexamer interface [polypeptide binding]; other site 316385010496 metal binding site [ion binding]; metal-binding site 316385010497 DNA adenine methylase; Provisional; Region: PRK10904 316385010498 Uncharacterized protein conserved in bacteria [Function unknown]; Region: DamX; COG3266 316385010499 cell division protein DamX; Validated; Region: PRK10905 316385010500 Dehydroquinate synthase (DHQS) catalyzes the conversion of DAHP to DHQ in shikimate pathway for aromatic compounds synthesis; Region: DHQS; cd08195 316385010501 active site 316385010502 dimer interface [polypeptide binding]; other site 316385010503 metal binding site [ion binding]; metal-binding site 316385010504 shikimate kinase; Reviewed; Region: aroK; PRK00131 316385010505 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 316385010506 ADP binding site [chemical binding]; other site 316385010507 magnesium binding site [ion binding]; other site 316385010508 putative shikimate binding site; other site 316385010509 outer membrane porin HofQ; Provisional; Region: hofQ; PRK10560 316385010510 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 316385010511 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 316385010512 Protein of unknown function (DUF2531); Region: DUF2531; pfam10748 316385010513 Tfp pilus assembly protein PilN [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilN; COG3166 316385010514 Fimbrial assembly protein (PilN); Region: PilN; pfam05137 316385010515 Tfp pilus assembly protein, ATPase PilM [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilM; COG4972 316385010516 penicillin-binding protein 1a; Provisional; Region: mrcA; PRK11636 316385010517 Transglycosylase; Region: Transgly; pfam00912 316385010518 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 316385010519 adenosine nucleotide hydrolase NudE; Provisional; Region: nudE; PRK11762 316385010520 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 316385010521 ADP-ribose binding site [chemical binding]; other site 316385010522 dimer interface [polypeptide binding]; other site 316385010523 active site 316385010524 nudix motif; other site 316385010525 metal binding site [ion binding]; metal-binding site 316385010526 Intracellular growth attenuator protein IgaA; Region: IgaA; pfam07095 316385010527 haloacid dehalogenase superfamily, subfamily IA, variant 3 with third motif having DD or ED; Region: HAD-SF-IA-v3; TIGR01509 316385010528 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 316385010529 motif II; other site 316385010530 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 316385010531 RNA binding surface [nucleotide binding]; other site 316385010532 Hsp33-like chaperonin; Reviewed; Region: hslO; PRK00114 316385010533 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 316385010534 dimerization interface [polypeptide binding]; other site 316385010535 domain crossover interface; other site 316385010536 redox-dependent activation switch; other site 316385010537 Domain of unknown function (DUF4153); Region: DUF4153; pfam13687 316385010538 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 316385010539 Phosphoenolpyruvate carboxykinase; Region: PEPCK_ATP; pfam01293 316385010540 active site 316385010541 substrate-binding site [chemical binding]; other site 316385010542 metal-binding site [ion binding] 316385010543 ATP binding site [chemical binding]; other site 316385010544 osmolarity sensor protein; Provisional; Region: envZ; PRK09467 316385010545 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 316385010546 dimerization interface [polypeptide binding]; other site 316385010547 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 316385010548 dimer interface [polypeptide binding]; other site 316385010549 phosphorylation site [posttranslational modification] 316385010550 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 316385010551 ATP binding site [chemical binding]; other site 316385010552 G-X-G motif; other site 316385010553 osmolarity response regulator; Provisional; Region: ompR; PRK09468 316385010554 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 316385010555 active site 316385010556 phosphorylation site [posttranslational modification] 316385010557 intermolecular recognition site; other site 316385010558 dimerization interface [polypeptide binding]; other site 316385010559 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 316385010560 DNA binding site [nucleotide binding] 316385010561 transcription elongation factor GreB; Reviewed; Region: greB; PRK01885 316385010562 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 316385010563 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 316385010564 Transcriptional accessory protein [Transcription]; Region: Tex; COG2183 316385010565 Tex-like protein N-terminal domain; Region: Tex_N; pfam09371 316385010566 Likely ribonuclease with RNase H fold; Region: YqgFc; smart00732 316385010567 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 316385010568 RNA binding site [nucleotide binding]; other site 316385010569 ferrous iron transport protein A; Reviewed; Region: feoA; PRK09555 316385010570 ferrous iron transport protein B; Reviewed; Region: feoB; PRK09554 316385010571 Ferrous iron transport protein B (FeoB) family; Region: FeoB; cd01879 316385010572 G1 box; other site 316385010573 GTP/Mg2+ binding site [chemical binding]; other site 316385010574 Switch I region; other site 316385010575 G2 box; other site 316385010576 G3 box; other site 316385010577 Switch II region; other site 316385010578 G4 box; other site 316385010579 G5 box; other site 316385010580 Nucleoside recognition; Region: Gate; pfam07670 316385010581 Ferrous iron transport protein B C terminus; Region: FeoB_C; pfam07664 316385010582 Nucleoside recognition; Region: Gate; pfam07670 316385010583 ferrous iron transport protein FeoC; Provisional; Region: PRK15431 316385010584 carboxylesterase BioH; Provisional; Region: PRK10349 316385010585 homoserine O-acetyltransferase; Provisional; Region: metX; cl17114 316385010586 DNA utilization protein GntX; Provisional; Region: PRK11595 316385010587 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 316385010588 active site 316385010589 Fe/S biogenesis protein NfuA; Provisional; Region: PRK11190 316385010590 Fe-S cluster assembly scaffold protein [Posttranslational modification, protein turnover, chaperones]; Region: sufA; COG0316 316385010591 Thioredoxin-like proteins and domains [Posttranslational modification, protein turnover, chaperones]; Region: COG0694 316385010592 high-affinity gluconate transporter; Provisional; Region: PRK14984 316385010593 gluconate transporter; Region: gntP; TIGR00791 316385010594 4-alpha-glucanotransferase; Provisional; Region: malQ; PRK11052 316385010595 4-alpha-glucanotransferase; Region: malQ; TIGR00217 316385010596 maltodextrin phosphorylase; Provisional; Region: PRK14985 316385010597 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 316385010598 homodimer interface [polypeptide binding]; other site 316385010599 active site pocket [active] 316385010600 transcriptional regulator MalT; Provisional; Region: PRK04841 316385010601 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 316385010602 DNA binding residues [nucleotide binding] 316385010603 dimerization interface [polypeptide binding]; other site 316385010604 RNA 3'-terminal-phosphate cyclase; Provisional; Region: PRK04204 316385010605 RNA 3' phosphate cyclase domain - RNA phosphate cyclases are enzymes that catalyze the ATP-dependent conversion of 3'-phosphate at the end of RNA into 2', 3'-cyclic phosphodiester bond. The enzymes are conserved in eucaryotes; Region: RNA_Cyclase; cd00295 316385010606 putative active site [active] 316385010607 adenylation catalytic residue [active] 316385010608 Uncharacterized protein family UPF0027; Region: UPF0027; pfam01139 316385010609 hypothetical protein; Reviewed; Region: PRK09588 316385010610 Sigma54-dependent transcription regulator containing an AAA-type ATPase domain and a DNA-binding domain [Transcription / Signal transduction mechanisms]; Region: RtcR; COG4650 316385010611 Regulator of RNA terminal phosphate cyclase; Region: RtcR; pfam06956 316385010612 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 316385010613 Walker A motif; other site 316385010614 ATP binding site [chemical binding]; other site 316385010615 Walker B motif; other site 316385010616 arginine finger; other site 316385010617 DNA-binding transcriptional repressor GlpR; Provisional; Region: PRK10906 316385010618 DeoR-like helix-turn-helix domain; Region: HTH_DeoR; pfam08220 316385010619 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 316385010620 intramembrane serine protease GlpG; Provisional; Region: PRK10907 316385010621 Protein of unknown function (DUF3582); Region: DUF3582; pfam12122 316385010622 Membrane associated serine protease [Amino acid transport and metabolism]; Region: COG0705 316385010623 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 316385010624 active site residue [active] 316385010625 glycerol-3-phosphate dehydrogenase; Reviewed; Region: glpD; PRK12266 316385010626 glycogen phosphorylase; Provisional; Region: PRK14986 316385010627 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 316385010628 homodimer interface [polypeptide binding]; other site 316385010629 active site pocket [active] 316385010630 glycogen synthase; Provisional; Region: glgA; PRK00654 316385010631 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 316385010632 ADP-binding pocket [chemical binding]; other site 316385010633 homodimer interface [polypeptide binding]; other site 316385010634 glucose-1-phosphate adenylyltransferase; Provisional; Region: glgC; PRK00725 316385010635 ADP-glucose pyrophosphorylase is involved in the biosynthesis of glycogen or starch; Region: ADP_Glucose_PP; cd02508 316385010636 ligand binding site; other site 316385010637 oligomer interface; other site 316385010638 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 316385010639 sulfate 1 binding site; other site 316385010640 glycogen debranching enzyme; Provisional; Region: PRK03705 316385010641 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 316385010642 Alpha amylase catalytic domain found in glycogen debranching enzymes; Region: AmyAc_Glg_debranch; cd11326 316385010643 active site 316385010644 catalytic site [active] 316385010645 glycogen branching enzyme; Provisional; Region: PRK05402 316385010646 N-terminal Early set domain associated with the catalytic domain of prokaryotic glycogen branching enzyme; Region: E_set_GBE_prok_N; cd02855 316385010647 Alpha amylase catalytic domain found in the Glycogen branching enzyme (also called 1,4-alpha-glucan branching enzyme); Region: AmyAc_Glg_BE; cd11322 316385010648 active site 316385010649 catalytic site [active] 316385010650 Alpha amylase, C-terminal all-beta domain; Region: Alpha-amylase_C; pfam02806 316385010651 aspartate-semialdehyde dehydrogenase; Reviewed; Region: PRK06598 316385010652 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 316385010653 putative antibiotic transporter; Provisional; Region: PRK10739 316385010654 low affinity gluconate transporter; Provisional; Region: PRK10472 316385010655 gluconate transporter; Region: gntP; TIGR00791 316385010656 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 316385010657 ATP-binding site [chemical binding]; other site 316385010658 Gluconate-6-phosphate binding site [chemical binding]; other site 316385010659 Shikimate kinase; Region: SKI; pfam01202 316385010660 gluconate operon transcriptional regulator; Provisional; Region: PRK14987 316385010661 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 316385010662 DNA binding site [nucleotide binding] 316385010663 domain linker motif; other site 316385010664 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 316385010665 putative ligand binding site [chemical binding]; other site 316385010666 putative dimerization interface [polypeptide binding]; other site 316385010667 Pirin-related protein [General function prediction only]; Region: COG1741 316385010668 Pirin; Region: Pirin; pfam02678 316385010669 putative oxidoreductase; Provisional; Region: PRK10206 316385010670 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 316385010671 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 316385010672 putative acetyltransferase YhhY; Provisional; Region: PRK10140 316385010673 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 316385010674 Coenzyme A binding pocket [chemical binding]; other site 316385010675 Type VI protein secretion system component Hcp (secreted cytotoxin) [Intracellular trafficking, secretion, and vesicular transport]; Region: Hcp; COG3157 316385010676 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3677 316385010677 InsA N-terminal domain; Region: Zn_Tnp_IS1; pfam03811 316385010678 InsA C-terminal domain; Region: HTH_Tnp_IS1; pfam12759 316385010679 IS1 transposase; Region: DDE_Tnp_IS1; pfam03400 316385010680 gamma-glutamyltranspeptidase; Reviewed; Region: ggt; PRK09615 316385010681 gamma-glutamyltranspeptidase; Region: g_glut_trans; TIGR00066 316385010682 hypothetical protein; Provisional; Region: PRK10350 316385010683 cytoplasmic glycerophosphodiester phosphodiesterase; Provisional; Region: ugpQ; PRK09454 316385010684 Glycerophosphodiester phosphodiesterase domain in Escherichia coli cytosolic glycerophosphodiester phosphodiesterase UgpQ and similar proteins; Region: GDPD_EcUgpQ_like; cd08562 316385010685 putative active site [active] 316385010686 catalytic site [active] 316385010687 putative metal binding site [ion binding]; other site 316385010688 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 316385010689 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 316385010690 Walker A/P-loop; other site 316385010691 ATP binding site [chemical binding]; other site 316385010692 Q-loop/lid; other site 316385010693 ABC transporter signature motif; other site 316385010694 Walker B; other site 316385010695 D-loop; other site 316385010696 H-loop/switch region; other site 316385010697 TOBE domain; Region: TOBE_2; pfam08402 316385010698 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 316385010699 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 316385010700 dimer interface [polypeptide binding]; other site 316385010701 conserved gate region; other site 316385010702 putative PBP binding loops; other site 316385010703 ABC-ATPase subunit interface; other site 316385010704 ABC-type polysaccharide transport system, permease component [Carbohydrate transport and metabolism]; Region: LplB; COG4209 316385010705 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 316385010706 dimer interface [polypeptide binding]; other site 316385010707 conserved gate region; other site 316385010708 putative PBP binding loops; other site 316385010709 ABC-ATPase subunit interface; other site 316385010710 glycerol-3-phosphate transporter periplasmic binding protein; Provisional; Region: PRK10974 316385010711 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 316385010712 leucine/isoleucine/valine transporter ATP-binding subunit; Provisional; Region: livF; PRK11614 316385010713 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 316385010714 Walker A/P-loop; other site 316385010715 ATP binding site [chemical binding]; other site 316385010716 Q-loop/lid; other site 316385010717 ABC transporter signature motif; other site 316385010718 Walker B; other site 316385010719 D-loop; other site 316385010720 H-loop/switch region; other site 316385010721 leucine/isoleucine/valine transporter ATP-binding subunit; Provisional; Region: livG; PRK11300 316385010722 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 316385010723 Walker A/P-loop; other site 316385010724 ATP binding site [chemical binding]; other site 316385010725 Q-loop/lid; other site 316385010726 ABC transporter signature motif; other site 316385010727 Walker B; other site 316385010728 D-loop; other site 316385010729 H-loop/switch region; other site 316385010730 leucine/isoleucine/valine transporter permease subunit; Provisional; Region: livM; PRK11301 316385010731 Domain of unknown function (DUF3382); Region: DUF3382; pfam11862 316385010732 Transmembrane subunit (TM) of Escherichia coli LivM and related proteins. LivM is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivM_like; cd06581 316385010733 TM-ABC transporter signature motif; other site 316385010734 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 316385010735 Transmembrane subunit (TM) of Escherichia coli LivH and related proteins. LivH is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivH_like; cd06582 316385010736 TM-ABC transporter signature motif; other site 316385010737 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 316385010738 Type I periplasmic ligand-binding domain of ABC (Atpase Binding Cassette)-type active transport systems that are involved in the transport of all three branched chain aliphatic amino acids (leucine, isoleucine and valine); Region: PBP1_ABC_LIVBP_like; cd06342 316385010739 dimerization interface [polypeptide binding]; other site 316385010740 ligand binding site [chemical binding]; other site 316385010741 Acetyltransferase (GNAT) domain; Region: DUF3749; pfam12568 316385010742 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 316385010743 Type I periplasmic ligand-binding domain of ABC (Atpase Binding Cassette)-type active transport systems that are involved in the transport of all three branched chain aliphatic amino acids (leucine, isoleucine and valine); Region: PBP1_ABC_LIVBP_like; cd06342 316385010744 dimerization interface [polypeptide binding]; other site 316385010745 ligand binding site [chemical binding]; other site 316385010746 RNA polymerase factor sigma-32; Reviewed; Region: PRK06596 316385010747 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 316385010748 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 316385010749 DNA binding residues [nucleotide binding] 316385010750 cell division ABC transporter subunit FtsX; Provisional; Region: ftsX; PRK11026 316385010751 putative protein insertion permease FtsX; Region: ftsX; TIGR00439 316385010752 cell division protein FtsE; Provisional; Region: PRK10908 316385010753 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 316385010754 Walker A/P-loop; other site 316385010755 ATP binding site [chemical binding]; other site 316385010756 Q-loop/lid; other site 316385010757 ABC transporter signature motif; other site 316385010758 Walker B; other site 316385010759 D-loop; other site 316385010760 H-loop/switch region; other site 316385010761 signal recognition particle-docking protein FtsY; Provisional; Region: PRK10416 316385010762 SRP54-type protein, helical bundle domain; Region: SRP54_N; pfam02881 316385010763 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 316385010764 P loop; other site 316385010765 GTP binding site [chemical binding]; other site 316385010766 N6-adenine-specific methylase [DNA replication, recombination, and repair]; Region: COG0742 316385010767 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 316385010768 S-adenosylmethionine binding site [chemical binding]; other site 316385010769 hypothetical protein; Provisional; Region: PRK10910 316385010770 Protein of unknown function (DUF2500); Region: DUF2500; pfam10694 316385010771 Predicted membrane protein [Function unknown]; Region: COG3714 316385010772 zinc/cadmium/mercury/lead-transporting ATPase; Provisional; Region: zntA; PRK11033 316385010773 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 316385010774 metal-binding site [ion binding] 316385010775 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 316385010776 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 316385010777 CPxP motif; other site 316385010778 hypothetical protein; Provisional; Region: PRK11212 316385010779 hypothetical protein; Provisional; Region: PRK11615 316385010780 major facilitator superfamily transporter; Provisional; Region: PRK05122 316385010781 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 316385010782 putative substrate translocation pore; other site 316385010783 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; cl00465 316385010784 Domain of unknown function DUF20; Region: UPF0118; pfam01594 316385010785 holo-(acyl carrier protein) synthase 2; Provisional; Region: PRK10351 316385010786 4'-phosphopantetheinyl transferase superfamily; Region: ACPS; pfam01648 316385010787 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 316385010788 The substrate-binding component of an ABC-type nickel import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA; cd08489 316385010789 substrate binding site [chemical binding]; other site 316385010790 nickel transporter permease NikB; Provisional; Region: PRK10352 316385010791 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 316385010792 dimer interface [polypeptide binding]; other site 316385010793 conserved gate region; other site 316385010794 putative PBP binding loops; other site 316385010795 ABC-ATPase subunit interface; other site 316385010796 nickel transporter permease NikC; Provisional; Region: nikC; PRK10417 316385010797 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 316385010798 dimer interface [polypeptide binding]; other site 316385010799 conserved gate region; other site 316385010800 putative PBP binding loops; other site 316385010801 ABC-ATPase subunit interface; other site 316385010802 nickel transporter ATP-binding protein NikD; Provisional; Region: nikD; PRK10418 316385010803 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 316385010804 Walker A/P-loop; other site 316385010805 ATP binding site [chemical binding]; other site 316385010806 Q-loop/lid; other site 316385010807 ABC transporter signature motif; other site 316385010808 Walker B; other site 316385010809 D-loop; other site 316385010810 H-loop/switch region; other site 316385010811 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 316385010812 nickel transporter ATP-binding protein NikE; Provisional; Region: nikE; PRK10419 316385010813 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 316385010814 Walker A/P-loop; other site 316385010815 ATP binding site [chemical binding]; other site 316385010816 Q-loop/lid; other site 316385010817 ABC transporter signature motif; other site 316385010818 Walker B; other site 316385010819 D-loop; other site 316385010820 H-loop/switch region; other site 316385010821 nickel responsive regulator; Provisional; Region: PRK02967 316385010822 NikR C terminal nickel binding domain; Region: NikR_C; pfam08753 316385010823 PAAR motif; Region: PAAR_motif; cl15808 316385010824 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 316385010825 RHS Repeat; Region: RHS_repeat; pfam05593 316385010826 RHS Repeat; Region: RHS_repeat; pfam05593 316385010827 RHS Repeat; Region: RHS_repeat; pfam05593 316385010828 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 316385010829 RHS Repeat; Region: RHS_repeat; pfam05593 316385010830 RHS Repeat; Region: RHS_repeat; pfam05593 316385010831 RHS protein; Region: RHS; pfam03527 316385010832 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 316385010833 Domain of unknown function (DUF4329); Region: DUF4329; pfam14220 316385010834 predicted protein fragment (pseudogene) 316385010835 DDE_Tnp_1-associated; Region: DDE_Tnp_1_assoc; pfam13808 316385010836 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 316385010837 Transposase [DNA replication, recombination, and repair]; Region: COG5433 316385010838 Transposase [DNA replication, recombination, and repair]; Region: COG5433 316385010839 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 316385010840 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 316385010841 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 316385010842 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 316385010843 Walker A/P-loop; other site 316385010844 ATP binding site [chemical binding]; other site 316385010845 Q-loop/lid; other site 316385010846 ABC transporter signature motif; other site 316385010847 Walker B; other site 316385010848 D-loop; other site 316385010849 H-loop/switch region; other site 316385010850 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 316385010851 Walker A/P-loop; other site 316385010852 ATP binding site [chemical binding]; other site 316385010853 Q-loop/lid; other site 316385010854 ABC transporter signature motif; other site 316385010855 Walker B; other site 316385010856 D-loop; other site 316385010857 H-loop/switch region; other site 316385010858 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 316385010859 ABC-2 family transporter protein; Region: ABC2_membrane_2; pfam12679 316385010860 Domain of unknown function (DUF4049); Region: DUF4049; pfam13258 316385010861 predicted protein (pseudogene) 316385010862 Protein of unknown function (DUF2776); Region: DUF2776; pfam10951 316385010863 Predicted flavoproteins [General function prediction only]; Region: COG2081 316385010864 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 316385010865 Phosphate/sulphate permeases [Inorganic ion transport and metabolism]; Region: PitA; COG0306 316385010866 Phosphate/sulphate permeases [Inorganic ion transport and metabolism]; Region: PitA; COG0306 316385010867 universal stress protein UspB; Provisional; Region: PRK04960 316385010868 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 316385010869 Ligand Binding Site [chemical binding]; other site 316385010870 dipeptide/tripeptide permease B; Provisional; Region: PRK10207 316385010871 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 316385010872 POT family; Region: PTR2; pfam00854 316385010873 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 316385010874 S-adenosylmethionine binding site [chemical binding]; other site 316385010875 oligopeptidase A; Provisional; Region: PRK10911 316385010876 Peptidase family M3 dipeptidyl carboxypeptidase (DCP); Region: M3A_DCP; cd06456 316385010877 active site 316385010878 Zn binding site [ion binding]; other site 316385010879 Protein involved in catabolism of external DNA [General function prediction only]; Region: ComJ; COG2961 316385010880 glutathione reductase; Validated; Region: PRK06116 316385010881 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 316385010882 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 316385010883 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 316385010884 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 316385010885 dimerization interface [polypeptide binding]; other site 316385010886 putative DNA binding site [nucleotide binding]; other site 316385010887 putative Zn2+ binding site [ion binding]; other site 316385010888 arsenical pump membrane protein; Provisional; Region: PRK15445 316385010889 Anion permease ArsB. These permeases have been shown to export arsenate and antimonite in eubacteria and archaea. A typical ArsB permease contains 8-13 transmembrane helices and can function either independently as a chemiosmotic transporter or as a...; Region: ArsB_permease; cd01118 316385010890 transmembrane helices; other site 316385010891 Arsenate Reductase (ArsC) family, ArsC subfamily; arsenic reductases similar to that encoded by arsC on the R733 plasmid of Escherichia coli. E. coli ArsC catalyzes the reduction of arsenate [As(V)] to arsenite [As(III)], the first step in the...; Region: ArsC_ArsC; cd03034 316385010892 ArsC family; Region: ArsC; pfam03960 316385010893 catalytic residues [active] 316385010894 Transposase domain (DUF772); Region: DUF772; pfam05598 316385010895 Transposase and inactivated derivatives, IS5 family [DNA replication, recombination, and repair]; Region: COG3039 316385010896 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 316385010897 outer membrane lipoprotein, Slp family; Region: slp; TIGR00752 316385010898 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 316385010899 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 316385010900 DNA binding residues [nucleotide binding] 316385010901 dimerization interface [polypeptide binding]; other site 316385010902 putative Mg(2+) transport ATPase; Provisional; Region: PRK09977 316385010903 MgtC family; Region: MgtC; pfam02308 316385010904 acid-resistance protein; Provisional; Region: hdeB; PRK11566 316385010905 acid-resistance protein; Provisional; Region: PRK10208 316385010906 acid-resistance membrane protein; Provisional; Region: PRK10209 316385010907 Uncharacterized conserved protein [Function unknown]; Region: HdeD; COG3247 316385010908 Xylose isomerase-like TIM barrel; Region: AP_endonuc_2; pfam01261 316385010909 pyruvate kinase; Provisional; Region: PRK05826 316385010910 multidrug efflux system protein MdtE; Provisional; Region: PRK09859 316385010911 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 316385010912 HlyD family secretion protein; Region: HlyD_3; pfam13437 316385010913 multidrug efflux system protein AcrB; Provisional; Region: PRK15127 316385010914 Protein export membrane protein; Region: SecD_SecF; cl14618 316385010915 transcriptional regulator YdeO; Provisional; Region: PRK09940 316385010916 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 316385010917 DNA-binding transcriptional regulator GadX; Provisional; Region: PRK09978 316385010918 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 316385010919 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 316385010920 pyridoxal 5'-phosphate binding site [chemical binding]; other site 316385010921 catalytic residue [active] 316385010922 Haem-binding domain; Region: Haem_bd; pfam14376 316385010923 Cytochrome c peroxidase [Inorganic ion transport and metabolism]; Region: MauG; COG1858 316385010924 trehalase; Provisional; Region: treF; PRK13270 316385010925 Trehalase; Region: Trehalase; pfam01204 316385010926 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 316385010927 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 316385010928 DNA binding residues [nucleotide binding] 316385010929 dimerization interface [polypeptide binding]; other site 316385010930 Transcriptional regulator [Transcription]; Region: LysR; COG0583 316385010931 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 316385010932 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator CrgA-like, contains the type 2 periplasmic binding fold; Region: PBP2_CrgA_like_3; cd08472 316385010933 putative effector binding pocket; other site 316385010934 putative dimerization interface [polypeptide binding]; other site 316385010935 inner membrane protein YhjD; Region: TIGR00766 316385010936 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 316385010937 metabolite-proton symporter; Region: 2A0106; TIGR00883 316385010938 putative substrate translocation pore; other site 316385010939 Uncharacterized protein involved in outer membrane biogenesis [Cell envelope biogenesis, outer membrane]; Region: AsmA; COG2982 316385010940 AsmA-like C-terminal region; Region: AsmA_2; pfam13502 316385010941 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 316385010942 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 316385010943 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 316385010944 substrate binding site [chemical binding]; other site 316385010945 ATP binding site [chemical binding]; other site 316385010946 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 316385010947 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 316385010948 putative diguanylate cyclase; Provisional; Region: PRK13561 316385010949 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 316385010950 metal binding site [ion binding]; metal-binding site 316385010951 active site 316385010952 I-site; other site 316385010953 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 316385010954 cellulose synthase subunit BcsC; Provisional; Region: PRK11447 316385010955 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 316385010956 binding surface 316385010957 TPR motif; other site 316385010958 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 316385010959 binding surface 316385010960 TPR motif; other site 316385010961 Cellulose synthase operon protein C C-terminus (BCSC_C); Region: BCSC_C; pfam05420 316385010962 endo-1,4-D-glucanase; Provisional; Region: PRK11097 316385010963 cellulose synthase regulator protein; Provisional; Region: PRK11114 316385010964 cellulose synthase catalytic subunit; Provisional; Region: bcsA; PRK11498 316385010965 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 316385010966 CESA_CelA_like are involved in the elongation of the glucan chain of cellulose; Region: CESA_CelA_like; cd06421 316385010967 DXD motif; other site 316385010968 PilZ domain; Region: PilZ; pfam07238 316385010969 cell division protein (chromosome partitioning ATPase) (pseudogene) 316385010970 Protein of unknown function (DUF2629); Region: DUF2629; pfam10945 316385010971 celllulose biosynthesis operon protein BcsF/YhjT; Region: cellullose_BcsF; TIGR03493 316385010972 Protein of unknown function (DUF3260); Region: DUF3260; pfam11658 316385010973 Toxin Ldr, type I toxin-antitoxin system; Region: Ldr_toxin; pfam13940 316385010974 Amino acid permeases [Amino acid transport and metabolism]; Region: SdaC; COG0814 316385010975 serine transporter; Region: stp; TIGR00814 316385010976 dipeptide transporter ATP-binding subunit; Provisional; Region: dppF; PRK11308 316385010977 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 316385010978 Walker A/P-loop; other site 316385010979 ATP binding site [chemical binding]; other site 316385010980 Q-loop/lid; other site 316385010981 ABC transporter signature motif; other site 316385010982 Walker B; other site 316385010983 D-loop; other site 316385010984 H-loop/switch region; other site 316385010985 oligopeptide/dipeptide ABC transporter, ATP-binding protein, C-terminal domain; Region: oligo_HPY; TIGR01727 316385010986 dipeptide transporter ATP-binding subunit; Provisional; Region: dppD; PRK11022 316385010987 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 316385010988 Walker A/P-loop; other site 316385010989 ATP binding site [chemical binding]; other site 316385010990 Q-loop/lid; other site 316385010991 ABC transporter signature motif; other site 316385010992 Walker B; other site 316385010993 D-loop; other site 316385010994 H-loop/switch region; other site 316385010995 oligopeptide/dipeptide ABC transporter, ATP-binding protein, C-terminal domain; Region: oligo_HPY; TIGR01727 316385010996 dipeptide transporter; Provisional; Region: PRK10913 316385010997 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 316385010998 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 316385010999 dimer interface [polypeptide binding]; other site 316385011000 conserved gate region; other site 316385011001 putative PBP binding loops; other site 316385011002 ABC-ATPase subunit interface; other site 316385011003 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 316385011004 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 316385011005 dimer interface [polypeptide binding]; other site 316385011006 conserved gate region; other site 316385011007 putative PBP binding loops; other site 316385011008 ABC-ATPase subunit interface; other site 316385011009 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 316385011010 The substrate-binding component of an ABC-type dipeptide import system contains the type 2 periplasmic binding fold; Region: PBP2_DppA_like; cd08493 316385011011 peptide binding site [polypeptide binding]; other site 316385011012 phosphoethanolamine transferase; Provisional; Region: PRK11560 316385011013 Domain of unknown function (DUF1705); Region: DUF1705; pfam08019 316385011014 Sulfatase; Region: Sulfatase; pfam00884 316385011015 oxalate/formate antiporter family transporter; Region: 2A0111; TIGR00890 316385011016 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 316385011017 putative substrate translocation pore; other site 316385011018 Autotransporter protein or domain, integral membrane beta-barrel involved in protein secretion [Cell motility and secretion]; Region: COG5571 316385011019 3-methyl-adenine DNA glycosylase I; Provisional; Region: PRK10353 316385011020 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 316385011021 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 316385011022 Coenzyme A binding pocket [chemical binding]; other site 316385011023 molybdopterin guanine dinucleotide-containing S/N-oxide reductases; Region: bisC_fam; TIGR00509 316385011024 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 316385011025 molybdopterin cofactor binding site [chemical binding]; other site 316385011026 substrate binding site [chemical binding]; other site 316385011027 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 316385011028 molybdopterin cofactor binding site; other site 316385011029 putative outer membrane lipoprotein; Provisional; Region: PRK10510 316385011030 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 316385011031 ligand binding site [chemical binding]; other site 316385011032 bifunctional glyoxylate/hydroxypyruvate reductase B; Provisional; Region: PRK15409 316385011033 D-glycerate dehydrogenase/hydroxypyruvate reductase (GDH); Region: GDH; cd05301 316385011034 dimerization interface [polypeptide binding]; other site 316385011035 ligand binding site [chemical binding]; other site 316385011036 NADP binding site [chemical binding]; other site 316385011037 catalytic site [active] 316385011038 Protein of unknown function (DUF3053); Region: DUF3053; pfam11254 316385011039 Predicted transcriptional regulator [Transcription]; Region: COG2944 316385011040 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 316385011041 non-specific DNA binding site [nucleotide binding]; other site 316385011042 salt bridge; other site 316385011043 sequence-specific DNA binding site [nucleotide binding]; other site 316385011044 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 316385011045 DNA-binding site [nucleotide binding]; DNA binding site 316385011046 RNA-binding motif; other site 316385011047 small toxic polypeptide; Provisional; Region: PRK09759 316385011048 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 316385011049 Helix-turn-helix domain; Region: HTH_28; pfam13518 316385011050 Helix-turn-helix domain; Region: HTH_28; pfam13518 316385011051 putative transposase OrfB; Reviewed; Region: PHA02517 316385011052 HTH-like domain; Region: HTH_21; pfam13276 316385011053 Integrase core domain; Region: rve; pfam00665 316385011054 Integrase core domain; Region: rve_2; pfam13333 316385011055 glycyl-tRNA synthetase, tetrameric type, beta subunit; Region: glyS; TIGR00211 316385011056 DALR anticodon binding domain; Region: DALR_1; pfam05746 316385011057 anticodon binding site; other site 316385011058 tRNA binding surface [nucleotide binding]; other site 316385011059 YsaB-like lipoprotein; Region: YsaB; pfam13983 316385011060 Predicted O-acyltransferase [General function prediction only]; Region: COG3274 316385011061 Acyltransferase family; Region: Acyl_transf_3; pfam01757 316385011062 hypothetical protein; Provisional; Region: PRK11383 316385011063 yiaA/B two helix domain; Region: YiaAB; pfam05360 316385011064 yiaA/B two helix domain; Region: YiaAB; pfam05360 316385011065 hypothetical protein; Provisional; Region: PRK11403 316385011066 yiaA/B two helix domain; Region: YiaAB; pfam05360 316385011067 xylulokinase; Provisional; Region: PRK15027 316385011068 Escherichia coli xylulokinase-like D-xylulose kinases; a subgroup of the FGGY family of carbohydrate kinases; Region: FGGY_D-XK_EcXK-like; cd07808 316385011069 N- and C-terminal domain interface [polypeptide binding]; other site 316385011070 active site 316385011071 MgATP binding site [chemical binding]; other site 316385011072 catalytic site [active] 316385011073 metal binding site [ion binding]; metal-binding site 316385011074 xylulose binding site [chemical binding]; other site 316385011075 homodimer interface [polypeptide binding]; other site 316385011076 xylose isomerase; Provisional; Region: PRK05474 316385011077 xylose isomerase; Region: xylose_isom_A; TIGR02630 316385011078 D-xylose transporter subunit XylF; Provisional; Region: xylF; PRK10355 316385011079 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 316385011080 putative ligand binding site [chemical binding]; other site 316385011081 xylose transporter ATP-binding subunit; Provisional; Region: PRK13549 316385011082 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 316385011083 Walker A/P-loop; other site 316385011084 ATP binding site [chemical binding]; other site 316385011085 Q-loop/lid; other site 316385011086 ABC transporter signature motif; other site 316385011087 Walker B; other site 316385011088 D-loop; other site 316385011089 H-loop/switch region; other site 316385011090 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 316385011091 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 316385011092 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 316385011093 TM-ABC transporter signature motif; other site 316385011094 Ligand-binding domain of DNA transcription repressor specific for xylose (XylR); Region: PBP1_XylR; cd01543 316385011095 putative dimerization interface [polypeptide binding]; other site 316385011096 Transcriptional regulators [Transcription]; Region: PurR; COG1609 316385011097 putative ligand binding site [chemical binding]; other site 316385011098 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 316385011099 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 316385011100 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 316385011101 hypothetical protein; Provisional; Region: PRK10356 316385011102 Uncharacterized FlgJ-related protein [General function prediction only]; Region: Bax; COG2992 316385011103 alpha-amylase; Reviewed; Region: malS; PRK09505 316385011104 Alpha amylase catalytic domain family; Region: AmyAc_family; cl07893 316385011105 active site 316385011106 catalytic site [active] 316385011107 valine--pyruvate transaminase; Provisional; Region: avtA; PRK09440 316385011108 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 316385011109 pyridoxal 5'-phosphate binding site [chemical binding]; other site 316385011110 homodimer interface [polypeptide binding]; other site 316385011111 catalytic residue [active] 316385011112 Fe-S-cluster-containing hydrogenase components 2 [Energy production and conversion]; Region: HycB; COG1142 316385011113 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 316385011114 Transcriptional regulator [Transcription]; Region: IclR; COG1414 316385011115 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 316385011116 Bacterial transcriptional regulator; Region: IclR; pfam01614 316385011117 2,3-diketo-L-gulonate reductase; Provisional; Region: PRK13260 316385011118 uncharacterized protein, YhcH/YjgK/YiaL family; Region: TIGR00022 316385011119 2,3-diketo-L-gulonate TRAP transporter small permease protein YiaM; Provisional; Region: PRK09877 316385011120 L-dehydroascorbate transporter large permease subunit; Provisional; Region: PRK15060 316385011121 DctM-like transporters; Region: DctM; pfam06808 316385011122 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 316385011123 tripartite ATP-independent periplasmic transporter solute receptor, DctP family; Region: dctP; TIGR00787 316385011124 Sugar (pentulose and hexulose) kinases [Carbohydrate transport and metabolism]; Region: XylB; COG1070 316385011125 L-xylulose kinases; a subfamily of the FGGY family of carbohydrate kinases; Region: FGGY_L-XK; cd07802 316385011126 putative N- and C-terminal domain interface [polypeptide binding]; other site 316385011127 putative active site [active] 316385011128 MgATP binding site [chemical binding]; other site 316385011129 catalytic site [active] 316385011130 metal binding site [ion binding]; metal-binding site 316385011131 putative xylulose binding site [chemical binding]; other site 316385011132 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 316385011133 active site 316385011134 dimer interface [polypeptide binding]; other site 316385011135 magnesium binding site [ion binding]; other site 316385011136 putative L-xylulose 5-phosphate 3-epimerase; Reviewed; Region: PRK13210 316385011137 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 316385011138 AP (apurinic/apyrimidinic) site pocket; other site 316385011139 DNA interaction; other site 316385011140 Metal-binding active site; metal-binding site 316385011141 L-ribulose-5-phosphate 4-epimerase; Reviewed; Region: araD; PRK08193 316385011142 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 316385011143 intersubunit interface [polypeptide binding]; other site 316385011144 active site 316385011145 Zn2+ binding site [ion binding]; other site 316385011146 Outer membrane protein V [Cell envelope biogenesis, outer membrane]; Region: OmpV; COG3713 316385011147 Transcriptional regulator [Transcription]; Region: LysR; COG0583 316385011148 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 316385011149 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 316385011150 Multidrug resistance efflux pump [Defense mechanisms]; Region: EmrA; COG1566 316385011151 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 316385011152 HlyD family secretion protein; Region: HlyD_3; pfam13437 316385011153 Protein of unknown function (DUF3302); Region: DUF3302; pfam11742 316385011154 FlxA-like protein; Region: FlxA; pfam14282 316385011155 Ralstonia eutrophus NAD+-dependent acetaldehyde dehydrogenase II-like; Region: ALDH_ACDHII-AcoD; cd07116 316385011156 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 316385011157 NAD(P) binding site [chemical binding]; other site 316385011158 catalytic residues [active] 316385011159 putative alcohol dehydrogenase; Provisional; Region: PRK09860 316385011160 Lactadehyde:propanediol oxidoreductase (LPO) catalyzes the interconversion between L-lactaldehyde and L-1,2-propanediol in Escherichia coli and other enterobacteria; Region: LPO; cd08176 316385011161 dimer interface [polypeptide binding]; other site 316385011162 active site 316385011163 metal binding site [ion binding]; metal-binding site 316385011164 selenocysteinyl-tRNA-specific translation factor; Provisional; Region: PRK10512 316385011165 SelB, the dedicated elongation factor for delivery of selenocysteinyl-tRNA to the ribosome; Region: SelB; cd04171 316385011166 G1 box; other site 316385011167 putative GEF interaction site [polypeptide binding]; other site 316385011168 GTP/Mg2+ binding site [chemical binding]; other site 316385011169 Switch I region; other site 316385011170 G2 box; other site 316385011171 G3 box; other site 316385011172 Switch II region; other site 316385011173 G4 box; other site 316385011174 G5 box; other site 316385011175 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 316385011176 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 316385011177 Elongation factor SelB, winged helix; Region: SelB-wing_2; pfam09106 316385011178 Elongation factor SelB, winged helix; Region: SelB-wing_3; pfam09107 316385011179 putative glutathione S-transferase; Provisional; Region: PRK10357 316385011180 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 316385011181 putative C-terminal domain interface [polypeptide binding]; other site 316385011182 putative GSH binding site (G-site) [chemical binding]; other site 316385011183 putative dimer interface [polypeptide binding]; other site 316385011184 C-terminal, alpha helical domain of an unknown subfamily 6 of Glutathione S-transferases; Region: GST_C_6; cd03205 316385011185 dimer interface [polypeptide binding]; other site 316385011186 N-terminal domain interface [polypeptide binding]; other site 316385011187 putative substrate binding pocket (H-site) [chemical binding]; other site 316385011188 putative lyase; Provisional; Region: PRK09687 316385011189 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 316385011190 RHS protein; Region: RHS; pfam03527 316385011191 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 316385011192 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 316385011193 Multidrug resistance efflux pump [Defense mechanisms]; Region: EmrA; COG1566 316385011194 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 316385011195 HlyD family secretion protein; Region: HlyD_3; pfam13437 316385011196 Protein of unknown function (DUF3302); Region: DUF3302; pfam11742 316385011197 PTS system mannitol-specific transporter subunit IICBA; Provisional; Region: PRK15083 316385011198 PTS system, mannitol-specific IIC component; Region: mtlA; TIGR00851 316385011199 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 316385011200 active site 316385011201 P-loop; other site 316385011202 phosphorylation site [posttranslational modification] 316385011203 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 316385011204 active site 316385011205 phosphorylation site [posttranslational modification] 316385011206 mannitol-1-phosphate 5-dehydrogenase; Provisional; Region: PRK02318 316385011207 Mannitol dehydrogenase Rossmann domain; Region: Mannitol_dh; pfam01232 316385011208 Mannitol dehydrogenase C-terminal domain; Region: Mannitol_dh_C; pfam08125 316385011209 Transcriptional regulator [Transcription]; Region: MtlR; COG3722 316385011210 mannitol repressor protein; Provisional; Region: mtlR; PRK11001 316385011211 hypothetical protein; Provisional; Region: PRK11020 316385011212 L-lactate permease; Provisional; Region: PRK10420 316385011213 glycolate transporter; Provisional; Region: PRK09695 316385011214 DNA-binding transcriptional repressor LldR; Provisional; Region: PRK10421 316385011215 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 316385011216 DNA-binding site [nucleotide binding]; DNA binding site 316385011217 FCD domain; Region: FCD; pfam07729 316385011218 L-lactate dehydrogenase; Provisional; Region: lldD; PRK11197 316385011219 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 316385011220 phosphate binding site [ion binding]; other site 316385011221 putative rRNA methylase; Provisional; Region: PRK10358 316385011222 serine acetyltransferase; Provisional; Region: cysE; PRK11132 316385011223 Serine acetyltransferase, N-terminal; Region: SATase_N; pfam06426 316385011224 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 316385011225 trimer interface [polypeptide binding]; other site 316385011226 active site 316385011227 substrate binding site [chemical binding]; other site 316385011228 CoA binding site [chemical binding]; other site 316385011229 NAD(P)H-dependent glycerol-3-phosphate dehydrogenase; Validated; Region: gpsA; PRK00094 316385011230 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 316385011231 NAD-dependent glycerol-3-phosphate dehydrogenase C-terminus; Region: NAD_Gly3P_dh_C; pfam07479 316385011232 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 316385011233 SecA binding site; other site 316385011234 Preprotein binding site; other site 316385011235 Glutaredoxin (GRX) family, GRX bacterial class 1 and 3 (b_1_3)-like subfamily; composed of bacterial GRXs, approximately 10 kDa in size, and proteins containing a GRX or GRX-like domain. GRX is a glutathione (GSH) dependent reductase, catalyzing the...; Region: GRX_GRXb_1_3_like; cd03418 316385011236 GSH binding site [chemical binding]; other site 316385011237 catalytic residues [active] 316385011238 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 316385011239 active site residue [active] 316385011240 phosphoglyceromutase; Provisional; Region: PRK05434 316385011241 2,3-bisphosphoglycerate-independent phosphoglycerate mutase; Region: pgm_bpd_ind; TIGR01307 316385011242 AmiB activator; Provisional; Region: PRK11637 316385011243 putative uroporphyrinogen III C-methyltransferase; Provisional; Region: PRK10920 316385011244 Peptidase family M23; Region: Peptidase_M23; pfam01551 316385011245 Putative catalytic domain of family 2 polysaccharide deacetylases (DACs) from bacteria; Region: CE4_DAC2; cd10936 316385011246 NodB motif; other site 316385011247 putative active site [active] 316385011248 putative catalytic site [active] 316385011249 Zn binding site [ion binding]; other site 316385011250 putative glycosyl transferase; Provisional; Region: PRK10073 316385011251 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 316385011252 active site 316385011253 L-threonine 3-dehydrogenase; Validated; Region: tdh; PRK05396 316385011254 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 316385011255 NAD(P) binding site [chemical binding]; other site 316385011256 pyridoxal phosphate-dependent acyltransferase, putative; Region: gly_Cac_T_rel; TIGR01825 316385011257 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 316385011258 substrate-cofactor binding pocket; other site 316385011259 pyridoxal 5'-phosphate binding site [chemical binding]; other site 316385011260 catalytic residue [active] 316385011261 hypothetical protein; Provisional; Region: PRK11346 316385011262 ADP-L-glycero-D-mannoheptose 6-epimerase (GME), extended (e) SDRs; Region: ADP_GME_SDR_e; cd05248 316385011263 ADP-L-glycero-D-mannoheptose-6-epimerase; Provisional; Region: rfaD; PRK11150 316385011264 NADP binding site [chemical binding]; other site 316385011265 homopentamer interface [polypeptide binding]; other site 316385011266 substrate binding site [chemical binding]; other site 316385011267 active site 316385011268 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 316385011269 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 316385011270 putative active site [active] 316385011271 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 316385011272 Glycosyltransferase family 9 (heptosyltransferase); Region: Glyco_transf_9; pfam01075 316385011273 putative active site [active] 316385011274 Lipid A core - O-antigen ligase and related enzymes [Cell envelope biogenesis, outer membrane]; Region: RfaL; COG3307 316385011275 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 316385011276 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 316385011277 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 316385011278 lipopolysaccharide core biosynthesis protein; Provisional; Region: PRK09822 316385011279 lipopolysaccharide core biosynthesis protein; Provisional; Region: PRK10359 316385011280 Lipopolysaccharide biosynthesis proteins, LPS:glycosyltransferases [Cell envelope biogenesis, outer membrane]; Region: RfaJ; COG1442 316385011281 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 316385011282 Ligand binding site; other site 316385011283 metal-binding site 316385011284 Glycosyl transferase family 8 C-terminal; Region: Glyco_transf_8C; pfam08437 316385011285 lipopolysaccharide 1,3-galactosyltransferase; Provisional; Region: PRK15171 316385011286 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 316385011287 Ligand binding site; other site 316385011288 metal-binding site 316385011289 Glycosyl transferase family 8 C-terminal; Region: Glyco_transf_8C; pfam08437 316385011290 UDP-D-galactose:(glucosyl)lipopolysaccharide-1, 6-D-galactosyltransferase; Provisional; Region: PRK09922 316385011291 This family is most closely related to the GT1 family of glycosyltransferases. WabH in Klebsiella pneumoniae has been shown to transfer a GlcNAc residue from UDP-GlcNAc onto the acceptor GalUA residue in the cellular outer core; Region: GT1_WabH_like; cd03811 316385011292 putative ADP-binding pocket [chemical binding]; other site 316385011293 lipopolysaccharide core heptose(I) kinase RfaP; Provisional; Region: PRK15123 316385011294 This family is most closely related to the GT1 family of glycosyltransferases and named after YqgM in Bacillus licheniformis about which little is known. Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to...; Region: GT1_YqgM_like; cd03801 316385011295 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 316385011296 lipopolysaccharide core biosynthesis protein; Provisional; Region: PRK10422 316385011297 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 316385011298 putative active site [active] 316385011299 3-deoxy-D-manno-octulosonic-acid transferase; Reviewed; Region: PRK05749 316385011300 3-Deoxy-D-manno-octulosonic-acid transferase (kdotransferase); Region: Glycos_transf_N; pfam04413 316385011301 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 316385011302 phosphopantetheine adenylyltransferase; Provisional; Region: coaD; PRK00168 316385011303 Phosphopantetheine adenylyltransferase; Region: PPAT; cd02163 316385011304 active site 316385011305 (T/H)XGH motif; other site 316385011306 formamidopyrimidine/5-formyluracil/ 5-hydroxymethyluracil DNA glycosylase; Validated; Region: PRK01103 316385011307 N-terminal domain of Escherichia coli Fpg1/MutM and related bacterial DNA glycosylases; Region: EcFpg-like_N; cd08966 316385011308 DNA binding site [nucleotide binding] 316385011309 catalytic residue [active] 316385011310 H2TH interface [polypeptide binding]; other site 316385011311 putative catalytic residues [active] 316385011312 turnover-facilitating residue; other site 316385011313 intercalation triad [nucleotide binding]; other site 316385011314 8OG recognition residue [nucleotide binding]; other site 316385011315 putative reading head residues; other site 316385011316 Formamidopyrimidine-DNA glycosylase H2TH domain; Region: H2TH; pfam06831 316385011317 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 316385011318 50S ribosomal protein L33; Validated; Region: rpmG; PRK00595 316385011319 50S ribosomal protein L28; Reviewed; Region: rpmB; PRK00359 316385011320 hypothetical protein; Reviewed; Region: PRK00024 316385011321 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 316385011322 MPN+ (JAMM) motif; other site 316385011323 Zinc-binding site [ion binding]; other site 316385011324 bifunctional phosphopantothenoylcysteine decarboxylase/phosphopantothenate synthase; Validated; Region: PRK05579 316385011325 Flavoprotein; Region: Flavoprotein; pfam02441 316385011326 DNA / pantothenate metabolism flavoprotein; Region: DFP; pfam04127 316385011327 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 316385011328 trimer interface [polypeptide binding]; other site 316385011329 active site 316385011330 division inhibitor protein; Provisional; Region: slmA; PRK09480 316385011331 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 316385011332 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 316385011333 active site 316385011334 hypothetical protein; Provisional; Region: PRK11820 316385011335 YicC-like family, N-terminal region; Region: YicC_N; pfam03755 316385011336 Domain of unknown function (DUF1732); Region: DUF1732; pfam08340 316385011337 DNA-damage-inducible protein D; Provisional; Region: dinD; PRK11525 316385011338 BRO family, N-terminal domain; Region: Bro-N; pfam02498 316385011339 Predicted membrane protein [Function unknown]; Region: COG2860 316385011340 UPF0126 domain; Region: UPF0126; pfam03458 316385011341 UPF0126 domain; Region: UPF0126; pfam03458 316385011342 NAD-dependent DNA ligase LigB; Reviewed; Region: ligB; PRK08097 316385011343 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 316385011344 nucleotide binding pocket [chemical binding]; other site 316385011345 K-X-D-G motif; other site 316385011346 catalytic site [active] 316385011347 NAD-dependent DNA ligase OB-fold domain; Region: DNA_ligase_OB; pfam03120 316385011348 Guanylate kinase [Nucleotide transport and metabolism]; Region: Gmk; COG0194 316385011349 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 316385011350 catalytic site [active] 316385011351 G-X2-G-X-G-K; other site 316385011352 DNA-directed RNA polymerase, omega subunit; Region: rpoZ; TIGR00690 316385011353 bifunctional (p)ppGpp synthetase II/ guanosine-3',5'-bis pyrophosphate 3'-pyrophosphohydrolase; Provisional; Region: PRK11092 316385011354 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 316385011355 Zn2+ binding site [ion binding]; other site 316385011356 Mg2+ binding site [ion binding]; other site 316385011357 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 316385011358 synthetase active site [active] 316385011359 NTP binding site [chemical binding]; other site 316385011360 metal binding site [ion binding]; metal-binding site 316385011361 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 316385011362 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 316385011363 tRNA guanosine-2'-O-methyltransferase; Provisional; Region: PRK11081 316385011364 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 316385011365 SpoU, rRNA methylase, C-terminal; Region: SpoU_methylas_C; pfam12105 316385011366 ATP-dependent DNA helicase RecG; Provisional; Region: PRK10917 316385011367 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 316385011368 generic binding surface II; other site 316385011369 ssDNA binding site; other site 316385011370 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 316385011371 ATP binding site [chemical binding]; other site 316385011372 putative Mg++ binding site [ion binding]; other site 316385011373 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 316385011374 nucleotide binding region [chemical binding]; other site 316385011375 ATP-binding site [chemical binding]; other site 316385011376 sodium--glutamate symport carrier (gltS); Region: gltS; TIGR00210 316385011377 Xanthine/uracil permeases [Nucleotide transport and metabolism]; Region: UraA; COG2233 316385011378 AsmA family; Region: AsmA; pfam05170 316385011379 Domain of Unknown Function (DUF748); Region: DUF748; pfam05359 316385011380 putative alpha-glucosidase; Provisional; Region: PRK10658 316385011381 Galactose mutarotase-like; Region: Gal_mutarotas_2; pfam13802 316385011382 YicI alpha-xylosidase is a glycosyl hydrolase family 31 (GH31) enzyme that catalyzes the release of an alpha-xylosyl residue from the non-reducing end of alpha-xyloside substrates such as alpha-xylosyl fluoride and isoprimeverose. YicI forms a...; Region: GH31_xylosidase_YicI; cd06593 316385011383 active site 316385011384 homotrimer interface [polypeptide binding]; other site 316385011385 catalytic site [active] 316385011386 homohexamer (dimer of homotrimers) interface [polypeptide binding]; other site 316385011387 putative transporter; Provisional; Region: PRK11462 316385011388 Na+/melibiose symporter and related transporters [Carbohydrate transport and metabolism]; Region: MelB; COG2211 316385011389 sugar efflux transporter; Region: 2A0120; TIGR00899 316385011390 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 316385011391 putative substrate translocation pore; other site 316385011392 EamA-like transporter family; Region: EamA; pfam00892 316385011393 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 316385011394 EamA-like transporter family; Region: EamA; pfam00892 316385011395 cytoplasmic membrane lipoprotein-28; Provisional; Region: PRK09861 316385011396 lipoprotein, YaeC family; Region: TIGR00363 316385011397 methyl-accepting chemotaxis protein I; Provisional; Region: PRK15041 316385011398 ribonucleoside transporter; Reviewed; Region: nepI; PRK10213 316385011399 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 316385011400 putative substrate translocation pore; other site 316385011401 Protein of unknown function (DUF1198); Region: DUF1198; pfam06711 316385011402 Xanthine/uracil/vitamin C permease [Nucleotide transport and metabolism]; Region: COG2252 316385011403 cryptic adenine deaminase; Provisional; Region: PRK10027 316385011404 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 316385011405 Adenine deaminase (AdeC) directly deaminates adenine to form hypoxanthine. This reaction is part of one of the adenine salvage pathways, as well as the degradation pathway. It is important for adenine utilization as a purine, as well as a nitrogen source...; Region: AdeC; cd01295 316385011406 active site 316385011407 Adenine deaminase C-terminal domain; Region: Adenine_deam_C; pfam13382 316385011408 sugar phosphate antiporter; Reviewed; Region: uhpT; PRK09556 316385011409 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 316385011410 putative substrate translocation pore; other site 316385011411 regulatory protein UhpC; Provisional; Region: PRK11663 316385011412 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 316385011413 putative substrate translocation pore; other site 316385011414 sensory histidine kinase UhpB; Provisional; Region: PRK11644 316385011415 MASE1; Region: MASE1; pfam05231 316385011416 Histidine kinase; Region: HisKA_3; pfam07730 316385011417 DNA-binding transcriptional activator UhpA; Provisional; Region: PRK10360 316385011418 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 316385011419 active site 316385011420 phosphorylation site [posttranslational modification] 316385011421 intermolecular recognition site; other site 316385011422 dimerization interface [polypeptide binding]; other site 316385011423 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 316385011424 DNA binding residues [nucleotide binding] 316385011425 dimerization interface [polypeptide binding]; other site 316385011426 Acetolactate synthase, small (regulatory) subunit [Amino acid transport and metabolism]; Region: IlvH; COG0440 316385011427 N-terminal ACT domain of the Escherichia coli IlvH-like regulatory subunit of acetohydroxyacid synthase (AHAS); Region: ACT_AHAS; cd04878 316385011428 putative valine binding site [chemical binding]; other site 316385011429 dimer interface [polypeptide binding]; other site 316385011430 acetolactate synthase catalytic subunit; Validated; Region: PRK08155 316385011431 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 316385011432 PYR/PP interface [polypeptide binding]; other site 316385011433 dimer interface [polypeptide binding]; other site 316385011434 TPP binding site [chemical binding]; other site 316385011435 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 316385011436 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 316385011437 TPP-binding site [chemical binding]; other site 316385011438 dimer interface [polypeptide binding]; other site 316385011439 multidrug resistance protein D; Provisional; Region: emrD; PRK11652 316385011440 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 316385011441 putative substrate translocation pore; other site 316385011442 Arylsulfatase regulator (Fe-S oxidoreductase) [General function prediction only]; Region: AslB; COG0641 316385011443 Domain of unknown function (DUF202); Region: DUF202; pfam02656 316385011444 Predicted membrane protein [Function unknown]; Region: COG2149 316385011445 Arylsulfatase A and related enzymes [Inorganic ion transport and metabolism]; Region: AslA; COG3119 316385011446 Sulfatase; Region: Sulfatase; pfam00884 316385011447 putative transporter; Provisional; Region: PRK10484 316385011448 uncharacterized SLC5 subfamily, Escherichia coli YidK-like; solute binding domain; Region: SLC5sbd_YidK; cd10328 316385011449 Na binding site [ion binding]; other site 316385011450 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 316385011451 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 316385011452 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 316385011453 predicted 6-phospho-beta-glucosidase (pseudogene) 316385011454 arbutin specific enzyme IIB and IIC components of PTS (pseudogene); a single nucleotide substitution within codon 369 relative to glvC in Escherichia coli EDL933 (ASAP:ABH-0028817) results in a termination codon 316385011455 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 316385011456 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 316385011457 DNA-binding site [nucleotide binding]; DNA binding site 316385011458 The UbiC transcription regulator-associated (UTRA) domain is a conserved ligand-binding domain; Region: UTRA; smart00866 316385011459 putative transporter; Validated; Region: PRK03818 316385011460 Predicted Permease Membrane Region; Region: Asp-Al_Ex; pfam06826 316385011461 TrkA-C domain; Region: TrkA_C; pfam02080 316385011462 TrkA-C domain; Region: TrkA_C; pfam02080 316385011463 AspT/YidE/YbjL antiporter duplication domain; Region: YidE_YbjL_dupl; TIGR01625 316385011464 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 316385011465 Alpha-crystallin domain (ACD) found in Escherichia coli inclusion body-associated proteins IbpA and IbpB, and similar proteins. IbpA and IbpB are 16 kDa small heat shock proteins (sHsps). sHsps are molecular chaperones that suppress protein aggregation...; Region: ACD_IbpA-B_like; cd06470 316385011466 putative dimer interface [polypeptide binding]; other site 316385011467 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 316385011468 Alpha-crystallin domain (ACD) found in Escherichia coli inclusion body-associated proteins IbpA and IbpB, and similar proteins. IbpA and IbpB are 16 kDa small heat shock proteins (sHsps). sHsps are molecular chaperones that suppress protein aggregation...; Region: ACD_IbpA-B_like; cd06470 316385011469 putative dimer interface [polypeptide binding]; other site 316385011470 hypothetical protein; Provisional; Region: PRK11616 316385011471 Protein of unknown function (DUF3748); Region: DUF3748; pfam12566 316385011472 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 316385011473 D-galactonate transporter; Region: 2A0114; TIGR00893 316385011474 putative substrate translocation pore; other site 316385011475 galactonate dehydratase; Provisional; Region: PRK14017 316385011476 D-galactonate dehydratase catalyses the dehydration of galactonate to 2-keto-3-deoxygalactnate (KDGal), as part of the D-galactonate nonphosphorolytic catabolic Entner-Doudoroff pathway. D-galactonate dehydratase belongs to the enolase superfamily of...; Region: D-galactonate_dehydratase; cd03325 316385011477 putative active site pocket [active] 316385011478 putative metal binding site [ion binding]; other site 316385011479 2-dehydro-3-deoxy-6-phosphogalactonate aldolase; Reviewed; Region: PRK09140 316385011480 KDPG and KHG aldolase; Region: KDPG_aldolase; cd00452 316385011481 active site 316385011482 intersubunit interface [polypeptide binding]; other site 316385011483 catalytic residue [active] 316385011484 2-keto-3-deoxy-galactonokinase [Carbohydrate transport and metabolism]; Region: DgoK; COG3734 316385011485 2-keto-3-deoxy-galactonokinase; Region: DGOK; pfam05035 316385011486 Transcriptional regulators [Transcription]; Region: FadR; COG2186 316385011487 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 316385011488 DNA-binding site [nucleotide binding]; DNA binding site 316385011489 FCD domain; Region: FCD; pfam07729 316385011490 hypothetical protein; Provisional; Region: PRK10215 316385011491 sugar phosphate phosphatase; Provisional; Region: PRK10513 316385011492 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 316385011493 active site 316385011494 motif I; other site 316385011495 motif II; other site 316385011496 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 316385011497 hypothetical protein; Provisional; Region: PRK11426 316385011498 recF protein; Region: recf; TIGR00611 316385011499 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 316385011500 Walker A/P-loop; other site 316385011501 ATP binding site [chemical binding]; other site 316385011502 Q-loop/lid; other site 316385011503 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 316385011504 ABC transporter signature motif; other site 316385011505 Walker B; other site 316385011506 D-loop; other site 316385011507 H-loop/switch region; other site 316385011508 DNA polymerase III subunit beta; Validated; Region: PRK05643 316385011509 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 316385011510 putative DNA binding surface [nucleotide binding]; other site 316385011511 dimer interface [polypeptide binding]; other site 316385011512 beta-clamp/clamp loader binding surface; other site 316385011513 beta-clamp/translesion DNA polymerase binding surface; other site 316385011514 50S ribosomal protein L34; Reviewed; Region: rpmH; PRK00399 316385011515 ribonuclease P; Reviewed; Region: rnpA; PRK01732 316385011516 hypothetical protein; Validated; Region: PRK00041 316385011517 membrane protein insertase; Provisional; Region: PRK01318 316385011518 membrane protein insertase, YidC/Oxa1 family, C-terminal domain; Region: yidC_oxa1_cterm; TIGR03592 316385011519 tRNA modification GTPase TrmE; Reviewed; Region: trmE; PRK05291 316385011520 GTP-binding protein TrmE N-terminus; Region: TrmE_N; pfam10396 316385011521 trmE is a tRNA modification GTPase; Region: trmE; cd04164 316385011522 G1 box; other site 316385011523 GTP/Mg2+ binding site [chemical binding]; other site 316385011524 Switch I region; other site 316385011525 G2 box; other site 316385011526 Switch II region; other site 316385011527 G3 box; other site 316385011528 G4 box; other site 316385011529 G5 box; other site 316385011530 Catalytic cysteine-containing C-terminus of GTPase, MnmE; Region: GTPase_Cys_C; pfam12631 316385011531 Tryptophanese operon leader peptide; Region: Tna_leader; pfam08053 316385011532 tryptophanase, leader peptide-associated; Region: tnaA_trp_ase; TIGR02617 316385011533 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 316385011534 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 316385011535 catalytic residue [active] 316385011536 tryptophan permease TnaB; Provisional; Region: PRK09664 316385011537 aromatic amino acid transport protein; Region: araaP; TIGR00837 316385011538 multidrug efflux system protein MdtL; Provisional; Region: PRK10473 316385011539 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 316385011540 putative substrate translocation pore; other site 316385011541 DNA-binding transcriptional regulator YidZ; Provisional; Region: PRK10216 316385011542 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 316385011543 The C-terminal substrate binding domain of LysR-type transcriptional regulators that involved in the catabolism of nitroaromatic/naphthalene compounds and that of related regulators; contains the type 2 periplasmic binding fold; Region: PBP2_Nitroaromatics_like; cd08417 316385011544 substrate binding pocket [chemical binding]; other site 316385011545 dimerization interface [polypeptide binding]; other site 316385011546 Phosphopantetheinyl transferase [Coenzyme metabolism]; Region: Sfp; COG2091 316385011547 Predicted flavoprotein [General function prediction only]; Region: COG0431 316385011548 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 316385011549 Xanthine/uracil/vitamin C permease [Nucleotide transport and metabolism]; Region: COG2252 316385011550 6-phosphogluconate phosphatase; Provisional; Region: PRK10563 316385011551 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 316385011552 active site 316385011553 motif I; other site 316385011554 motif II; other site 316385011555 putative inner membrane protein; Provisional; Region: PRK09823 316385011556 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3196 316385011557 6-phosphogluconolactonase/Glucosamine-6-phosphate isomerase/deaminase [Carbohydrate transport and metabolism]; Region: NagB; COG0363 316385011558 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 316385011559 active site 316385011560 trimer interface [polypeptide binding]; other site 316385011561 allosteric site; other site 316385011562 active site lid [active] 316385011563 N-terminal Early set domain associated with the catalytic domain of putative esterases; Region: E_set_Esterase_like_N; cd11294 316385011564 Enterochelin esterase and related enzymes [Inorganic ion transport and metabolism]; Region: Fes; COG2382 316385011565 Predicted hydrolase of the alpha/beta superfamily [General function prediction only]; Region: COG2819 316385011566 Maltoporin periplasmic N-terminal extension; Region: Sugarporin_N; pfam11471 316385011567 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 316385011568 trimer interface; other site 316385011569 sugar binding site [chemical binding]; other site 316385011570 Beta-glucosidase/6-phospho-beta-glucosidase/beta- galactosidase [Carbohydrate transport and metabolism]; Region: BglB; COG2723 316385011571 beta-galactosidase; Region: BGL; TIGR03356 316385011572 PTS system beta-glucoside-specific transporter subunits IIABC; Provisional; Region: PRK09824 316385011573 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 316385011574 active site turn [active] 316385011575 phosphorylation site [posttranslational modification] 316385011576 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 316385011577 PTS_IIA, PTS system, glucose/sucrose specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIA_glc; cd00210 316385011578 HPr interaction site; other site 316385011579 glycerol kinase (GK) interaction site [polypeptide binding]; other site 316385011580 active site 316385011581 phosphorylation site [posttranslational modification] 316385011582 transcriptional antiterminator BglG; Provisional; Region: PRK09772 316385011583 CAT RNA binding domain; Region: CAT_RBD; pfam03123 316385011584 PRD domain; Region: PRD; pfam00874 316385011585 PRD domain; Region: PRD; pfam00874 316385011586 transcriptional regulator PhoU; Provisional; Region: PRK11115 316385011587 PhoU domain; Region: PhoU; pfam01895 316385011588 PhoU domain; Region: PhoU; pfam01895 316385011589 phosphate transporter ATP-binding protein; Provisional; Region: pstB; PRK10744 316385011590 ATP-binding cassette domain of the phosphate transport system; Region: ABC_PstB_phosphate_transporter; cd03260 316385011591 Walker A/P-loop; other site 316385011592 ATP binding site [chemical binding]; other site 316385011593 Q-loop/lid; other site 316385011594 ABC transporter signature motif; other site 316385011595 Walker B; other site 316385011596 D-loop; other site 316385011597 H-loop/switch region; other site 316385011598 phosphate transporter permease subunit PtsA; Provisional; Region: pstA; PRK11268 316385011599 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 316385011600 dimer interface [polypeptide binding]; other site 316385011601 conserved gate region; other site 316385011602 putative PBP binding loops; other site 316385011603 ABC-ATPase subunit interface; other site 316385011604 phosphate transporter permease subunit PstC; Provisional; Region: pstC; PRK11275 316385011605 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 316385011606 dimer interface [polypeptide binding]; other site 316385011607 conserved gate region; other site 316385011608 putative PBP binding loops; other site 316385011609 ABC-ATPase subunit interface; other site 316385011610 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 316385011611 bifunctional N-acetylglucosamine-1-phosphate uridyltransferase/glucosamine-1-phosphate acetyltransferase; Provisional; Region: glmU; PRK09451 316385011612 N-terminal domain of bacterial GlmU; Region: GT2_GlmU_N_bac; cd02540 316385011613 Substrate binding site; other site 316385011614 Mg++ binding site; other site 316385011615 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 316385011616 active site 316385011617 substrate binding site [chemical binding]; other site 316385011618 CoA binding site [chemical binding]; other site 316385011619 F0F1 ATP synthase subunit epsilon; Validated; Region: atpC; PRK00571 316385011620 mitochondrial ATP synthase delta subunit; Region: F1-ATPase_delta; cd12152 316385011621 gamma subunit interface [polypeptide binding]; other site 316385011622 epsilon subunit interface [polypeptide binding]; other site 316385011623 LBP interface [polypeptide binding]; other site 316385011624 F0F1 ATP synthase subunit beta; Validated; Region: PRK09280 316385011625 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 316385011626 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 316385011627 alpha subunit interaction interface [polypeptide binding]; other site 316385011628 Walker A motif; other site 316385011629 ATP binding site [chemical binding]; other site 316385011630 Walker B motif; other site 316385011631 inhibitor binding site; inhibition site 316385011632 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 316385011633 mitochondrial ATP synthase gamma subunit; Region: F1-ATPase_gamma; cd12151 316385011634 core domain interface [polypeptide binding]; other site 316385011635 delta subunit interface [polypeptide binding]; other site 316385011636 epsilon subunit interface [polypeptide binding]; other site 316385011637 F0F1 ATP synthase subunit alpha; Validated; Region: PRK09281 316385011638 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 316385011639 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 316385011640 beta subunit interaction interface [polypeptide binding]; other site 316385011641 Walker A motif; other site 316385011642 ATP binding site [chemical binding]; other site 316385011643 Walker B motif; other site 316385011644 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 316385011645 F0F1 ATP synthase subunit delta; Validated; Region: PRK05758 316385011646 ATP synthase delta (OSCP) subunit; Region: OSCP; pfam00213 316385011647 F0F1 ATP synthase subunit B; Validated; Region: PRK05759 316385011648 F0F1-type ATP synthase, subunit b [Energy production and conversion]; Region: AtpF; COG0711 316385011649 F0F1 ATP synthase subunit C; Validated; Region: PRK06876 316385011650 F0F1-type ATP synthase, subunit a [Energy production and conversion]; Region: AtpB; COG0356 316385011651 F0F1 ATP synthase subunit A; Validated; Region: PRK05815 316385011652 F0F1 ATP synthase subunit I; Validated; Region: PRK08049 316385011653 Predicted S-adenosylmethionine-dependent methyltransferase involved in bacterial cell division [Cell envelope biogenesis, outer membrane]; Region: GidB; COG0357 316385011654 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 316385011655 S-adenosylmethionine binding site [chemical binding]; other site 316385011656 tRNA uridine 5-carboxymethylaminomethyl modification enzyme GidA; Validated; Region: PRK05192 316385011657 NAD(FAD)-utilizing enzyme possibly involved in translation [Translation, ribosomal structure and biogenesis]; Region: Gid; COG1206 316385011658 GidA associated domain 3; Region: GIDA_assoc_3; pfam13932 316385011659 FMN-binding protein MioC; Provisional; Region: PRK09004 316385011660 DNA-binding transcriptional regulator AsnC; Provisional; Region: PRK11179 316385011661 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 316385011662 putative DNA binding site [nucleotide binding]; other site 316385011663 putative Zn2+ binding site [ion binding]; other site 316385011664 AsnC family; Region: AsnC_trans_reg; pfam01037 316385011665 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 316385011666 dimer interface [polypeptide binding]; other site 316385011667 active site 316385011668 hypothetical protein; Provisional; Region: yieM; PRK10997 316385011669 VWA YIEM type: Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b...; Region: VWA_YIEM_type; cd01462 316385011670 metal ion-dependent adhesion site (MIDAS); other site 316385011671 potassium transport protein Kup; Provisional; Region: trkD; PRK10745 316385011672 potassium uptake protein; Region: kup; TIGR00794 316385011673 D-ribose pyranase; Provisional; Region: PRK11797 316385011674 D-ribose transporter ATP binding protein; Provisional; Region: PRK10762 316385011675 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 316385011676 Walker A/P-loop; other site 316385011677 ATP binding site [chemical binding]; other site 316385011678 Q-loop/lid; other site 316385011679 ABC transporter signature motif; other site 316385011680 Walker B; other site 316385011681 D-loop; other site 316385011682 H-loop/switch region; other site 316385011683 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 316385011684 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 316385011685 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 316385011686 TM-ABC transporter signature motif; other site 316385011687 D-ribose transporter subunit RbsB; Provisional; Region: PRK10653 316385011688 Periplasmic sugar-binding domain of the thermophilic Thermoanaerobacter tengcongensis ribose binding protein (ttRBP) and its mesophilic homologs; Region: PBP1_ribose_binding; cd06323 316385011689 ligand binding site [chemical binding]; other site 316385011690 dimerization interface [polypeptide binding]; other site 316385011691 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 316385011692 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 316385011693 substrate binding site [chemical binding]; other site 316385011694 dimer interface [polypeptide binding]; other site 316385011695 ATP binding site [chemical binding]; other site 316385011696 putative transporter; Provisional; Region: PRK10504 316385011697 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 316385011698 putative substrate translocation pore; other site 316385011699 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 316385011700 Transcriptional regulators [Transcription]; Region: FadR; COG2186 316385011701 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 316385011702 DNA-binding site [nucleotide binding]; DNA binding site 316385011703 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 316385011704 transcriptional regulator HdfR; Provisional; Region: PRK03601 316385011705 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 316385011706 LysR substrate binding domain; Region: LysR_substrate; pfam03466 316385011707 dimerization interface [polypeptide binding]; other site 316385011708 hypothetical protein; Provisional; Region: PRK11027 316385011709 putative ATP-dependent protease; Provisional; Region: PRK09862 316385011710 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 316385011711 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 316385011712 Walker A motif; other site 316385011713 ATP binding site [chemical binding]; other site 316385011714 Walker B motif; other site 316385011715 arginine finger; other site 316385011716 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase_2; pfam13335 316385011717 ilvG operon leader peptide; Provisional; Region: PRK10424 316385011718 acetolactate synthase 2 regulatory subunit; Provisional; Region: ilvM; PRK11152 316385011719 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 316385011720 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 316385011721 homodimer interface [polypeptide binding]; other site 316385011722 substrate-cofactor binding pocket; other site 316385011723 catalytic residue [active] 316385011724 threonine dehydratase; Reviewed; Region: PRK09224 316385011725 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 316385011726 tetramer interface [polypeptide binding]; other site 316385011727 pyridoxal 5'-phosphate binding site [chemical binding]; other site 316385011728 catalytic residue [active] 316385011729 First of two tandem C-terminal ACT domains of threonine dehydratase I (ThrD-I; L-threonine hydrolyase); Region: ACT_ThrD-I_1; cd04906 316385011730 putative Ile/Val binding site [chemical binding]; other site 316385011731 Second of two tandem C-terminal ACT domains of threonine dehydratase I (ThrD-I; L-threonine hydrolyase); Region: ACT_ThrD-I_2; cd04907 316385011732 putative Ile/Val binding site [chemical binding]; other site 316385011733 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 316385011734 DNA-binding transcriptional regulator IlvY; Provisional; Region: PRK11716 316385011735 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 316385011736 putative dimerization interface [polypeptide binding]; other site 316385011737 ketol-acid reductoisomerase; Validated; Region: PRK05225 316385011738 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvN; pfam07991 316385011739 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvC; pfam01450 316385011740 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvC; pfam01450 316385011741 peptidyl-prolyl cis-trans isomerase C; Provisional; Region: PRK15441 316385011742 Parvulin-like peptidyl-prolyl isomerase [Posttranslational modification, protein turnover, chaperones]; Region: SurA; COG0760 316385011743 predicted protein (pseudogene); a single nucleotide deletion within codon 70 relative to yifN in Escherichia coli EDL933 (ASAP:ABH-0028913) results in a frameshift leading to termination after codon 72 316385011744 ATP-dependent DNA helicase Rep; Provisional; Region: PRK10919 316385011745 Part of AAA domain; Region: AAA_19; pfam13245 316385011746 Family description; Region: UvrD_C_2; pfam13538 316385011747 guanosine pentaphosphate phosphohydrolase; Provisional; Region: PRK11031 316385011748 Ppx/GppA phosphatase family; Region: Ppx-GppA; pfam02541 316385011749 ATP-dependent RNA helicase RhlB; Provisional; Region: PRK04837 316385011750 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 316385011751 ATP binding site [chemical binding]; other site 316385011752 Mg++ binding site [ion binding]; other site 316385011753 motif III; other site 316385011754 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 316385011755 nucleotide binding region [chemical binding]; other site 316385011756 ATP-binding site [chemical binding]; other site 316385011757 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 316385011758 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 316385011759 catalytic residues [active] 316385011760 putative rho operon leader peptide; Provisional; Region: PRK09979 316385011761 transcription termination factor Rho; Provisional; Region: rho; PRK09376 316385011762 Rho termination factor, N-terminal domain; Region: Rho_N; smart00959 316385011763 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 316385011764 RNA binding site [nucleotide binding]; other site 316385011765 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 316385011766 multimer interface [polypeptide binding]; other site 316385011767 Walker A motif; other site 316385011768 ATP binding site [chemical binding]; other site 316385011769 Walker B motif; other site 316385011770 undecaprenyl-phosphate alpha-N-acetylglucosaminyl 1-phosphate transferase; Provisional; Region: PRK15119 316385011771 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 316385011772 Mg++ binding site [ion binding]; other site 316385011773 putative catalytic motif [active] 316385011774 substrate binding site [chemical binding]; other site 316385011775 lipopolysaccharide biosynthesis protein WzzE; Provisional; Region: PRK11638 316385011776 Chain length determinant protein; Region: Wzz; pfam02706 316385011777 UDP-N-acetylglucosamine 2-epimerase; Region: wecB; TIGR00236 316385011778 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 316385011779 active site 316385011780 homodimer interface [polypeptide binding]; other site 316385011781 UDP-N-acetyl-D-mannosamine dehydrogenase; Provisional; Region: wecC; PRK11064 316385011782 Ketopantoate reductase PanE/ApbA; Region: ApbA; pfam02558 316385011783 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 316385011784 UDP binding domain; Region: UDPG_MGDP_dh_C; smart00984 316385011785 dTDP-glucose 4,6-dehydratase; Provisional; Region: PRK10217 316385011786 dTDP-D-glucose 4,6-dehydratase, extended (e) SDRs; Region: dTDP_GD_SDR_e; cd05246 316385011787 NAD binding site [chemical binding]; other site 316385011788 substrate binding site [chemical binding]; other site 316385011789 homodimer interface [polypeptide binding]; other site 316385011790 active site 316385011791 G1P_TT_short is the short form of glucose-1-phosphate thymidylyltransferase; Region: G1P_TT_short; cd02538 316385011792 glucose-1-phosphate thymidylyltransferase, short form; Region: rmlA; TIGR01207 316385011793 substrate binding site; other site 316385011794 tetramer interface; other site 316385011795 TDP-fucosamine acetyltransferase; Provisional; Region: PRK10975 316385011796 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 316385011797 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 316385011798 inhibitor-cofactor binding pocket; inhibition site 316385011799 pyridoxal 5'-phosphate binding site [chemical binding]; other site 316385011800 catalytic residue [active] 316385011801 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 316385011802 Uncharacterized subfamily of the multidrug and toxic compound extrusion (MATE) proteins; Region: MATE_like_10; cd13125 316385011803 4-alpha-L-fucosyltransferase glycosyl transferase group 56; Region: Glyco_transf_56; pfam07429 316385011804 putative common antigen polymerase; Provisional; Region: PRK02975 316385011805 Teichoic acid biosynthesis proteins [Cell envelope biogenesis, outer membrane]; Region: WecG; COG1922 316385011806 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 316385011807 putative transport protein YifK; Provisional; Region: PRK10746 316385011808 anaerobic sulfatase-maturating enzyme; Region: sulfatase_rSAM; TIGR03942 316385011809 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 316385011810 FeS/SAM binding site; other site 316385011811 radical SAM additional 4Fe4S-binding SPASM domain; Region: rSAM_more_4Fe4S; TIGR04085 316385011812 Arylsulfatase A and related enzymes [Inorganic ion transport and metabolism]; Region: AslA; COG3119 316385011813 Sulfatase; Region: Sulfatase; pfam00884 316385011814 putative protoheme IX biogenesis protein; Provisional; Region: PRK10747 316385011815 HemY protein N-terminus; Region: HemY_N; pfam07219 316385011816 uroporphyrinogen-III synthase; Reviewed; Region: hemD; PRK05928 316385011817 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 316385011818 active site 316385011819 porphobilinogen deaminase; Reviewed; Region: hemC; PRK00072 316385011820 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 316385011821 domain interfaces; other site 316385011822 active site 316385011823 Frataxin is a nuclear-encoded mitochondrial protein implicated in Friedreich's ataxia (FRDA), an human autosomal recessive neurodegenerative disease; Frataxin is found in eukaryotes and in purple bacteria; lack of frataxin causes iron to accumulate...; Region: Frataxin; cd00503 316385011824 putative iron binding site [ion binding]; other site 316385011825 hypothetical protein; Provisional; Region: PRK09807 316385011826 Predicted small periplasmic lipoprotein [Cell motility and secretion]; Region: COG5567 316385011827 diaminopimelate epimerase; Provisional; Region: dapF; PRK00450 316385011828 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 316385011829 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 316385011830 Site-specific recombinase XerC [DNA replication, recombination, and repair]; Region: XerC; COG4973 316385011831 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 316385011832 active site 316385011833 DNA binding site [nucleotide binding] 316385011834 Int/Topo IB signature motif; other site 316385011835 flavin mononucleotide phosphatase; Provisional; Region: PRK10748 316385011836 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 316385011837 motif II; other site 316385011838 DNA-dependent helicase II; Provisional; Region: uvrD; PRK11773 316385011839 Part of AAA domain; Region: AAA_19; pfam13245 316385011840 Family description; Region: UvrD_C_2; pfam13538 316385011841 Predicted periplasmic protein [Function unknown]; Region: COG3698 316385011842 Predicted periplasmic protein (DUF2233); Region: DUF2233; pfam09992 316385011843 Mg2+ and Co2+ transporters [Inorganic ion transport and metabolism]; Region: CorA; COG0598 316385011844 Escherichia coli Mg2+ transporter CorA_like subgroup; Region: EcCorA-like_1; cd12835 316385011845 Cl binding site [ion binding]; other site 316385011846 oligomer interface [polypeptide binding]; other site 316385011847 Protein of unknown function (DUF2628); Region: DUF2628; pfam10947 316385011848 hypothetical protein; Provisional; Region: PRK11371 316385011849 putative chloramphenical resistance permease RarD; Provisional; Region: PRK15430 316385011850 EamA-like transporter family; Region: EamA; cl17759 316385011851 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 316385011852 CoenzymeA binding site [chemical binding]; other site 316385011853 subunit interaction site [polypeptide binding]; other site 316385011854 PHB binding site; other site 316385011855 The outer membrane phospholipase A (OMPLA) is an integral membrane enzyme that catalyses the hydrolysis of acylester bonds in phospholipids using calcium as a cofactor. The enzyme has a fold of transmembrane beta-barrels and is widespread among...; Region: OMPLA; cd00541 316385011856 dimerization interface [polypeptide binding]; other site 316385011857 substrate binding site [chemical binding]; other site 316385011858 active site 316385011859 calcium binding site [ion binding]; other site 316385011860 ATP-dependent DNA helicase RecQ; Provisional; Region: PRK11057 316385011861 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 316385011862 ATP binding site [chemical binding]; other site 316385011863 putative Mg++ binding site [ion binding]; other site 316385011864 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 316385011865 nucleotide binding region [chemical binding]; other site 316385011866 ATP-binding site [chemical binding]; other site 316385011867 This DNA-binding domain is found in the RecQ helicase among others and has a helix-turn-helix structure; Region: RQC; smart00956 316385011868 Helicase and RNase D C-terminal; Region: HRDC; smart00341 316385011869 threonine efflux system; Provisional; Region: PRK10229 316385011870 homoserine/homoserine lactone efflux protein; Provisional; Region: rhtB; PRK10520 316385011871 lysophospholipase L2; Provisional; Region: PRK10749 316385011872 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 316385011873 putative hydrolase; Provisional; Region: PRK10976 316385011874 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 316385011875 active site 316385011876 motif I; other site 316385011877 motif II; other site 316385011878 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 316385011879 DNA-binding transcriptional regulator MetR; Provisional; Region: PRK15421 316385011880 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 316385011881 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 316385011882 putative dimerization interface [polypeptide binding]; other site 316385011883 5-methyltetrahydropteroyltriglutamate--homocysteine S-methyltransferase; Provisional; Region: PRK05222 316385011884 CIMS - Cobalamine-independent methonine synthase, or MetE, N-terminal domain_like. Many members have been characterized as 5-methyltetrahydropteroyltriglutamate-homocysteine methyltransferases, EC:2.1.1.14, mostly from bacteria and plants. This enzyme...; Region: CIMS_N_terminal_like; cd03312 316385011885 THF binding site; other site 316385011886 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 316385011887 substrate binding site [chemical binding]; other site 316385011888 THF binding site; other site 316385011889 zinc-binding site [ion binding]; other site 316385011890 Dienelactone hydrolase and related enzymes [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG0412 316385011891 BAAT / Acyl-CoA thioester hydrolase C terminal; Region: BAAT_C; pfam08840 316385011892 uridine phosphorylase; Provisional; Region: PRK11178 316385011893 uridine phosphorylase; Region: Uridine-psphlse; TIGR01718 316385011894 DNA recombination protein RmuC; Provisional; Region: PRK10361 316385011895 RmuC family; Region: RmuC; pfam02646 316385011896 ubiE/COQ5 methyltransferase family; Region: Ubie_methyltran; pfam01209 316385011897 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 316385011898 S-adenosylmethionine binding site [chemical binding]; other site 316385011899 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3165 316385011900 SCP-2 sterol transfer family; Region: SCP2; pfam02036 316385011901 putative ubiquinone biosynthesis protein UbiB; Reviewed; Region: ubiB; PRK04750 316385011902 2-polyprenylphenol 6-hydroxylase; Region: UbiB; TIGR01982 316385011903 twin arginine translocase protein A; Provisional; Region: tatA; PRK03554 316385011904 twin arginine translocase protein A; Provisional; Region: tatA; PRK00575 316385011905 sec-independent translocase; Provisional; Region: PRK01770 316385011906 sec-independent translocase; Provisional; Region: tatB; PRK00404 316385011907 twin-arginine protein translocation system subunit TatC; Provisional; Region: PRK10921 316385011908 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 316385011909 active site 316385011910 transcriptional activator RfaH; Provisional; Region: rfaH; PRK09014 316385011911 N-Utilization Substance G (NusG) N-terminal domain in the NusG Specialized Paralog (SP), RfaH; Region: NGN_SP_RfaH; cd09892 316385011912 KOW: an acronym for the authors' surnames (Kyrpides, Ouzounis and Woese); Region: KOW; cl00354 316385011913 3-octaprenyl-4-hydroxybenzoate decarboxylase; Provisional; Region: PRK10922 316385011914 FMN reductase; Validated; Region: fre; PRK08051 316385011915 NAD(P)H dependent flavin oxidoreductases use flavin as a substrate in mediating electron transfer from iron complexes or iron proteins. Structurally similar to ferredoxin reductases, but with only 15% sequence identity, flavin reductases reduce FAD, FMN; Region: flavin_oxioreductase; cd06189 316385011916 FAD binding pocket [chemical binding]; other site 316385011917 FAD binding motif [chemical binding]; other site 316385011918 phosphate binding motif [ion binding]; other site 316385011919 beta-alpha-beta structure motif; other site 316385011920 NAD binding pocket [chemical binding]; other site 316385011921 3-ketoacyl-CoA thiolase; Reviewed; Region: fadA; PRK08947 316385011922 Thiolase are ubiquitous enzymes that catalyze the reversible thiolytic cleavage of 3-ketoacyl-CoA into acyl-CoA and acetyl-CoA, a 2-step reaction involving a covalent intermediate formed with a catalytic cysteine. They are found in prokaryotes and...; Region: thiolase; cd00751 316385011923 dimer interface [polypeptide binding]; other site 316385011924 active site 316385011925 multifunctional fatty acid oxidation complex subunit alpha; Reviewed; Region: fadB; PRK11730 316385011926 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 316385011927 substrate binding site [chemical binding]; other site 316385011928 oxyanion hole (OAH) forming residues; other site 316385011929 trimer interface [polypeptide binding]; other site 316385011930 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 316385011931 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 316385011932 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 316385011933 proline dipeptidase; Provisional; Region: PRK13607 316385011934 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 316385011935 active site 316385011936 hypothetical protein; Provisional; Region: PRK11568 316385011937 Uncharacterized protein family UPF0029; Region: UPF0029; pfam01205 316385011938 Domain of unknown function (DUF1949); Region: DUF1949; pfam09186 316385011939 potassium transporter; Provisional; Region: PRK10750 316385011940 potassium uptake protein, TrkH family; Region: 2a38; TIGR00933 316385011941 protoporphyrinogen oxidase; Provisional; Region: hemG; PRK11104 316385011942 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 316385011943 Walker A motif; other site 316385011944 molybdopterin-guanine dinucleotide biosynthesis protein MobA; Reviewed; Region: mobA; PRK00317 316385011945 MobA catalyzes the formation of molybdopterin guanine dinucleotide; Region: MobA; cd02503 316385011946 GTP binding site; other site 316385011947 Protein of unknown function (DUF1040); Region: DUF1040; pfam06288 316385011948 Putative homoserine kinase type II (protein kinase fold) [General function prediction only]; Region: COG2334 316385011949 serine/threonine protein kinase; Provisional; Region: PRK11768 316385011950 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 316385011951 DSBA-like thioredoxin domain; Region: DSBA; pfam01323 316385011952 catalytic residues [active] 316385011953 hinge region; other site 316385011954 alpha helical domain; other site 316385011955 hypothetical protein; Provisional; Region: PRK11367 316385011956 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5339 316385011957 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 316385011958 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LCLAT1-like; Region: LPLAT_LCLAT1-like; cd07990 316385011959 putative acyl-acceptor binding pocket; other site 316385011960 DNA polymerase I; Provisional; Region: PRK05755 316385011961 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 316385011962 active site 316385011963 metal binding site 1 [ion binding]; metal-binding site 316385011964 putative 5' ssDNA interaction site; other site 316385011965 metal binding site 3; metal-binding site 316385011966 metal binding site 2 [ion binding]; metal-binding site 316385011967 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 316385011968 putative DNA binding site [nucleotide binding]; other site 316385011969 putative metal binding site [ion binding]; other site 316385011970 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 316385011971 active site 316385011972 catalytic site [active] 316385011973 substrate binding site [chemical binding]; other site 316385011974 Polymerase I functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication; Region: DNA_pol_A_pol_I_C; cd08637 316385011975 active site 316385011976 DNA binding site [nucleotide binding] 316385011977 catalytic site [active] 316385011978 YihA (EngB) GTPase family; Region: YihA_EngB; cd01876 316385011979 G1 box; other site 316385011980 GTP/Mg2+ binding site [chemical binding]; other site 316385011981 Switch I region; other site 316385011982 G2 box; other site 316385011983 G3 box; other site 316385011984 Switch II region; other site 316385011985 G4 box; other site 316385011986 G5 box; other site 316385011987 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3078 316385011988 coproporphyrinogen III oxidase; Provisional; Region: PRK09249 316385011989 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 316385011990 FeS/SAM binding site; other site 316385011991 HemN C-terminal domain; Region: HemN_C; pfam06969 316385011992 nitrogen regulation protein NR(I); Provisional; Region: glnG; PRK10923 316385011993 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 316385011994 active site 316385011995 phosphorylation site [posttranslational modification] 316385011996 intermolecular recognition site; other site 316385011997 dimerization interface [polypeptide binding]; other site 316385011998 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 316385011999 Walker A motif; other site 316385012000 ATP binding site [chemical binding]; other site 316385012001 Walker B motif; other site 316385012002 arginine finger; other site 316385012003 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 316385012004 nitrogen regulation protein NR(II); Provisional; Region: glnL; PRK11073 316385012005 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 316385012006 putative active site [active] 316385012007 heme pocket [chemical binding]; other site 316385012008 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 316385012009 dimer interface [polypeptide binding]; other site 316385012010 phosphorylation site [posttranslational modification] 316385012011 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 316385012012 ATP binding site [chemical binding]; other site 316385012013 Mg2+ binding site [ion binding]; other site 316385012014 G-X-G motif; other site 316385012015 glutamine synthetase; Provisional; Region: glnA; PRK09469 316385012016 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 316385012017 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 316385012018 Predicted membrane GTPase involved in stress response [Signal transduction mechanisms]; Region: TypA; COG1217 316385012019 Tyrosine phosphorylated protein A (TypA)/BipA family belongs to ribosome-binding GTPases; Region: TypA_BipA; cd01891 316385012020 G1 box; other site 316385012021 putative GEF interaction site [polypeptide binding]; other site 316385012022 GTP/Mg2+ binding site [chemical binding]; other site 316385012023 Switch I region; other site 316385012024 G2 box; other site 316385012025 G3 box; other site 316385012026 Switch II region; other site 316385012027 G4 box; other site 316385012028 G5 box; other site 316385012029 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 316385012030 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 316385012031 transcriptional regulator protein; Region: phnR; TIGR03337 316385012032 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 316385012033 DNA-binding site [nucleotide binding]; DNA binding site 316385012034 UTRA domain; Region: UTRA; pfam07702 316385012035 Xylose isomerase-like TIM barrel; Region: AP_endonuc_2; pfam01261 316385012036 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 316385012037 putative substrate translocation pore; other site 316385012038 phosphoglycerate transporter family protein; Region: 2A0104; TIGR00881 316385012039 outer membrane porin L; Provisional; Region: ompL; PRK09980 316385012040 sugar (Glycoside-Pentoside-Hexuronide) transporter; Region: gph; TIGR00792 316385012041 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 316385012042 melibiose:sodium symporter; Provisional; Region: PRK10429; cl15392 316385012043 sugar (Glycoside-Pentoside-Hexuronide) transporter; Region: gph; TIGR00792 316385012044 alpha-glucosidase; Provisional; Region: PRK10426 316385012045 Galactose mutarotase-like; Region: Gal_mutarotas_2; pfam13802 316385012046 YihQ is a bacterial alpha-glucosidase with a conserved glycosyl hydrolase family 31 (GH31) domain that catalyzes the release of an alpha-glucosyl residue from the non-reducing end of alpha-glucoside substrates such as alpha-glucosyl fluoride. Orthologs...; Region: GH31_glucosidase_YihQ; cd06594 316385012047 putative active site [active] 316385012048 putative catalytic site [active] 316385012049 Aldose 1-epimerase, similar to Escherichia coli YihR; Region: Aldose_epim_Ec_YihR; cd09022 316385012050 active site 316385012051 catalytic residues [active] 316385012052 AGE domain; N-acyl-D-glucosamine 2-epimerase domain; Responsible for intermediate epimerization during biosynthesis of N-acetylneuraminic acid. Catalytic mechanism is believed to be via nucleotide elimination and readdition and is ATP modulated. AGE is...; Region: AGE; cd00249 316385012053 dimerization interface [polypeptide binding]; other site 316385012054 putative active cleft [active] 316385012055 Tagatose-1,6-bisphosphate aldolase [Carbohydrate transport and metabolism]; Region: LacD; COG3684 316385012056 catalytic residue [active] 316385012057 NADH-dependent gamma-hydroxybutyrate dehydrogenase; Provisional; Region: PRK15461 316385012058 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 316385012059 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 316385012060 Ribokinase-like subgroup B. Found in bacteria and plants, this subgroup is part of the ribokinase/pfkB superfamily. Its oligomerization state is unknown at this time; Region: ribokinase_group_B; cd01945 316385012061 substrate binding site [chemical binding]; other site 316385012062 ATP binding site [chemical binding]; other site 316385012063 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 316385012064 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 316385012065 putative DNA binding site [nucleotide binding]; other site 316385012066 putative Zn2+ binding site [ion binding]; other site 316385012067 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 316385012068 haloacid dehalogenase superfamily, subfamily IA, variant 3 with third motif having DD or ED; Region: HAD-SF-IA-v3; TIGR01509 316385012069 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 316385012070 motif II; other site 316385012071 hypothetical protein; Reviewed; Region: PRK01637 316385012072 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 316385012073 putative active site [active] 316385012074 dimerization interface [polypeptide binding]; other site 316385012075 putative tRNAtyr binding site [nucleotide binding]; other site 316385012076 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 316385012077 Coenzyme A binding pocket [chemical binding]; other site 316385012078 Putative thioesterase (yiiD_Cterm); Region: YiiD_Cterm; pfam09500 316385012079 Ribbon-helix-helix protein, copG family; Region: RHH_1; pfam01402 316385012080 formate dehydrogenase accessory protein FdhE; Provisional; Region: PRK03564 316385012081 formate dehydrogenase accessory protein FdhE; Region: FdhE; TIGR01562 316385012082 formate dehydrogenase-O subunit gamma; Provisional; Region: PRK10639 316385012083 formate dehydrogenase, gamma subunit; Region: formate-DH-gamm; TIGR01583 316385012084 formate dehydrogenase, beta subunit, Fe-S containing; Region: FDH-beta; TIGR01582 316385012085 Formate dehydrogenase N, transmembrane; Region: Form-deh_trans; pfam09163 316385012086 formate dehydrogenase, alpha subunit, proteobacterial-type; Region: formate-DH-alph; TIGR01553 316385012087 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 316385012088 [4Fe-4S] binding site [ion binding]; other site 316385012089 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 316385012090 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 316385012091 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 316385012092 molybdopterin cofactor binding site; other site 316385012093 formate dehydrogenase accessory protein; Reviewed; Region: PRK00724 316385012094 Protein of unknown function (DUF3829); Region: DUF3829; pfam12889 316385012095 putative frv operon regulatory protein; Provisional; Region: PRK09863 316385012096 HTH domain; Region: HTH_11; pfam08279 316385012097 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 316385012098 active site 316385012099 phosphorylation site [posttranslational modification] 316385012100 putative peptidase; Provisional; Region: PRK09864 316385012101 M42 Peptidase, Endoglucanases; Region: M42_Frv; cd05656 316385012102 oligomer interface [polypeptide binding]; other site 316385012103 active site 316385012104 metal binding site [ion binding]; metal-binding site 316385012105 putative PTS system transporter subunits IIBC; Provisional; Region: PRK11404 316385012106 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 316385012107 active site 316385012108 P-loop; other site 316385012109 phosphorylation site [posttranslational modification] 316385012110 Phosphotransferase system, fructose-specific IIC component [Carbohydrate transport and metabolism]; Region: FruA; COG1299 316385012111 L-rhamnose 1-epimerase; Region: YiiL_rotase; TIGR02625 316385012112 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 316385012113 intersubunit interface [polypeptide binding]; other site 316385012114 active site 316385012115 Zn2+ binding site [ion binding]; other site 316385012116 L-rhamnose isomerase; Provisional; Region: PRK01076 316385012117 Predicted sugar isomerase [Cell envelope biogenesis, outer membrane]; Region: COG4952; cl17900 316385012118 L-rhamnulose kinases; a subfamily of the FGGY family of carbohydrate kinases; Region: FGGY_RhuK; cd07771 316385012119 N- and C-terminal domain interface [polypeptide binding]; other site 316385012120 active site 316385012121 putative catalytic site [active] 316385012122 metal binding site [ion binding]; metal-binding site 316385012123 ATP binding site [chemical binding]; other site 316385012124 rhamnulokinase; Provisional; Region: rhaB; PRK10640 316385012125 carbohydrate binding site [chemical binding]; other site 316385012126 transcriptional activator RhaS; Provisional; Region: PRK13503 316385012127 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 316385012128 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 316385012129 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 316385012130 transcriptional activator RhaR; Provisional; Region: PRK13500 316385012131 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 316385012132 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 316385012133 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 316385012134 L-rhamnose-proton symport protein (RhaT); Region: RhaT; cl05728 316385012135 RhaT L-rhamnose-proton symporter family protein; Region: RhaT; TIGR00776 316385012136 superoxide dismutase; Provisional; Region: PRK10925 316385012137 Iron/manganese superoxide dismutases, alpha-hairpin domain; Region: Sod_Fe_N; pfam00081 316385012138 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 316385012139 2-keto-3-deoxygluconate transporter; Region: kdgT; TIGR00793 316385012140 6-N-hydroxylaminopurine resistance protein; Provisional; Region: PRK11536 316385012141 MOSC domain; Region: MOSC; pfam03473 316385012142 3-alpha domain; Region: 3-alpha; pfam03475 316385012143 two-component sensor protein; Provisional; Region: cpxA; PRK09470 316385012144 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 316385012145 dimerization interface [polypeptide binding]; other site 316385012146 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 316385012147 dimer interface [polypeptide binding]; other site 316385012148 phosphorylation site [posttranslational modification] 316385012149 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 316385012150 ATP binding site [chemical binding]; other site 316385012151 Mg2+ binding site [ion binding]; other site 316385012152 G-X-G motif; other site 316385012153 DNA-binding transcriptional regulator CpxR; Provisional; Region: PRK10955 316385012154 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 316385012155 active site 316385012156 intermolecular recognition site; other site 316385012157 dimerization interface [polypeptide binding]; other site 316385012158 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 316385012159 DNA binding site [nucleotide binding] 316385012160 CpxP component of the bacterial Cpx-two-component system and related proteins; Region: CpxP_like; cd09916 316385012161 dimer interface [polypeptide binding]; other site 316385012162 ferrous iron efflux protein F; Reviewed; Region: fieF; PRK09509 316385012163 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 316385012164 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 316385012165 6-phosphofructokinase; Region: PFKA_ATP; TIGR02482 316385012166 active site 316385012167 ADP/pyrophosphate binding site [chemical binding]; other site 316385012168 dimerization interface [polypeptide binding]; other site 316385012169 allosteric effector site; other site 316385012170 fructose-1,6-bisphosphate binding site; other site 316385012171 sulfate transporter subunit; Provisional; Region: PRK10752 316385012172 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 316385012173 CDP-diacylglycerol pyrophosphatase, bacterial type; Region: cdh; TIGR00672 316385012174 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 316385012175 triosephosphate isomerase; Provisional; Region: PRK14567 316385012176 substrate binding site [chemical binding]; other site 316385012177 dimer interface [polypeptide binding]; other site 316385012178 catalytic triad [active] 316385012179 Protein of unknown function (DUF1454); Region: DUF1454; pfam07305 316385012180 Predicted membrane protein [Function unknown]; Region: COG3152 316385012181 hypothetical protein; Provisional; Region: PRK09981 316385012182 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 316385012183 Ligand Binding Site [chemical binding]; other site 316385012184 ferredoxin-NADP reductase; Provisional; Region: PRK10926 316385012185 Ferredoxin-NADP+ (oxido)reductase is an FAD-containing enzyme that catalyzes the reversible electron transfer between NADP(H) and electron carrier proteins such as ferredoxin and flavodoxin. Isoforms of these flavoproteins (i.e. having a non-covalently...; Region: FNR1; cd06195 316385012186 FAD binding pocket [chemical binding]; other site 316385012187 FAD binding motif [chemical binding]; other site 316385012188 phosphate binding motif [ion binding]; other site 316385012189 beta-alpha-beta structure motif; other site 316385012190 NAD binding pocket [chemical binding]; other site 316385012191 Bacterial fructose-1,6-bisphosphatase, glpX-encoded; Region: FBPase_glpX; pfam03320 316385012192 Bacterial fructose-1,6-bisphosphatase, glpX-encoded. A dimeric enzyme dependent on Mg(2+). glpX-encoded FPBase (FBPase class II) differs from other members of the inositol-phosphatase superfamily by permutation of secondary structure elements. The core...; Region: FBPase_glpX; cd01516 316385012193 putative active site [active] 316385012194 glycerol kinase; Provisional; Region: glpK; PRK00047 316385012195 Escherichia coli glycerol kinase-like proteins; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_EcGK_like; cd07786 316385012196 N- and C-terminal domain interface [polypeptide binding]; other site 316385012197 active site 316385012198 MgATP binding site [chemical binding]; other site 316385012199 catalytic site [active] 316385012200 metal binding site [ion binding]; metal-binding site 316385012201 glycerol binding site [chemical binding]; other site 316385012202 homotetramer interface [polypeptide binding]; other site 316385012203 homodimer interface [polypeptide binding]; other site 316385012204 FBP binding site [chemical binding]; other site 316385012205 protein IIAGlc interface [polypeptide binding]; other site 316385012206 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 316385012207 amphipathic channel; other site 316385012208 Asn-Pro-Ala signature motifs; other site 316385012209 septal ring assembly protein ZapB; Provisional; Region: PRK15422 316385012210 ribonuclease activity regulator protein RraA; Provisional; Region: PRK09372 316385012211 1,4-dihydroxy-2-naphthoate octaprenyltransferase; Region: menA; TIGR00751 316385012212 UbiA prenyltransferase family; Region: UbiA; pfam01040 316385012213 ATP-dependent protease ATP-binding subunit HslU; Provisional; Region: hslU; PRK05201 316385012214 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 316385012215 Walker A motif; other site 316385012216 ATP binding site [chemical binding]; other site 316385012217 AAA domain (Cdc48 subfamily); Region: AAA_2; pfam07724 316385012218 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 316385012219 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 316385012220 active site 316385012221 HslU subunit interaction site [polypeptide binding]; other site 316385012222 essential cell division protein FtsN; Provisional; Region: PRK10927 316385012223 cell division protein FtsN; Provisional; Region: PRK12757 316385012224 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 316385012225 DNA binding site [nucleotide binding] 316385012226 DNA-binding transcriptional regulator CytR; Provisional; Region: PRK11041 316385012227 domain linker motif; other site 316385012228 Ligand-binding domain of an uncharacterized transcription regulator from Actinobacillus succinogenes and its close homologs from other bacteria; Region: PBP1_LacI_like_6; cd06284 316385012229 dimerization interface [polypeptide binding]; other site 316385012230 ligand binding site [chemical binding]; other site 316385012231 primosome assembly protein PriA; Validated; Region: PRK05580 316385012232 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 316385012233 ATP binding site [chemical binding]; other site 316385012234 putative Mg++ binding site [ion binding]; other site 316385012235 helicase superfamily c-terminal domain; Region: HELICc; smart00490 316385012236 ATP-binding site [chemical binding]; other site 316385012237 50S ribosomal protein L31; Reviewed; Region: rpmE; PRK00019 316385012238 hypothetical protein; Provisional; Region: PRK10030 316385012239 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 316385012240 dimerization interface [polypeptide binding]; other site 316385012241 DNA binding site [nucleotide binding] 316385012242 corepressor binding sites; other site 316385012243 cystathionine gamma-synthase; Provisional; Region: PRK08045 316385012244 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 316385012245 homodimer interface [polypeptide binding]; other site 316385012246 substrate-cofactor binding pocket; other site 316385012247 pyridoxal 5'-phosphate binding site [chemical binding]; other site 316385012248 catalytic residue [active] 316385012249 bifunctional aspartate kinase II/homoserine dehydrogenase II; Provisional; Region: metL; PRK09466 316385012250 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 316385012251 putative catalytic residues [active] 316385012252 putative nucleotide binding site [chemical binding]; other site 316385012253 putative aspartate binding site [chemical binding]; other site 316385012254 ACT domains C-terminal to the catalytic domain of aspartokinase (AK; 4-L-aspartate-4-phosphotransferase); Region: ACT_AK-like_2; cd04892 316385012255 Homoserine dehydrogenase, NAD binding domain; Region: NAD_binding_3; pfam03447 316385012256 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 316385012257 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 316385012258 FAD binding site [chemical binding]; other site 316385012259 catalase/hydroperoxidase HPI(I); Provisional; Region: PRK15061 316385012260 Heme-dependent peroxidases similar to plant peroxidases; Region: plant_peroxidase_like; cl00196 316385012261 heme binding site [chemical binding]; other site 316385012262 C-terminal non-catalytic domain of catalase-peroxidases; Region: catalase_peroxidase_2; cd08200 316385012263 EamA-like transporter family; Region: EamA; pfam00892 316385012264 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 316385012265 EamA-like transporter family; Region: EamA; pfam00892 316385012266 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3738 316385012267 Glycerol dehydrogenase and related enzymes [Energy production and conversion]; Region: GldA; COG0371 316385012268 Glycerol dehydrogenases (GlyDH) catalyzes oxidation of glycerol to dihydroxyacetone in glycerol dissmilation; Region: GlyDH; cd08170 316385012269 dimer interface [polypeptide binding]; other site 316385012270 active site 316385012271 metal binding site [ion binding]; metal-binding site 316385012272 Transaldolase-like fructose-6-phosphate aldolases (FSA) found in bacteria and archaea; Region: Transaldolase_FSA; cd00956 316385012273 active site 316385012274 intersubunit interactions; other site 316385012275 catalytic residue [active] 316385012276 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 316385012277 dimerization domain swap beta strand [polypeptide binding]; other site 316385012278 regulatory protein interface [polypeptide binding]; other site 316385012279 active site 316385012280 regulatory phosphorylation site [posttranslational modification]; other site 316385012281 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 316385012282 Phosphoenolpyruvate-protein kinase (PTS system EI component in bacteria) [Carbohydrate transport and metabolism]; Region: PtsA; COG1080 316385012283 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 316385012284 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 316385012285 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 316385012286 active site 316385012287 phosphorylation site [posttranslational modification] 316385012288 putative PTS system fructose-like transporter subunit EIIC; Provisional; Region: PRK10478 316385012289 Phosphotransferase system, EIIC; Region: PTS_EIIC; pfam02378 316385012290 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 316385012291 active site 316385012292 P-loop; other site 316385012293 phosphorylation site [posttranslational modification] 316385012294 putative formate acetyltransferase 2; Provisional; Region: pflD; PRK09983 316385012295 Pyruvate formate lyase 2 and related enzymes; Region: PFL2_DhaB_BssA; cd01677 316385012296 dimer interface [polypeptide binding]; other site 316385012297 active site 316385012298 glycine loop; other site 316385012299 pyruvate formate lyase II activase; Provisional; Region: PRK10076 316385012300 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 316385012301 active site 316385012302 P-loop; other site 316385012303 phosphorylation site [posttranslational modification] 316385012304 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 316385012305 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 316385012306 hypothetical protein; Provisional; Region: PRK10649 316385012307 Domain of unknown function (DUF1705); Region: DUF1705; pfam08019 316385012308 Sulfatase; Region: Sulfatase; pfam00884 316385012309 phosphoenolpyruvate carboxylase; Reviewed; Region: PRK00009 316385012310 Phosphoenolpyruvate carboxylase [Energy production and conversion]; Region: Ppc; COG2352 316385012311 acetylornithine deacetylase; Provisional; Region: PRK05111 316385012312 M20 Peptidase acetylornithine deacetylase; Region: M20_ArgE; cd03894 316385012313 metal binding site [ion binding]; metal-binding site 316385012314 putative dimer interface [polypeptide binding]; other site 316385012315 N-acetyl-gamma-glutamyl-phosphate reductase; Validated; Region: argC; PRK00436 316385012316 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 316385012317 AAK_NAGK-NC: N-Acetyl-L-glutamate kinase - noncyclic (NAGK-NC) catalyzes the phosphorylation of the gamma-COOH group of N-acetyl-L-glutamate (NAG) by ATP in the second step of microbial arginine biosynthesis using the acetylated, noncyclic route of...; Region: AAK_NAGK-NC; cd04249 316385012318 nucleotide binding site [chemical binding]; other site 316385012319 N-acetyl-L-glutamate binding site [chemical binding]; other site 316385012320 argininosuccinate lyase; Provisional; Region: PRK04833 316385012321 Argininosuccinate lyase (argininosuccinase, ASAL); Region: Argininosuccinate_lyase; cd01359 316385012322 active sites [active] 316385012323 tetramer interface [polypeptide binding]; other site 316385012324 DNA-binding transcriptional regulator OxyR; Provisional; Region: PRK11151 316385012325 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 316385012326 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 316385012327 dimerization interface [polypeptide binding]; other site 316385012328 soluble pyridine nucleotide transhydrogenase; Provisional; Region: PRK05249 316385012329 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 316385012330 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 316385012331 DNA-binding transcriptional repressor FabR; Provisional; Region: PRK11202 316385012332 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 316385012333 hypothetical protein; Provisional; Region: PRK11056 316385012334 tRNA (uracil-5-)-methyltransferase; Validated; Region: PRK05031 316385012335 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 316385012336 S-adenosylmethionine binding site [chemical binding]; other site 316385012337 vitamin B12/cobalamin outer membrane transporter; Provisional; Region: btuB; PRK10641 316385012338 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 316385012339 N-terminal plug; other site 316385012340 ligand-binding site [chemical binding]; other site 316385012341 glutamate racemase; Provisional; Region: PRK00865 316385012342 UDP-N-acetylenolpyruvoylglucosamine reductase; Provisional; Region: murB; PRK00046 316385012343 FAD binding domain; Region: FAD_binding_4; pfam01565 316385012344 UDP-N-acetylenolpyruvoylglucosamine reductase, C-terminal domain; Region: MurB_C; pfam02873 316385012345 Biotin operon repressor [Transcription]; Region: BirA; COG1654 316385012346 bifunctional biotin--[acetyl-CoA-carboxylase] synthetase/biotin operon repressor; Provisional; Region: PRK11886 316385012347 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; pfam03099 316385012348 Biotin protein ligase C terminal domain; Region: BPL_C; pfam02237 316385012349 pantothenate kinase; Provisional; Region: PRK05439 316385012350 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 316385012351 ATP-binding site [chemical binding]; other site 316385012352 CoA-binding site [chemical binding]; other site 316385012353 Mg2+-binding site [ion binding]; other site 316385012354 elongation factor Tu; Reviewed; Region: PRK00049 316385012355 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 316385012356 G1 box; other site 316385012357 GEF interaction site [polypeptide binding]; other site 316385012358 GTP/Mg2+ binding site [chemical binding]; other site 316385012359 Switch I region; other site 316385012360 G2 box; other site 316385012361 G3 box; other site 316385012362 Switch II region; other site 316385012363 G4 box; other site 316385012364 G5 box; other site 316385012365 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 316385012366 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 316385012367 Antibiotic Binding Site [chemical binding]; other site 316385012368 preprotein translocase subunit SecE; Reviewed; Region: secE; PRK05740 316385012369 transcription antitermination protein NusG; Validated; Region: nusG; PRK05609 316385012370 Bacterial N-Utilization Substance G (NusG) N-terminal (NGN) domain, subgroup 1; Region: NGN_Bact_1; cd09891 316385012371 putative homodimer interface [polypeptide binding]; other site 316385012372 NusG contains an NGN domain at its N-terminus and KOW motif at its C-terminus; Region: KOW_NusG; cd06091 316385012373 heterodimer interface [polypeptide binding]; other site 316385012374 homodimer interface [polypeptide binding]; other site 316385012375 50S ribosomal protein L11; Validated; Region: rplK; PRK00140 316385012376 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 316385012377 23S rRNA interface [nucleotide binding]; other site 316385012378 L7/L12 interface [polypeptide binding]; other site 316385012379 putative thiostrepton binding site; other site 316385012380 L25 interface [polypeptide binding]; other site 316385012381 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 316385012382 mRNA/rRNA interface [nucleotide binding]; other site 316385012383 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 316385012384 23S rRNA interface [nucleotide binding]; other site 316385012385 Interface with L7/L12 ribosomal proteins [polypeptide binding]; other site 316385012386 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 316385012387 core dimer interface [polypeptide binding]; other site 316385012388 peripheral dimer interface [polypeptide binding]; other site 316385012389 L10 interface [polypeptide binding]; other site 316385012390 L11 interface [polypeptide binding]; other site 316385012391 putative EF-Tu interaction site [polypeptide binding]; other site 316385012392 putative EF-G interaction site [polypeptide binding]; other site 316385012393 DNA-directed RNA polymerase subunit beta; Reviewed; Region: rpoB; PRK00405 316385012394 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 316385012395 RNA polymerase Rpb2, domain 2; Region: RNA_pol_Rpb2_2; pfam04561 316385012396 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 316385012397 RNA polymerase Rpb2, domain 6; Region: RNA_pol_Rpb2_6; pfam00562 316385012398 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 316385012399 RPB3 interaction site [polypeptide binding]; other site 316385012400 RPB1 interaction site [polypeptide binding]; other site 316385012401 RPB11 interaction site [polypeptide binding]; other site 316385012402 RPB10 interaction site [polypeptide binding]; other site 316385012403 RNA polymerase Rpb1, domain 1; Region: RNA_pol_Rpb1_1; pfam04997 316385012404 DNA-directed RNA polymerase, beta' subunit/160 kD subunit [Transcription]; Region: RpoC; COG0086 316385012405 RNA polymerase I subunit A N-terminus; Region: RPOLA_N; smart00663 316385012406 RNA polymerase Rpb1, domain 3; Region: RNA_pol_Rpb1_3; pfam04983 316385012407 RNA polymerase Rpb1, domain 4; Region: RNA_pol_Rpb1_4; pfam05000 316385012408 RNA polymerase Rpb1, domain 5; Region: RNA_pol_Rpb1_5; pfam04998 316385012409 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 316385012410 Rpb1 - Rpb6 interaction site [polypeptide binding]; other site 316385012411 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 316385012412 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 316385012413 DNA binding site [nucleotide binding] 316385012414 Rpb1 (beta') - Rpb2 (beta) interaction site [polypeptide binding]; other site 316385012415 stationary phase growth adaptation protein; Provisional; Region: PRK09717 316385012416 thiamine biosynthesis protein ThiH; Reviewed; Region: thiH; PRK09240 316385012417 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 316385012418 FeS/SAM binding site; other site 316385012419 Biotin and Thiamin Synthesis associated domain; Region: BATS; pfam06968 316385012420 Thiazole synthase (ThiG) is the tetrameric enzyme that is involved in the formation of the thiazole moiety of thiamin pyrophosphate, an essential ubiquitous cofactor that plays an important role in carbohydrate and amino acid metabolism. ThiG catalyzes...; Region: ThiG; cd04728 316385012421 ThiS interaction site; other site 316385012422 putative active site [active] 316385012423 tetramer interface [polypeptide binding]; other site 316385012424 ThiaminS ubiquitin-like sulfur carrier protein; Region: ThiS; cd00565 316385012425 thiS-thiF/thiG interaction site; other site 316385012426 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 316385012427 thiazole biosynthesis adenylyltransferase ThiF, E. coli subfamily; Region: adenyl_thiF; TIGR02356 316385012428 ATP binding site [chemical binding]; other site 316385012429 substrate interface [chemical binding]; other site 316385012430 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 316385012431 thiamine phosphate binding site [chemical binding]; other site 316385012432 active site 316385012433 pyrophosphate binding site [ion binding]; other site 316385012434 thiamine biosynthesis protein ThiC; Provisional; Region: PRK09284 316385012435 ThiC-associated domain; Region: ThiC-associated; pfam13667 316385012436 Thiamine biosynthesis protein ThiC [Coenzyme metabolism]; Region: ThiC; COG0422 316385012437 Regulator of sigma D [Transcription]; Region: Rsd; COG3160 316385012438 NADH pyrophosphatase; Reviewed; Region: nudC; PRK00241 316385012439 NADH pyrophosphatase-like rudimentary NUDIX domain; Region: NUDIX-like; pfam09296 316385012440 NADH pyrophosphatase zinc ribbon domain; Region: zf-NADH-PPase; pfam09297 316385012441 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 316385012442 putative NADH binding site [chemical binding]; other site 316385012443 putative active site [active] 316385012444 nudix motif; other site 316385012445 putative metal binding site [ion binding]; other site 316385012446 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 316385012447 substrate binding site [chemical binding]; other site 316385012448 active site 316385012449 Endonuclease_V, a DNA repair enzyme that initiates repair of nitrosative deaminated purine bases; Region: Endonuclease_V; cd06559 316385012450 Active_site [active] 316385012451 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3068 316385012452 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 316385012453 IHF dimer interface [polypeptide binding]; other site 316385012454 IHF - DNA interface [nucleotide binding]; other site 316385012455 Protein of unknown function (DUF1481); Region: DUF1481; pfam07356 316385012456 zinc resistance protein; Provisional; Region: zraP; PRK11546 316385012457 dimer interface [polypeptide binding]; other site 316385012458 sensor protein ZraS; Provisional; Region: PRK10364 316385012459 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 316385012460 dimer interface [polypeptide binding]; other site 316385012461 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 316385012462 ATP binding site [chemical binding]; other site 316385012463 Mg2+ binding site [ion binding]; other site 316385012464 G-X-G motif; other site 316385012465 transcriptional regulatory protein ZraR; Provisional; Region: PRK10365 316385012466 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 316385012467 active site 316385012468 phosphorylation site [posttranslational modification] 316385012469 intermolecular recognition site; other site 316385012470 dimerization interface [polypeptide binding]; other site 316385012471 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 316385012472 Walker A motif; other site 316385012473 ATP binding site [chemical binding]; other site 316385012474 Walker B motif; other site 316385012475 arginine finger; other site 316385012476 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 316385012477 phosphoribosylamine--glycine ligase; Provisional; Region: PRK00885 316385012478 Phosphoribosylglycinamide synthetase, N domain; Region: GARS_N; pfam02844 316385012479 Phosphoribosylglycinamide synthetase, ATP-grasp (A) domain; Region: GARS_A; pfam01071 316385012480 Phosphoribosylglycinamide synthetase, C domain; Region: GARS_C; pfam02843 316385012481 bifunctional phosphoribosylaminoimidazolecarboxamide formyltransferase/IMP cyclohydrolase; Provisional; Region: purH; PRK00881 316385012482 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 316385012483 purine monophosphate binding site [chemical binding]; other site 316385012484 dimer interface [polypeptide binding]; other site 316385012485 putative catalytic residues [active] 316385012486 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; smart00798 316385012487 hypothetical protein; Provisional; Region: PRK10039 316385012488 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 316385012489 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 316385012490 Coenzyme A binding pocket [chemical binding]; other site 316385012491 homoserine O-succinyltransferase; Provisional; Region: PRK05368 316385012492 Type 1 glutamine amidotransferase (GATase1)-like domain found in homoserine trans-succinylase (HTS); Region: GATase1_HTS; cd03131 316385012493 proposed active site lysine [active] 316385012494 conserved cys residue [active] 316385012495 Malate synthase A (MSA), present in some bacteria, plants and fungi. Prokaryotic MSAs tend to be monomeric, whereas eukaryotic enzymes are homomultimers. In general, malate synthase catalyzes the Claisen condensation of glyoxylate and acetyl-CoA to...; Region: malate_synt_A; cd00727 316385012496 malate synthase A; Region: malate_syn_A; TIGR01344 316385012497 active site 316385012498 isocitrate lyase; Provisional; Region: PRK15063 316385012499 Members of the ICL/PEPM enzyme family catalyze either P-C or C-C bond formation/cleavage. Known members are phosphoenolpyruvate mutase (PEPM), phosphonopyruvate hydrolase (PPH), carboxyPEP mutase (CPEP mutase), oxaloacetate hydrolase (OAH), isocitrate...; Region: ICL_PEPM; cd00377 316385012500 tetramer interface [polypeptide binding]; other site 316385012501 active site 316385012502 Mg2+/Mn2+ binding site [ion binding]; other site 316385012503 Isocitrate dehydrogenase kinase/phosphatase [Signal transduction mechanisms]; Region: COG4579 316385012504 bifunctional isocitrate dehydrogenase kinase/phosphatase protein; Validated; Region: aceK; PRK02946 316385012505 ShET2 enterotoxin, N-terminal region; Region: Toxin_15; pfam07906 316385012506 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 316385012507 transcriptional repressor IclR; Provisional; Region: PRK11569 316385012508 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 316385012509 Bacterial transcriptional regulator; Region: IclR; pfam01614 316385012510 B12-dependent methionine synthase; Provisional; Region: metH; PRK09490 316385012511 Methionine synthase I (cobalamin-dependent), methyltransferase domain [Amino acid transport and metabolism]; Region: MetH; COG0646 316385012512 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 316385012513 substrate binding pocket [chemical binding]; other site 316385012514 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 316385012515 B12 binding site [chemical binding]; other site 316385012516 cobalt ligand [ion binding]; other site 316385012517 Vitamin B12 dependent methionine synthase, activation domain; Region: Met_synt_B12; pfam02965 316385012518 Na+/phosphate symporter [Inorganic ion transport and metabolism]; Region: NptA; COG1283 316385012519 Na+/Pi-cotransporter; Region: Na_Pi_cotrans; pfam02690 316385012520 Na+/Pi-cotransporter; Region: Na_Pi_cotrans; pfam02690 316385012521 Type 1 glutamine amidotransferase (GATase1)-like domain found in peptidase E; Region: GAT1_Peptidase_E; cd03146 316385012522 active site pocket [active] 316385012523 oxyanion hole [active] 316385012524 catalytic triad [active] 316385012525 active site nucleophile [active] 316385012526 23S rRNA pseudouridine synthase F; Provisional; Region: PRK10475 316385012527 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 316385012528 RNA binding surface [nucleotide binding]; other site 316385012529 Pseudouridine synthase, Escherichia coli RluF like; Region: PseudoU_synth_RluF; cd02554 316385012530 probable active site [active] 316385012531 hypothetical protein; Provisional; Region: PRK10515 316385012532 aspartate kinase III; Validated; Region: PRK09084 316385012533 AAK_AKiii-LysC-EC: Amino Acid Kinase Superfamily (AAK), AKiii-LysC-EC: this CD includes the N-terminal catalytic aspartokinase (AK) domain of the lysine-sensitive aspartokinase isoenzyme AKIII. AKIII is a monofunctional class enzyme (LysC) found in some...; Region: AAK_AKiii-LysC-EC; cd04258 316385012534 nucleotide binding site [chemical binding]; other site 316385012535 putative catalytic residues [active] 316385012536 aspartate binding site [chemical binding]; other site 316385012537 ACT domains located C-terminal to the catalytic domain of the lysine-sensitive aspartokinase isoenzyme AKIII; Region: ACT_AKiii-LysC-EC_1; cd04932 316385012538 lysine allosteric regulatory site; other site 316385012539 dimer interface [polypeptide binding]; other site 316385012540 ACT domains located C-terminal to the catalytic domain of the lysine-sensitive aspartokinase isoenzyme AKIII; Region: ACT_AKiii-LysC-EC_2; cd04917 316385012541 dimer interface [polypeptide binding]; other site 316385012542 glucose-6-phosphate isomerase; Reviewed; Region: pgi; PRK00179 316385012543 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 316385012544 active site 316385012545 dimer interface [polypeptide binding]; other site 316385012546 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 316385012547 dimer interface [polypeptide binding]; other site 316385012548 active site 316385012549 Protein of unknown function (DUF2886); Region: DUF2886; pfam11102 316385012550 Capsule biosynthesis GfcC; Region: Caps_synth_GfcC; pfam06251 316385012551 Bacterial putative lipoprotein (DUF940); Region: DUF940; pfam06082 316385012552 phosphate-starvation-inducible protein PsiE; Provisional; Region: PRK02833 316385012553 D-xylose transporter XylE; Provisional; Region: xylE; PRK10077 316385012554 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 316385012555 putative substrate translocation pore; other site 316385012556 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 316385012557 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 316385012558 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 316385012559 dimer interface [polypeptide binding]; other site 316385012560 conserved gate region; other site 316385012561 putative PBP binding loops; other site 316385012562 ABC-ATPase subunit interface; other site 316385012563 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 316385012564 dimer interface [polypeptide binding]; other site 316385012565 conserved gate region; other site 316385012566 putative PBP binding loops; other site 316385012567 ABC-ATPase subunit interface; other site 316385012568 maltose ABC transporter periplasmic protein; Reviewed; Region: malE; PRK09474 316385012569 Domain of unknown function (DUF4179); Region: DUF4179; pfam13786 316385012570 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 316385012571 maltose/maltodextrin transporter ATP-binding protein; Provisional; Region: PRK11000 316385012572 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 316385012573 Walker A/P-loop; other site 316385012574 ATP binding site [chemical binding]; other site 316385012575 Q-loop/lid; other site 316385012576 ABC transporter signature motif; other site 316385012577 Walker B; other site 316385012578 D-loop; other site 316385012579 H-loop/switch region; other site 316385012580 TOBE domain; Region: TOBE_2; pfam08402 316385012581 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 316385012582 trimer interface; other site 316385012583 sugar binding site [chemical binding]; other site 316385012584 maltose regulon periplasmic protein; Provisional; Region: PRK10564 316385012585 Pentapeptide repeats containing protein [Function unknown]; Region: COG1357 316385012586 SopA-like central domain; Region: SopA; pfam13981 316385012587 chorismate pyruvate lyase; Provisional; Region: ubiC; PRK11655 316385012588 4-hydroxybenzoate octaprenyltransferase; Reviewed; Region: ubiA; PRK12848 316385012589 UbiA prenyltransferase family; Region: UbiA; pfam01040 316385012590 glycerol-3-phosphate O-acyltransferase; Region: plsB; TIGR03703 316385012591 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: GPAT-like; Region: LPLAT_DHAPAT-like; cd07993 316385012592 putative acyl-acceptor binding pocket; other site 316385012593 Diacylglycerol kinase [Cell envelope biogenesis, outer membrane]; Region: DgkA; COG0818 316385012594 LexA repressor; Validated; Region: PRK00215 316385012595 LexA DNA binding domain; Region: LexA_DNA_bind; pfam01726 316385012596 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 316385012597 Catalytic site [active] 316385012598 DNA-damage-inducible SOS response protein; Provisional; Region: PRK10367 316385012599 DinF and similar proteins, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_DinF_like; cd13136 316385012600 hypothetical protein; Provisional; Region: PRK10428 316385012601 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 316385012602 metal binding site 2 [ion binding]; metal-binding site 316385012603 putative DNA binding helix; other site 316385012604 metal binding site 1 [ion binding]; metal-binding site 316385012605 dimer interface [polypeptide binding]; other site 316385012606 structural Zn2+ binding site [ion binding]; other site 316385012607 Protein of unknown function (DUF2713); Region: DUF2713; pfam10897 316385012608 tRNA-dihydrouridine synthase A; Provisional; Region: PRK11815 316385012609 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 316385012610 FMN binding site [chemical binding]; other site 316385012611 active site 316385012612 catalytic residues [active] 316385012613 substrate binding site [chemical binding]; other site 316385012614 phage shock protein G; Reviewed; Region: pspG; PRK09459 316385012615 quinone oxidoreductase, NADPH-dependent; Provisional; Region: PRK10754 316385012616 Quinone oxidoreductase (QOR); Region: QOR2; cd05286 316385012617 NADP binding site [chemical binding]; other site 316385012618 dimer interface [polypeptide binding]; other site 316385012619 replicative DNA helicase; Provisional; Region: PRK08006 316385012620 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 316385012621 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 316385012622 Walker A motif; other site 316385012623 ATP binding site [chemical binding]; other site 316385012624 Walker B motif; other site 316385012625 DNA binding loops [nucleotide binding] 316385012626 alanine racemase; Reviewed; Region: alr; PRK00053 316385012627 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, Proteobacterial Alanine Racemases; Region: PLPDE_III_AR_proteobact; cd06827 316385012628 active site 316385012629 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 316385012630 substrate binding site [chemical binding]; other site 316385012631 catalytic residues [active] 316385012632 dimer interface [polypeptide binding]; other site 316385012633 aromatic amino acid aminotransferase; Provisional; Region: PRK09257 316385012634 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 316385012635 pyridoxal 5'-phosphate binding site [chemical binding]; other site 316385012636 homodimer interface [polypeptide binding]; other site 316385012637 catalytic residue [active] 316385012638 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 316385012639 active site 316385012640 motif I; other site 316385012641 motif II; other site 316385012642 secondary thiamine-phosphate synthase enzyme; Region: TIGR00149_YjbQ 316385012643 Uncharacterized protein conserved in bacteria [Function unknown]; Region: MmcQ; COG2315 316385012644 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 316385012645 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 316385012646 dimer interface [polypeptide binding]; other site 316385012647 ssDNA binding site [nucleotide binding]; other site 316385012648 tetramer (dimer of dimers) interface [polypeptide binding]; other site 316385012649 Replication protein A, class 2b aminoacyl-tRNA synthetases, and related proteins with oligonucleotide/oligosaccharide (OB) fold; Region: RPA_2b-aaRSs_OBF_like; cl09930 316385012650 DNA-binding transcriptional regulator SoxS; Provisional; Region: PRK10219 316385012651 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 316385012652 redox-sensitivie transcriptional activator SoxR; Provisional; Region: PRK15002 316385012653 Helix-Turn-Helix DNA binding domain of the SoxR transcription regulator; Region: HTH_SoxR; cd01110 316385012654 DNA binding residues [nucleotide binding] 316385012655 dimer interface [polypeptide binding]; other site 316385012656 [2Fe-2S] cluster binding site [ion binding]; other site 316385012657 Xanthine/uracil/vitamin C permease [Nucleotide transport and metabolism]; Region: COG2252 316385012658 Na+/H+ antiporter, bacterial form; Region: a_cpa1; TIGR00831 316385012659 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 316385012660 Pentapeptide repeats (9 copies); Region: Pentapeptide_4; pfam13599 316385012661 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 316385012662 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 316385012663 Predicted symporter [General function prediction only]; Region: DhlC; COG4147 316385012664 Uncharacterized bacterial solute carrier 5 subfamily; putative solute-binding domain; Region: SLC5sbd_u4; cd11480 316385012665 Na binding site [ion binding]; other site 316385012666 Predicted membrane protein [Function unknown]; Region: COG3162 316385012667 acetyl-CoA synthetase; Provisional; Region: PRK00174 316385012668 Acetyl-CoA synthetase (also known as acetate-CoA ligase and acetyl-activating enzyme); Region: ACS; cd05966 316385012669 active site 316385012670 CoA binding site [chemical binding]; other site 316385012671 acyl-activating enzyme (AAE) consensus motif; other site 316385012672 AMP binding site [chemical binding]; other site 316385012673 acetate binding site [chemical binding]; other site 316385012674 cytochrome c nitrite reductase subunit c552; Provisional; Region: nrfA; PRK11125 316385012675 cytochrome c nitrite reductase, Fe-S protein; Region: cyt_nit_nrfC; TIGR03149 316385012676 Formate-dependent nitrite reductase, membrane component [Inorganic ion transport and metabolism]; Region: NrfD; COG3301 316385012677 cytochrome c nitrite reductase, NrfD subunit; Region: cyt_nit_nrfD; TIGR03148 316385012678 heme lyase subunit NrfE; Provisional; Region: PRK10369 316385012679 formate-dependent nitrite reductase complex subunit NrfF; Provisional; Region: PRK10144 316385012680 formate-dependent nitrite reductase complex subunit NrfG; Provisional; Region: PRK10370 316385012681 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 316385012682 binding surface 316385012683 TPR motif; other site 316385012684 glutamate/aspartate:proton symporter; Provisional; Region: gltP; PRK11283 316385012685 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 316385012686 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 316385012687 Sel1-like repeats; Region: SEL1; smart00671 316385012688 formate dehydrogenase, alpha subunit, archaeal-type; Region: Fdh-alpha; TIGR01591 316385012689 Formate dehydrogenase H (Formate-Dh-H) catalyzes the reversible oxidation of formate to CO2 with the release of a proton and two electrons. It is a component of the anaerobic formate hydrogen lyase complex. The E. coli formate dehydrogenase H (Fdh-H) is...; Region: MopB_Formate-Dh-H; cd02753 316385012690 [4Fe-4S] binding site [ion binding]; other site 316385012691 molybdopterin cofactor binding site; other site 316385012692 Formate dehydrogenase H (Formate-Dh-H) catalyzes the reversible oxidation of formate to CO2 with the release of a proton and two electrons. It is a component of the anaerobic formate hydrogen lyase complex. The E. coli formate dehydrogenase H (Fdh-H) is...; Region: MopB_CT_Formate-Dh_H; cd02790 316385012693 molybdopterin cofactor binding site; other site 316385012694 putative outer membrane efflux protein MdtP; Provisional; Region: PRK09915 316385012695 multidrug efflux system protein MdtO; Provisional; Region: PRK11427 316385012696 Fusaric acid resistance protein-like; Region: FUSC_2; pfam13515 316385012697 multidrug resistance protein MdtN; Provisional; Region: PRK10476 316385012698 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 316385012699 HlyD family secretion protein; Region: HlyD_3; pfam13437 316385012700 Alkyl sulfatase and related hydrolases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG2015 316385012701 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 316385012702 D-allose kinase; Provisional; Region: PRK09698 316385012703 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 316385012704 nucleotide binding site [chemical binding]; other site 316385012705 Pentose-5-phosphate-3-epimerase [Carbohydrate transport and metabolism]; Region: Rpe; COG0036 316385012706 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 316385012707 substrate binding site [chemical binding]; other site 316385012708 hexamer interface [polypeptide binding]; other site 316385012709 metal binding site [ion binding]; metal-binding site 316385012710 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 316385012711 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 316385012712 TM-ABC transporter signature motif; other site 316385012713 D-allose transporter ATP-binding protein; Provisional; Region: PRK09700 316385012714 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 316385012715 Walker A/P-loop; other site 316385012716 ATP binding site [chemical binding]; other site 316385012717 Q-loop/lid; other site 316385012718 ABC transporter signature motif; other site 316385012719 Walker B; other site 316385012720 D-loop; other site 316385012721 H-loop/switch region; other site 316385012722 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 316385012723 D-allose transporter subunit; Provisional; Region: PRK09701 316385012724 Periplasmic allose-binding domain of bacterial transport systems that function as a primary receptor of active transport and chemotaxis; Region: PBP1_allose_binding; cd06320 316385012725 ligand binding site [chemical binding]; other site 316385012726 dimerization interface [polypeptide binding]; other site 316385012727 zinc binding site [ion binding]; other site 316385012728 DNA-binding transcriptional repressor RpiR; Provisional; Region: PRK11337 316385012729 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 316385012730 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 316385012731 putative active site [active] 316385012732 ribose 5-phosphate isomerase B; Region: rpiB; TIGR01120 316385012733 carbon-phosphorus lyase complex accessory protein; Provisional; Region: phnP; PRK11244 316385012734 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 316385012735 Coenzyme A binding pocket [chemical binding]; other site 316385012736 ribose 1,5-bisphosphokinase; Provisional; Region: PRK10078 316385012737 AAA domain; Region: AAA_18; pfam13238 316385012738 active site 316385012739 phosphonate metabolism protein PhnM; Provisional; Region: PRK15446 316385012740 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 316385012741 PhnM is believed to be a subunit of the membrane associated C-P lyase complex. C-P lyase is thought to catalyze the direct cleavage of inactivated C-P bonds to yield inorganic phosphate and the corresponding hydrocarbons. It is responsible for cleavage...; Region: PhnM; cd01306 316385012742 active site 316385012743 ABC-type phosphonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: PhnL; COG4778 316385012744 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 316385012745 Walker A/P-loop; other site 316385012746 ATP binding site [chemical binding]; other site 316385012747 Q-loop/lid; other site 316385012748 ABC transporter signature motif; other site 316385012749 Walker B; other site 316385012750 D-loop; other site 316385012751 H-loop/switch region; other site 316385012752 phosphonate C-P lyase system protein PhnK; Provisional; Region: phnK; PRK11701 316385012753 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 316385012754 Walker A/P-loop; other site 316385012755 ATP binding site [chemical binding]; other site 316385012756 Q-loop/lid; other site 316385012757 ABC transporter signature motif; other site 316385012758 Walker B; other site 316385012759 D-loop; other site 316385012760 H-loop/switch region; other site 316385012761 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 316385012762 Uncharacterized enzyme of phosphonate metabolism [Inorganic ion transport and metabolism]; Region: PhnJ; COG3627 316385012763 Uncharacterized enzyme of phosphonate metabolism [Inorganic ion transport and metabolism]; Region: PhnI; COG3626 316385012764 Uncharacterized enzyme of phosphonate metabolism [Inorganic ion transport and metabolism]; Region: PhnH; COG3625 316385012765 Phosphonate metabolism protein PhnG; Region: PhnG; pfam06754 316385012766 phosphonate metabolism transcriptional regulator PhnF; Provisional; Region: PRK10079 316385012767 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 316385012768 DNA-binding site [nucleotide binding]; DNA binding site 316385012769 UTRA domain; Region: UTRA; pfam07702 316385012770 phosphonate ABC transporter, periplasmic phosphonate binding protein; Region: PhnD; TIGR03431 316385012771 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 316385012772 substrate binding pocket [chemical binding]; other site 316385012773 membrane-bound complex binding site; other site 316385012774 hinge residues; other site 316385012775 phosphonate/organophosphate ester transporter subunit; Provisional; Region: PRK09984 316385012776 ATP-binding cassette domain of the binding protein-dependent phosphonate transport system; Region: ABC_PhnC_transporter; cd03256 316385012777 Walker A/P-loop; other site 316385012778 ATP binding site [chemical binding]; other site 316385012779 Q-loop/lid; other site 316385012780 ABC transporter signature motif; other site 316385012781 Walker B; other site 316385012782 D-loop; other site 316385012783 H-loop/switch region; other site 316385012784 Escherichia coli PhnB and similar proteins; the E. coli phnB gene is found next to an operon involved in the cleavage of carbon-phosphorus bonds in unactivated alkylphosphonates; Region: PhnB_like; cd06588 316385012785 dimer interface [polypeptide binding]; other site 316385012786 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 316385012787 hypothetical protein; Provisional; Region: PRK10220 316385012788 PhnA Zinc-Ribbon; Region: PhnA_Zn_Ribbon; pfam08274 316385012789 PhnA protein; Region: PhnA; pfam03831 316385012790 hypothetical protein; Provisional; Region: PRK09866 316385012791 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cl17170 316385012792 G1 box; other site 316385012793 GTP/Mg2+ binding site [chemical binding]; other site 316385012794 G2 box; other site 316385012795 Switch I region; other site 316385012796 G3 box; other site 316385012797 Switch II region; other site 316385012798 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cd00882 316385012799 G2 box; other site 316385012800 Switch I region; other site 316385012801 G3 box; other site 316385012802 Switch II region; other site 316385012803 G4 box; other site 316385012804 G5 box; other site 316385012805 YjcZ-like protein; Region: YjcZ; pfam13990 316385012806 proline/glycine betaine transporter; Provisional; Region: PRK10642 316385012807 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 316385012808 putative substrate translocation pore; other site 316385012809 Osmosensory transporter coiled coil; Region: Osmo_CC; pfam08946 316385012810 sensor protein BasS/PmrB; Provisional; Region: PRK10755 316385012811 HAMP domain; Region: HAMP; pfam00672 316385012812 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 316385012813 dimer interface [polypeptide binding]; other site 316385012814 phosphorylation site [posttranslational modification] 316385012815 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 316385012816 ATP binding site [chemical binding]; other site 316385012817 Mg2+ binding site [ion binding]; other site 316385012818 G-X-G motif; other site 316385012819 DNA-binding transcriptional regulator BasR; Provisional; Region: PRK10643 316385012820 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 316385012821 active site 316385012822 phosphorylation site [posttranslational modification] 316385012823 intermolecular recognition site; other site 316385012824 dimerization interface [polypeptide binding]; other site 316385012825 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 316385012826 DNA binding site [nucleotide binding] 316385012827 putative metal dependent hydrolase; Provisional; Region: PRK11598 316385012828 Domain of unknown function (DUF1705); Region: DUF1705; pfam08019 316385012829 Sulfatase; Region: Sulfatase; pfam00884 316385012830 arginine:agmatin antiporter; Provisional; Region: PRK10644 316385012831 DNA-binding transcriptional regulator MelR; Provisional; Region: PRK10371 316385012832 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 316385012833 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 316385012834 alpha-galactosidase; Provisional; Region: PRK15076 316385012835 Glycoside Hydrolases Family 4; Alpha-glucosidases and alpha-galactosidases; Region: GH4_alpha_glucosidase_galactosidase; cd05297 316385012836 NAD binding site [chemical binding]; other site 316385012837 sugar binding site [chemical binding]; other site 316385012838 divalent metal binding site [ion binding]; other site 316385012839 putative tetramer (dimer of dimers) interface [polypeptide binding]; other site 316385012840 dimer interface [polypeptide binding]; other site 316385012841 melibiose:sodium symporter; Provisional; Region: PRK10429 316385012842 sugar (Glycoside-Pentoside-Hexuronide) transporter; Region: gph; TIGR00792 316385012843 hypothetical protein; Provisional; Region: PRK09867 316385012844 fumarate hydratase; Provisional; Region: PRK15389 316385012845 Tartrate dehydratase alpha subunit/Fumarate hydratase class I, N-terminal domain [Energy production and conversion]; Region: TtdA; COG1951 316385012846 Fumarase C-terminus; Region: Fumerase_C; pfam05683 316385012847 Anaerobic C4-dicarboxylate transporter [General function prediction only]; Region: DcuB; COG2704 316385012848 anaerobic C4-dicarboxylate transporter; Reviewed; Region: PRK12489 316385012849 sensory histidine kinase DcuS; Provisional; Region: PRK11086 316385012850 PAS domain; Region: PAS; smart00091 316385012851 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 316385012852 ATP binding site [chemical binding]; other site 316385012853 Mg2+ binding site [ion binding]; other site 316385012854 G-X-G motif; other site 316385012855 Uncharacterized conserved protein [Function unknown]; Region: COG3592 316385012856 Predicted acetyltransferase [General function prediction only]; Region: COG2388 316385012857 Protein of unknown function (DUF2622); Region: DUF2622; pfam11080 316385012858 Protein of unknown function (DUF2566); Region: DUF2566; pfam10753 316385012859 lysyl-tRNA synthetase; Reviewed; Region: PRK12445 316385012860 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 316385012861 dimer interface [polypeptide binding]; other site 316385012862 putative anticodon binding site; other site 316385012863 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 316385012864 motif 1; other site 316385012865 active site 316385012866 motif 2; other site 316385012867 motif 3; other site 316385012868 Dipeptide/tripeptide permease [Amino acid transport and metabolism]; Region: PTR2; COG3104 316385012869 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 316385012870 putative substrate translocation pore; other site 316385012871 POT family; Region: PTR2; pfam00854 316385012872 lysine decarboxylase CadA; Provisional; Region: PRK15400 316385012873 Orn/Lys/Arg decarboxylase, N-terminal domain; Region: OKR_DC_1_N; pfam03709 316385012874 Ornithine decarboxylase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD corresponds to ornithine decarboxylase (ODC), arginine decarboxylase (ADC) and lysine...; Region: Orn_deC_like; cd00615 316385012875 homodimer interface [polypeptide binding]; other site 316385012876 pyridoxal 5'-phosphate binding site [chemical binding]; other site 316385012877 catalytic residue [active] 316385012878 Orn/Lys/Arg decarboxylase, C-terminal domain; Region: OKR_DC_1_C; pfam03711 316385012879 lysine/cadaverine antiporter; Provisional; Region: cadB; PRK10435 316385012880 DNA-binding transcriptional activator CadC; Provisional; Region: PRK10153 316385012881 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 316385012882 DNA binding site [nucleotide binding] 316385012883 putative transcriptional regulator; Provisional; Region: PRK11640 316385012884 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 316385012885 thiol:disulfide interchange protein precursor; Provisional; Region: dipZ; PRK00293 316385012886 Disulphide bond corrector protein DsbC; Region: DsbC; pfam11412 316385012887 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; cl15788 316385012888 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 316385012889 DsbD alpha interface [polypeptide binding]; other site 316385012890 catalytic residues [active] 316385012891 divalent-cation tolerance protein CutA; Provisional; Region: PRK10645 316385012892 Anaerobic C4-dicarboxylate transporter [General function prediction only]; Region: DcuB; COG2704 316385012893 anaerobic C4-dicarboxylate transporter; Reviewed; Region: PRK09412 316385012894 aspartate ammonia-lyase; Provisional; Region: aspA; PRK12273 316385012895 Aspartase; Region: Aspartase; cd01357 316385012896 active sites [active] 316385012897 tetramer interface [polypeptide binding]; other site 316385012898 Protein affecting phage T7 exclusion by the F plasmid [General function prediction only]; Region: FxsA; COG3030 316385012899 putative transporter; Provisional; Region: PRK11021 316385012900 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 316385012901 oligomerisation interface [polypeptide binding]; other site 316385012902 mobile loop; other site 316385012903 roof hairpin; other site 316385012904 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 316385012905 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 316385012906 ring oligomerisation interface [polypeptide binding]; other site 316385012907 ATP/Mg binding site [chemical binding]; other site 316385012908 stacking interactions; other site 316385012909 hinge regions; other site 316385012910 Domain of unknown function (DUF4156); Region: DUF4156; pfam13698 316385012911 elongation factor P; Validated; Region: PRK00529 316385012912 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 316385012913 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 316385012914 RNA binding site [nucleotide binding]; other site 316385012915 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 316385012916 RNA binding site [nucleotide binding]; other site 316385012917 entericidin A; Provisional; Region: PRK09810 316385012918 entericidin B membrane lipoprotein; Provisional; Region: PRK10081 316385012919 multidrug efflux system protein; Provisional; Region: PRK11431 316385012920 Bacterial lipocalin [Cell envelope biogenesis, outer membrane]; Region: Blc; COG3040 316385012921 Lipocalin-like domain; Region: Lipocalin_2; pfam08212 316385012922 beta-lactamase/D-alanine carboxypeptidase; Provisional; Region: ampC; PRK11289 316385012923 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 316385012924 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 316385012925 Iron-sulfur protein interface; other site 316385012926 proximal quinone binding site [chemical binding]; other site 316385012927 C-subunit interface; other site 316385012928 distal quinone binding site; other site 316385012929 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 316385012930 D-subunit interface [polypeptide binding]; other site 316385012931 Iron-sulfur protein interface; other site 316385012932 proximal quinone binding site [chemical binding]; other site 316385012933 distal quinone binding site [chemical binding]; other site 316385012934 fumarate reductase flavoprotein subunit; Validated; Region: PRK09231 316385012935 L-aspartate oxidase; Provisional; Region: PRK06175 316385012936 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 316385012937 poxB regulator PoxA; Provisional; Region: PRK09350 316385012938 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 316385012939 motif 1; other site 316385012940 dimer interface [polypeptide binding]; other site 316385012941 active site 316385012942 motif 2; other site 316385012943 motif 3; other site 316385012944 inner membrane transporter YjeM; Provisional; Region: PRK15238 316385012945 Protein of unknown function (DUF2645); Region: DUF2645; pfam10840 316385012946 putative mechanosensitive channel protein; Provisional; Region: PRK10929 316385012947 linker histone 1 and histone 5 domains; the basic subunit of chromatin is the nucleosome, consisting of an octamer of core histones, two full turns of DNA, a linker histone (H1 or H5) and a variable length of linker DNA; H1/H5 are chromatin-associated...; Region: H15; cl00073 316385012948 DNA-binding site [nucleotide binding]; DNA binding site 316385012949 Mechanosensitive ion channel inner membrane domain 1; Region: MscS_TM; pfam12794 316385012950 Mechanosensitive ion channel; Region: MS_channel; pfam00924 316385012951 phosphatidylserine decarboxylase; Reviewed; Region: psd; PRK00044 316385012952 GTPase RsgA; Reviewed; Region: PRK12288 316385012953 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 316385012954 RNA binding site [nucleotide binding]; other site 316385012955 Ribosomal interacting GTPase YjeQ/EngC, a circularly permuted subfamily of the Ras GTPases; Region: YjeQ_EngC; cd01854 316385012956 GTPase/Zn-binding domain interface [polypeptide binding]; other site 316385012957 GTP/Mg2+ binding site [chemical binding]; other site 316385012958 G4 box; other site 316385012959 G5 box; other site 316385012960 G1 box; other site 316385012961 Switch I region; other site 316385012962 G2 box; other site 316385012963 G3 box; other site 316385012964 Switch II region; other site 316385012965 DEDDh 3'-5' exonuclease domain of oligoribonuclease and similar proteins; Region: Orn; cd06135 316385012966 catalytic site [active] 316385012967 putative active site [active] 316385012968 putative substrate binding site [chemical binding]; other site 316385012969 dimer interface [polypeptide binding]; other site 316385012970 epoxyqueuosine reductase; Region: TIGR00276 316385012971 Domain of unknown function (DUF1730); Region: DUF1730; pfam08331 316385012972 putative carbohydrate kinase; Provisional; Region: PRK10565 316385012973 yjeF N-terminal region; Region: yjeF_nterm; TIGR00197 316385012974 B.subtilis YXKO protein of unknown function and related proteins. Based on the conservation of the ATP binding site, the substrate binding site and the Mg2+binding site and structural homology this group is a member of the ribokinase-like superfamily; Region: YXKO-related; cd01171 316385012975 putative substrate binding site [chemical binding]; other site 316385012976 putative ATP binding site [chemical binding]; other site 316385012977 ADP-binding protein; Provisional; Region: PRK10646 316385012978 N-acetylmuramoyl-l-alanine amidase II; Provisional; Region: PRK10431 316385012979 AMIN domain; Region: AMIN; pfam11741 316385012980 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 316385012981 active site 316385012982 metal binding site [ion binding]; metal-binding site 316385012983 DNA mismatch repair protein; Reviewed; Region: mutL; PRK00095 316385012984 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 316385012985 ATP binding site [chemical binding]; other site 316385012986 Mg2+ binding site [ion binding]; other site 316385012987 G-X-G motif; other site 316385012988 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 316385012989 ATP binding site [chemical binding]; other site 316385012990 MutL C terminal dimerisation domain; Region: MutL_C; pfam08676 316385012991 tRNA delta(2)-isopentenylpyrophosphate transferase; Reviewed; Region: miaA; PRK00091 316385012992 tRNA delta(2)-isopentenylpyrophosphate transferase [Translation, ribosomal structure and biogenesis]; Region: MiaA; COG0324 316385012993 bacterial Hfq-like; Region: Hfq; cd01716 316385012994 hexamer interface [polypeptide binding]; other site 316385012995 Sm1 motif; other site 316385012996 RNA binding site [nucleotide binding]; other site 316385012997 Sm2 motif; other site 316385012998 GTPase HflX; Provisional; Region: PRK11058 316385012999 GTP-binding GTPase N-terminal; Region: GTP-bdg_N; pfam13167 316385013000 HflX GTPase family; Region: HflX; cd01878 316385013001 G1 box; other site 316385013002 GTP/Mg2+ binding site [chemical binding]; other site 316385013003 Switch I region; other site 316385013004 G2 box; other site 316385013005 G3 box; other site 316385013006 Switch II region; other site 316385013007 G4 box; other site 316385013008 G5 box; other site 316385013009 FtsH protease regulator HflK; Provisional; Region: PRK10930 316385013010 Bacterial membrane protein N terminal; Region: HflK_N; pfam12221 316385013011 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 316385013012 FtsH protease regulator HflC; Provisional; Region: PRK11029 316385013013 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 316385013014 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3242 316385013015 Adenylosuccinate synthetase; Region: Adenylsucc_synt; smart00788 316385013016 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 316385013017 GDP-binding site [chemical binding]; other site 316385013018 ACT binding site; other site 316385013019 IMP binding site; other site 316385013020 Predicted transcriptional regulator [Transcription]; Region: COG1959 316385013021 transcriptional repressor NsrR; Provisional; Region: PRK11014 316385013022 exoribonuclease R; Provisional; Region: PRK11642 316385013023 Ribonuclease R winged-helix domain; Region: HTH_12; pfam08461 316385013024 Ribonuclease B OB domain; Region: OB_RNB; pfam08206 316385013025 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 316385013026 RNB domain; Region: RNB; pfam00773 316385013027 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 316385013028 RNA binding site [nucleotide binding]; other site 316385013029 23S rRNA (guanosine-2'-O-)-methyltransferase; Provisional; Region: PRK11181 316385013030 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; smart00967 316385013031 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 316385013032 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3789 316385013033 PspA/IM30 family; Region: PspA_IM30; pfam04012 316385013034 Protein of unknown function (DUF2491); Region: DUF2491; pfam10679 316385013035 Predicted membrane protein [Function unknown]; Region: COG3766 316385013036 Domain of Unknown Function (DUF350); Region: DUF350; pfam03994 316385013037 Domain of Unknown Function (DUF350); Region: DUF350; pfam03994 316385013038 Predicted integral membrane protein [Function unknown]; Region: COG5463 316385013039 Glutathionylspermidine synthase [Amino acid transport and metabolism]; Region: Gsp; COG0754 316385013040 isovaleryl CoA dehydrogenase; Provisional; Region: PRK11561 316385013041 Proteins involved in DNA damage response, similar to the AidB gene product; Region: AidB; cd01154 316385013042 FAD binding site [chemical binding]; other site 316385013043 substrate binding site [chemical binding]; other site 316385013044 catalytic residues [active] 316385013045 Protein of unknown function (DUF1471); Region: DUF1471; pfam07338 316385013046 putative biofilm stress and motility protein A; Provisional; Region: PRK14864 316385013047 esterase; Provisional; Region: PRK10566 316385013048 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 316385013049 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 316385013050 transcriptional repressor UlaR; Provisional; Region: PRK13509 316385013051 DeoR-like helix-turn-helix domain; Region: HTH_DeoR; pfam08220 316385013052 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 316385013053 putative L-ascorbate 6-phosphate lactonase; Provisional; Region: PRK11709 316385013054 Predicted Zn-dependent hydrolases of the beta-lactamase fold [General function prediction only]; Region: COG2220 316385013055 Uncharacterized protein conserved in bacteria [Function unknown]; Region: SgaT; COG3037 316385013056 PTS system ascorbate-specific transporter subunits IICB; Provisional; Region: PRK09548 316385013057 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 316385013058 active site 316385013059 P-loop; other site 316385013060 phosphorylation site [posttranslational modification] 316385013061 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 316385013062 active site 316385013063 phosphorylation site [posttranslational modification] 316385013064 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 316385013065 active site 316385013066 dimer interface [polypeptide binding]; other site 316385013067 magnesium binding site [ion binding]; other site 316385013068 L-xylulose 5-phosphate 3-epimerase; Reviewed; Region: PRK13209 316385013069 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 316385013070 AP (apurinic/apyrimidinic) site pocket; other site 316385013071 DNA interaction; other site 316385013072 Metal-binding active site; metal-binding site 316385013073 L-ribulose-5-phosphate 4-epimerase; Reviewed; Region: araD; PRK08193 316385013074 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 316385013075 intersubunit interface [polypeptide binding]; other site 316385013076 active site 316385013077 Zn2+ binding site [ion binding]; other site 316385013078 Protein of unknown function (DUF1471); Region: DUF1471; pfam07338 316385013079 30S ribosomal protein S6; Reviewed; Region: rpsF; PRK00453 316385013080 30S ribosomal protein S18; Reviewed; Region: rpsR; PRK00391 316385013081 50S ribosomal protein L9; Reviewed; Region: rplI; PRK00137 316385013082 Ribosomal protein L9, N-terminal domain; Region: Ribosomal_L9_N; pfam01281 316385013083 Ribosomal protein L9, C-terminal domain; Region: Ribosomal_L9_C; pfam03948 316385013084 Protein of unknown function (DUF2686); Region: DUF2686; pfam10887 316385013085 Cell envelope opacity-associated protein A [Cell envelope biogenesis, outer membrane]; Region: OapA; COG3061 316385013086 Opacity-associated protein A LysM-like domain; Region: OapA; pfam04225 316385013087 peptidyl-prolyl cis-trans isomerase; Provisional; Region: PRK11570 316385013088 Domain amino terminal to FKBP-type peptidyl-prolyl isomerase; Region: FKBP_N; pfam01346 316385013089 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 316385013090 D-alanine/D-serine/glycine permease; Provisional; Region: PRK11049 316385013091 iron-sulfur cluster repair di-iron protein; Provisional; Region: PRK10992 316385013092 Domain of Unknown function (DUF542); Region: ScdA_N; pfam04405 316385013093 Hemerythrin-like domain; Region: Hr-like; cd12108 316385013094 Fe binding site [ion binding]; other site 316385013095 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 316385013096 EamA-like transporter family; Region: EamA; pfam00892 316385013097 Predicted nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG0702 316385013098 triphenylmethane reductase (TMR)-like proteins, NMRa-like, atypical (a) SDRs; Region: TMR_SDR_a; cd05269 316385013099 NADP binding site [chemical binding]; other site 316385013100 Predicted transcriptional regulators [Transcription]; Region: COG1733 316385013101 HxlR-like helix-turn-helix; Region: HxlR; pfam01638 316385013102 bifunctional 2',3'-cyclic nucleotide 2'-phosphodiesterase/3'-nucleotidase periplasmic precursor protein; Reviewed; Region: cpdB; PRK09420 316385013103 Escherichia coli CpdB and related proteins, N-terminal metallophosphatase domain; Region: MPP_CpdB_N; cd07410 316385013104 active site 316385013105 metal binding site [ion binding]; metal-binding site 316385013106 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 316385013107 Predicted transcriptional regulator [General function prediction only]; Region: COG3054 316385013108 Protein of unknown function (DUF1107); Region: DUF1107; pfam06526 316385013109 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 316385013110 Domain of unknown function DUF21; Region: DUF21; pfam01595 316385013111 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 316385013112 Transporter associated domain; Region: CorC_HlyC; smart01091 316385013113 methionine sulfoxide reductase A; Provisional; Region: PRK00058 316385013114 Outer membrane protein [Cell envelope biogenesis, outer membrane]; Region: COG0729 316385013115 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 316385013116 Surface antigen; Region: Bac_surface_Ag; pfam01103 316385013117 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2911 316385013118 Family of unknown function (DUF490); Region: DUF490; pfam04357 316385013119 GGCT-like domains, also called AIG2-like family. Gamma-glutamyl cyclotransferase (GGCT) catalyzes the formation of pyroglutamic acid (5-oxoproline) from dipeptides containing gamma-glutamyl, and is a dimeric protein. In Homo sapiens, the protein is...; Region: GGCT_like; cd06661 316385013120 putative active site pocket [active] 316385013121 dimerization interface [polypeptide binding]; other site 316385013122 putative catalytic residue [active] 316385013123 hypothetical protein; Provisional; Region: PRK09719 316385013124 antitoxin ChpS; Provisional; Region: PRK11347 316385013125 toxin ChpB; Provisional; Region: PRK09812 316385013126 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 316385013127 dimer interface [polypeptide binding]; other site 316385013128 substrate binding site [chemical binding]; other site 316385013129 metal binding sites [ion binding]; metal-binding site 316385013130 Periplasmic binding domain of ABC-type YtfQ-like transport systems; Region: PBP1_YtfQ_like; cd06309 316385013131 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 316385013132 putative ligand binding site [chemical binding]; other site 316385013133 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 316385013134 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 316385013135 Walker A/P-loop; other site 316385013136 ATP binding site [chemical binding]; other site 316385013137 Q-loop/lid; other site 316385013138 ABC transporter signature motif; other site 316385013139 Walker B; other site 316385013140 D-loop; other site 316385013141 H-loop/switch region; other site 316385013142 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 316385013143 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 316385013144 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 316385013145 TM-ABC transporter signature motif; other site 316385013146 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 316385013147 AMP binding site [chemical binding]; other site 316385013148 metal binding site [ion binding]; metal-binding site 316385013149 active site 316385013150 UDP-N-acetylmuramate:L-alanyl-gamma-D-glutamyl- meso-diaminopimelate ligase; Region: mpl; TIGR01081 316385013151 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 316385013152 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 316385013153 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 316385013154 hypothetical protein; Provisional; Region: PRK05255 316385013155 peptidase PmbA; Provisional; Region: PRK11040 316385013156 cytochrome b562, truncated (pseudogene) 316385013157 anaerobic ribonucleoside-triphosphate reductase activating protein; Region: NrdG; TIGR02491 316385013158 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 316385013159 FeS/SAM binding site; other site 316385013160 anaerobic ribonucleoside triphosphate reductase; Provisional; Region: PRK09263 316385013161 ATP cone domain; Region: ATP-cone; pfam03477 316385013162 Class III ribonucleotide reductase; Region: RNR_III; cd01675 316385013163 effector binding site; other site 316385013164 active site 316385013165 Zn binding site [ion binding]; other site 316385013166 glycine loop; other site 316385013167 trehalose-6-phosphate hydrolase; Provisional; Region: PRK10933 316385013168 Alpha amylase catalytic domain found in Sucrose isomerases, oligo-1,6-glucosidase (also called isomaltase; sucrase-isomaltase; alpha-limit dextrinase), dextran glucosidase (also called glucan 1,6-alpha-glucosidase), and related proteins; Region: AmyAc_SI_OligoGlu_DGase; cd11333 316385013169 Ca binding site [ion binding]; other site 316385013170 active site 316385013171 catalytic site [active] 316385013172 PTS system trehalose(maltose)-specific transporter subunits IIBC; Provisional; Region: PRK11007 316385013173 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 316385013174 active site turn [active] 316385013175 phosphorylation site [posttranslational modification] 316385013176 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 316385013177 trehalose repressor; Provisional; Region: treR; PRK09492 316385013178 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 316385013179 DNA binding site [nucleotide binding] 316385013180 domain linker motif; other site 316385013181 Ligand-binding domain of DNA transcription repressor specific for trehalose (TreR) which is a member of the LacI-GalR family of bacterial transcription regulators; Region: PBP1_TreR_like; cd01542 316385013182 dimerization interface [polypeptide binding]; other site 316385013183 ligand binding site [chemical binding]; other site 316385013184 magnesium-transporting ATPase MgtA; Provisional; Region: PRK10517 316385013185 Cation transporter/ATPase, N-terminus; Region: Cation_ATPase_N; pfam00690 316385013186 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 316385013187 Putative hydrolase of sodium-potassium ATPase alpha subunit; Region: Hydrolase_like2; pfam13246 316385013188 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 316385013189 motif II; other site 316385013190 Cation transporting ATPase, C-terminus; Region: Cation_ATPase_C; pfam00689 316385013191 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 316385013192 homotrimer interaction site [polypeptide binding]; other site 316385013193 putative active site [active] 316385013194 aspartate carbamoyltransferase regulatory subunit; Reviewed; Region: PRK00893 316385013195 Aspartate carbamoyltransferase regulatory chain, allosteric domain; Region: PyrI; pfam01948 316385013196 Aspartate carbamoyltransferase regulatory chain, metal binding domain; Region: PyrI_C; pfam02748 316385013197 aspartate carbamoyltransferase; Region: asp_carb_tr; TIGR00670 316385013198 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 316385013199 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 316385013200 PyrBI operon leader peptide; Region: PyrBI_leader; pfam08052 316385013201 YjgH belongs 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 similarity and no...; Region: YjgH_like; cd02198 316385013202 homotrimer interaction site [polypeptide binding]; other site 316385013203 putative active site [active] 316385013204 oxidoreductase; Provisional; Region: PRK12742 316385013205 classical (c) SDRs; Region: SDR_c; cd05233 316385013206 NAD(P) binding site [chemical binding]; other site 316385013207 active site 316385013208 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 316385013209 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 316385013210 Beta-galactosidase, beta subunit [Carbohydrate transport and metabolism]; Region: EbgC; COG2731 316385013211 SopA-like central domain; Region: SopA; pfam13981 316385013212 ornithine carbamoyltransferase subunit I; Provisional; Region: PRK03515 316385013213 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 316385013214 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 316385013215 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3076 316385013216 RNase E inhibitor protein; Provisional; Region: PRK11191 316385013217 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 316385013218 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 316385013219 Coenzyme A binding pocket [chemical binding]; other site 316385013220 Predicted membrane protein [Function unknown]; Region: COG4269 316385013221 valyl-tRNA synthetase; Reviewed; Region: valS; PRK05729 316385013222 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 316385013223 HIGH motif; other site 316385013224 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 316385013225 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 316385013226 active site 316385013227 KMSKS motif; other site 316385013228 Anticodon-binding domain of valyl tRNA synthetases; Region: Anticodon_Ia_Val; cd07962 316385013229 tRNA binding surface [nucleotide binding]; other site 316385013230 anticodon binding site; other site 316385013231 Valyl tRNA synthetase tRNA binding arm; Region: Val_tRNA-synt_C; pfam10458 316385013232 DNA polymerase III subunit chi; Validated; Region: PRK05728 316385013233 multifunctional aminopeptidase A; Provisional; Region: PRK00913 316385013234 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 316385013235 interface (dimer of trimers) [polypeptide binding]; other site 316385013236 Substrate-binding/catalytic site; other site 316385013237 Zn-binding sites [ion binding]; other site 316385013238 lipopolysaccharide ABC transporter permease LptF; Provisional; Region: PRK15120 316385013239 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 316385013240 lipopolysaccharide ABC transporter permease; Provisional; Region: PRK15071 316385013241 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 316385013242 Bacterial protein of unknown function (DUF853); Region: DUF853; pfam05872 316385013243 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cl17189 316385013244 Walker A motif; other site 316385013245 ATP binding site [chemical binding]; other site 316385013246 gluconate operon transcriptional regulator; Provisional; Region: PRK14987 316385013247 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 316385013248 DNA binding site [nucleotide binding] 316385013249 domain linker motif; other site 316385013250 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 316385013251 putative dimerization interface [polypeptide binding]; other site 316385013252 putative ligand binding site [chemical binding]; other site 316385013253 fructuronate transporter; Provisional; Region: PRK10034; cl15264 316385013254 gluconate transporter; Region: gntP; TIGR00791 316385013255 gluconate 5-dehydrogenase; Provisional; Region: PRK08085 316385013256 gluconate 5-dehydrogenase (Ga5DH)-like, classical (c) SDRs; Region: Ga5DH-like_SDR_c; cd05347 316385013257 NADP binding site [chemical binding]; other site 316385013258 homodimer interface [polypeptide binding]; other site 316385013259 active site 316385013260 L-idonate 5-dehydrogenase; Provisional; Region: PRK09880 316385013261 L-idonate 5-dehydrogenase; Region: idonate-5-DH; cd08232 316385013262 putative NAD(P) binding site [chemical binding]; other site 316385013263 catalytic Zn binding site [ion binding]; other site 316385013264 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 316385013265 ATP-binding site [chemical binding]; other site 316385013266 Gluconate-6-phosphate binding site [chemical binding]; other site 316385013267 Shikimate kinase; Region: SKI; pfam01202 316385013268 Zn-dependent alcohol dehydrogenases [General function prediction only]; Region: AdhP; COG1064 316385013269 Cinnamyl alcohol dehydrogenases (CAD); Region: CAD1; cd05283 316385013270 putative NAD(P) binding site [chemical binding]; other site 316385013271 putative substrate binding site [chemical binding]; other site 316385013272 catalytic Zn binding site [ion binding]; other site 316385013273 structural Zn binding site [ion binding]; other site 316385013274 dimer interface [polypeptide binding]; other site 316385013275 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 316385013276 Integrase [DNA replication, recombination, and repair]; Region: XerC; COG0582 316385013277 active site 316385013278 Int/Topo IB signature motif; other site 316385013279 IS2 repressor TnpA; Reviewed; Region: PRK09413 316385013280 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 316385013281 IS2 transposase TnpB; Reviewed; Region: PRK09409 316385013282 HTH-like domain; Region: HTH_21; pfam13276 316385013283 Integrase core domain; Region: rve; pfam00665 316385013284 Integrase core domain; Region: rve_3; pfam13683 316385013285 IS66 C-terminal element; Region: DDE_Tnp_IS66_C; pfam13817 316385013286 Insertion element 4 transposase N-terminal; Region: Nterm_IS4; pfam13006 316385013287 FOG: Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3385 316385013288 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 316385013289 putative sialic acid transporter; Provisional; Region: PRK12307 316385013290 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 316385013291 putative substrate translocation pore; other site 316385013292 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 316385013293 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 316385013294 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 316385013295 KpLE2 phage-like element; predicted protein (pseudogene) 316385013296 KpLE2 phage-like element; predicted membrane protein (pseudogene) 316385013297 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 316385013298 Transposase; Region: HTH_Tnp_1; cl17663 316385013299 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 316385013300 Helix-turn-helix domain; Region: HTH_38; pfam13936 316385013301 Integrase core domain; Region: rve; pfam00665 316385013302 KpLE2 phage-like element; predicted transposase fragment (pseudogene) 316385013303 HTH-like domain; Region: HTH_21; pfam13276 316385013304 Integrase core domain; Region: rve; pfam00665 316385013305 Predicted dinucleotide-binding enzymes [General function prediction only]; Region: COG2085 316385013306 iron-dicitrate transporter ATP-binding subunit; Provisional; Region: fecE; PRK11231 316385013307 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 316385013308 Walker A/P-loop; other site 316385013309 ATP binding site [chemical binding]; other site 316385013310 Q-loop/lid; other site 316385013311 ABC transporter signature motif; other site 316385013312 Walker B; other site 316385013313 D-loop; other site 316385013314 H-loop/switch region; other site 316385013315 ABC-type enterobactin transport system, permease component [Inorganic ion transport and metabolism]; Region: FepG; COG4779 316385013316 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 316385013317 ABC-ATPase subunit interface; other site 316385013318 dimer interface [polypeptide binding]; other site 316385013319 putative PBP binding regions; other site 316385013320 ABC-type enterobactin transport system, permease component [Inorganic ion transport and metabolism]; Region: FepG; COG4779 316385013321 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 316385013322 dimer interface [polypeptide binding]; other site 316385013323 ABC-ATPase subunit interface; other site 316385013324 putative PBP binding regions; other site 316385013325 iron-dicitrate transporter substrate-binding subunit; Provisional; Region: fecB; PRK11411 316385013326 Fe3+-siderophore binding domain FhuD. These proteins have been shown to function as initial receptors in ABC transport of Fe3+-siderophores in many eubacterial species. They belong to the TroA-like superfamily of helical backbone metal receptor proteins...; Region: FhuD; cd01146 316385013327 siderophore binding site; other site 316385013328 Outer membrane receptor for Fe3+-dicitrate [Inorganic ion transport and metabolism]; Region: FecA; COG4772 316385013329 Secretin and TonB N terminus short domain; Region: STN; smart00965 316385013330 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 316385013331 N-terminal plug; other site 316385013332 ligand-binding site [chemical binding]; other site 316385013333 fec operon regulator FecR; Reviewed; Region: PRK09774 316385013334 FecR protein; Region: FecR; pfam04773 316385013335 RNA polymerase sigma factor FecI; Provisional; Region: PRK09651 316385013336 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 316385013337 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 316385013338 DNA binding residues [nucleotide binding] 316385013339 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3677 316385013340 InsA N-terminal domain; Region: Zn_Tnp_IS1; pfam03811 316385013341 InsA C-terminal domain; Region: HTH_Tnp_IS1; pfam12759 316385013342 Transcriptional regulator, contains sigma factor-related N-terminal domain [Transcription]; Region: DeoR; COG2390 316385013343 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 316385013344 DNA binding residues [nucleotide binding] 316385013345 Putative sugar-binding domain; Region: Sugar-bind; pfam04198 316385013346 gluconate transporter; Region: gntP; TIGR00791 316385013347 fructuronate transporter; Provisional; Region: PRK10034; cl15264 316385013348 putative dehydratase; Provisional; Region: PRK08211 316385013349 Dihydroxyacid dehydratase/phosphogluconate dehydratase [Amino acid transport and metabolism / Carbohydrate transport and metabolism]; Region: IlvD; COG0129 316385013350 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 316385013351 Dihydrodipicolinate synthase family; Region: DHDPS-like; cd00408 316385013352 inhibitor site; inhibition site 316385013353 active site 316385013354 dimer interface [polypeptide binding]; other site 316385013355 catalytic residue [active] 316385013356 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 316385013357 Transcriptional regulator [Transcription]; Region: IclR; COG1414 316385013358 Bacterial transcriptional regulator; Region: IclR; pfam01614 316385013359 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 316385013360 DeoR-like helix-turn-helix domain; Region: HTH_DeoR; pfam08220 316385013361 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 316385013362 Pentose-5-phosphate-3-epimerase [Carbohydrate transport and metabolism]; Region: Rpe; COG0036 316385013363 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 316385013364 substrate binding site [chemical binding]; other site 316385013365 hexamer interface [polypeptide binding]; other site 316385013366 metal binding site [ion binding]; metal-binding site 316385013367 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 316385013368 active site 316385013369 phosphorylation site [posttranslational modification] 316385013370 membrane complex biogenesis protein, BtpA family; Region: thylakoid_BtpA; TIGR00259 316385013371 Phosphotransferase system, galactitol-specific IIC component [Carbohydrate transport and metabolism]; Region: GatC; COG3775 316385013372 PTS system, galactitol-specific IIC component; Region: EIIC-GAT; TIGR00827 316385013373 PTS_IIB_galactitol: subunit IIB of enzyme II (EII) of the galactitol-specific phosphoenolpyruvate:carbohydrate phosphotransferase system (PTS). In this system, EII is a galactitol-specific permease with two cytoplasmic domains (IIA and IIB) and a...; Region: PTS_IIB_galactitol; cd05566 316385013374 active site 316385013375 P-loop; other site 316385013376 phosphorylation site [posttranslational modification] 316385013377 Cellulase M and related proteins [Carbohydrate transport and metabolism]; Region: FrvX; COG1363 316385013378 M42 Peptidase, Endoglucanases; Region: M42_Frv; cd05656 316385013379 oligomer interface [polypeptide binding]; other site 316385013380 active site 316385013381 metal binding site [ion binding]; metal-binding site 316385013382 Methyltransferase domain; Region: Methyltransf_31; pfam13847 316385013383 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 316385013384 S-adenosylmethionine binding site [chemical binding]; other site 316385013385 ribosomal-protein-alanine acetyltransferase; Region: rimI; TIGR01575 316385013386 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 316385013387 Coenzyme A binding pocket [chemical binding]; other site 316385013388 hypothetical protein; Provisional; Region: PRK13687 316385013389 KpLE2 phage-like element; helicase family C-terminal fragment 316385013390 Domain of unknown function (DUF303); Region: DUF303; pfam03629 316385013391 N-acetylneuraminic acid mutarotase; Provisional; Region: PRK14131 316385013392 Kelch motif; Region: Kelch_1; pfam01344 316385013393 Oligogalacturonate-specific porin protein (KdgM); Region: KdgM; cl11629 316385013394 phosphoglycerol transferase I (pseudogene); C-terminal 95 codons deleted by del(mrr-hsdRMS-mcrBC) 316385013395 hypothetical protein; Provisional; Region: PRK11667 316385013396 DNA replication protein DnaC; Validated; Region: PRK07952 316385013397 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 316385013398 Walker A motif; other site 316385013399 ATP binding site [chemical binding]; other site 316385013400 Walker B motif; other site 316385013401 primosomal protein DnaI; Provisional; Region: PRK02854 316385013402 hypothetical protein; Provisional; Region: PRK09917 316385013403 Uncharacterized conserved protein [Function unknown]; Region: COG2966 316385013404 Protein of unknown function (DUF1212); Region: DUF1212; pfam06738 316385013405 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 316385013406 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 316385013407 DNA binding residues [nucleotide binding] 316385013408 dimerization interface [polypeptide binding]; other site 316385013409 DNA-binding transcriptional activator BglJ; Provisional; Region: PRK11475 316385013410 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 316385013411 DNA binding residues [nucleotide binding] 316385013412 dimerization interface [polypeptide binding]; other site 316385013413 ferric iron reductase involved in ferric hydroximate transport; Provisional; Region: PRK10647 316385013414 Ferric iron reductase FhuF-like transporter; Region: FhuF; pfam06276 316385013415 FhuF 2Fe-2S C-terminal domain; Region: FhuF_C; pfam11575 316385013416 Protein of unknown function (DUF1435); Region: DUF1435; pfam07256 316385013417 16S ribosomal RNA m2G1207 methyltransferase; Provisional; Region: rsmC; PRK09489 316385013418 Methyltransferase small domain N-terminal; Region: MTS_N; pfam08468 316385013419 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 316385013420 S-adenosylmethionine binding site [chemical binding]; other site 316385013421 DNA polymerase III subunit psi; Validated; Region: PRK06856 316385013422 ribosomal-protein-alanine N-acetyltransferase; Provisional; Region: rimI; PRK09491 316385013423 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 316385013424 Coenzyme A binding pocket [chemical binding]; other site 316385013425 dUMP phosphatase; Provisional; Region: PRK09449 316385013426 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 316385013427 motif II; other site 316385013428 peptide chain release factor 3; Provisional; Region: prfC; PRK00741 316385013429 Release Factor 3 (RF3) protein involved in the terminal step of translocation in bacteria; Region: RF3; cd04169 316385013430 G1 box; other site 316385013431 putative GEF interaction site [polypeptide binding]; other site 316385013432 GTP/Mg2+ binding site [chemical binding]; other site 316385013433 Switch I region; other site 316385013434 G2 box; other site 316385013435 G3 box; other site 316385013436 Switch II region; other site 316385013437 G4 box; other site 316385013438 G5 box; other site 316385013439 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 316385013440 periplasmic protein; Provisional; Region: PRK10568 316385013441 BON domain; Region: BON; pfam04972 316385013442 BON domain; Region: BON; pfam04972 316385013443 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: COG4667 316385013444 Hypothetical patatin similar to yjju protein of Escherichia coli; Region: Pat_hypo_Ecoli_yjju_like; cd07208 316385013445 active site 316385013446 nucleophile elbow; other site 316385013447 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 316385013448 active site 316385013449 glycine radical enzyme activase, YjjW family; Region: activase_YjjW; TIGR04041 316385013450 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 316385013451 FeS/SAM binding site; other site 316385013452 hypothetical protein; Provisional; Region: PRK10977 316385013453 2-deoxyribose-5-phosphate aldolase (DERA) of the DeoC family; Region: DeoC; cd00959 316385013454 intersubunit interface [polypeptide binding]; other site 316385013455 active site 316385013456 catalytic residue [active] 316385013457 thymidine phosphorylase; Reviewed; Region: deoA; PRK05820 316385013458 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 316385013459 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 316385013460 Pyrimidine nucleoside phosphorylase C-terminal domain; Region: PYNP_C; pfam07831 316385013461 phosphopentomutase; Provisional; Region: PRK05362 316385013462 Metalloenzyme superfamily; Region: Metalloenzyme; pfam01676 316385013463 purine nucleoside phosphorylase; Reviewed; Region: deoD; PRK05819 316385013464 Uridine phosphorylase [Nucleotide transport and metabolism]; Region: Udp; COG2820 316385013465 putative DNA-binding transcriptional regulator; Provisional; Region: PRK09775 316385013466 HipA-like N-terminal domain; Region: HipA_N; pfam07805 316385013467 HipA-like C-terminal domain; Region: HipA_C; pfam07804 316385013468 lipoate-protein ligase A; Provisional; Region: lplA; PRK03822 316385013469 Lipoate-protein ligase A [Coenzyme metabolism]; Region: LplA; COG0095 316385013470 Bacterial lipoate protein ligase C-terminus; Region: Lip_prot_lig_C; pfam10437 316385013471 hypothetical protein; Provisional; Region: PRK11246 316385013472 phosphoserine phosphatase; Provisional; Region: serB; PRK11133 316385013473 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 316385013474 motif II; other site 316385013475 DNA repair protein RadA; Region: sms; TIGR00416 316385013476 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 316385013477 Walker A motif/ATP binding site; other site 316385013478 ATP binding site [chemical binding]; other site 316385013479 Walker B motif; other site 316385013480 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 316385013481 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 316385013482 non-specific DNA binding site [nucleotide binding]; other site 316385013483 salt bridge; other site 316385013484 bifunctional DNA-binding transcriptional repressor/ NMN adenylyltransferase; Provisional; Region: PRK08099 316385013485 sequence-specific DNA binding site [nucleotide binding]; other site 316385013486 Nicotinamide/nicotinate mononucleotide adenylyltransferase of bifunctional NadR-like proteins; Region: NMNAT_NadR; cd02167 316385013487 active site 316385013488 (T/H)XGH motif; other site 316385013489 Predicted ATPase/kinase involved in NAD metabolism [Coenzyme metabolism]; Region: NadR; COG3172 316385013490 putative ABC transporter ATP-binding protein; Reviewed; Region: PRK11819 316385013491 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 316385013492 Walker A/P-loop; other site 316385013493 ATP binding site [chemical binding]; other site 316385013494 Q-loop/lid; other site 316385013495 ABC transporter signature motif; other site 316385013496 Walker B; other site 316385013497 D-loop; other site 316385013498 H-loop/switch region; other site 316385013499 ABC transporter; Region: ABC_tran_2; pfam12848 316385013500 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 316385013501 lytic murein transglycosylase; Provisional; Region: PRK11619 316385013502 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 316385013503 N-acetyl-D-glucosamine binding site [chemical binding]; other site 316385013504 catalytic residue [active] 316385013505 Trp operon repressor; Provisional; Region: PRK01381 316385013506 inosine/xanthosine triphosphatase; Reviewed; Region: PRK05074 316385013507 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 316385013508 catalytic core [active] 316385013509 right oriC-binding transcriptional activator; Provisional; Region: PRK15121 316385013510 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 316385013511 GyrI-like small molecule binding domain; Region: GyrI-like; pfam06445 316385013512 hypothetical protein; Provisional; Region: PRK10756 316385013513 CreA protein; Region: CreA; pfam05981 316385013514 DNA-binding response regulator CreB; Provisional; Region: PRK11083 316385013515 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 316385013516 active site 316385013517 phosphorylation site [posttranslational modification] 316385013518 intermolecular recognition site; other site 316385013519 dimerization interface [polypeptide binding]; other site 316385013520 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 316385013521 DNA binding site [nucleotide binding] 316385013522 sensory histidine kinase CreC; Provisional; Region: PRK11100 316385013523 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 316385013524 dimerization interface [polypeptide binding]; other site 316385013525 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 316385013526 dimer interface [polypeptide binding]; other site 316385013527 phosphorylation site [posttranslational modification] 316385013528 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 316385013529 ATP binding site [chemical binding]; other site 316385013530 Mg2+ binding site [ion binding]; other site 316385013531 G-X-G motif; other site 316385013532 Inner membrane protein involved in colicin E2 resistance [Defense mechanisms]; Region: CreD; COG4452 316385013533 two-component response regulator; Provisional; Region: PRK11173 316385013534 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 316385013535 active site 316385013536 phosphorylation site [posttranslational modification] 316385013537 intermolecular recognition site; other site 316385013538 dimerization interface [polypeptide binding]; other site 316385013539 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 316385013540 DNA binding site [nucleotide binding] 316385013541 putative RNA methyltransferase; Provisional; Region: PRK10433 316385013542 RNA methyltransferase, TrmH family, group 1; Region: rRNA_methyl_1; TIGR00050